LOCUS       DS749465              185773 bp    DNA     linear   CON 26-JUL-2016
DEFINITION  Ixodes scapularis 1108462640120 genomic scaffold, whole genome
            shotgun sequence.
ACCESSION   DS749465 ABJB010000000
VERSION     DS749465.1
DBLINK      BioProject: PRJNA16232
            BioSample: SAMN03004382
KEYWORDS    WGS.
SOURCE      Ixodes scapularis (black-legged tick)
  ORGANISM  Ixodes scapularis
            Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Chelicerata; Arachnida;
            Acari; Parasitiformes; Ixodida; Ixodoidea; Ixodidae; Ixodinae;
            Ixodes.
REFERENCE   1  (bases 1 to 185773)
  AUTHORS   Caler,E., Hannick,L.I., Bidwell,S., Joardar,V., Thiagarajan,M.,
            Amedeo,P., Galinsky,K.J., Schobel,S., Inman,J., Hostetler,J.,
            Miller,J., Hammond,M., Megy,K., Lawson,D., Kodira,C., Sutton,G.,
            Meyer,J., Hill,C.A., Birren,B., Nene,V., Collins,F.,
            Alarcon-Chaidez,F., Wikel,S. and Strausberg,R.
  CONSRTM   Ixodes scapularis Genome Project Consortium
  TITLE     Annotation of Ixodes scapularis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 185773)
  AUTHORS   Nene,V.
  CONSRTM   Ixodes scapularis Genome Project Consortium
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAR-2008) J. Craig Venter Institute, 9704 Medical
            Center Drive, Rockville, MD 20850, USA
COMMENT     
            This Wikel tick colony was established in 1996 using field
            collected ticks from New York, Oklahoma and a Lyme Disease endemic
            area of Connecticut.  This colony has been continuously in-bred
            since establishment and has not been supplemented with field
            collected material.  The colony is known to be a competent vector
            of various Borrelia and Babesia isolates. Genomic DNA was prepared
            from embryonated eggs.
            
            The Ixodes scapularis Genome Project (IGP) is a community-based
            effort initiated in early 2004 to sequence the I. scapularis
            genome.  The IGP is funded by the National Institute of Allergy and
            Infectious Diseases (NIAID)/National Institute of Health as part of
            the NIAID-funded Microbial Sequencing Centers (MSCs) at The J.
            Craig Venter Institute (http://www.jcvi.org) and The Broad
            Institute (http://www.broad.mit.edu/).  The genome sequencing was
            performed at both MSCs and the assembly at JCVI. The sum of all
            reads equals 6X based on an estimated genome size of 2.1 Gbp, while
            the coverage on assembled contigs is 3.8X.  The scaffolds are
            comprised of 570637 contigs; the other 570958 contigs in the 01
            version of this project represent degenerate contigs that were not
            incorporated into scaffolds.  The annotation for this assembly will
            be produced jointly by the MSCs and VectorBase
            (http://www.vectorbase.org).  Data release and use follow NIAID
            guidelines
            (http://www.niaid.nih.gov/dmid/genomes/mscs/data_release.htm).
            
            VectorBase (www.vectorbase.org), a NIAID Bioinformatics Resource
            Center, is responsible for the long-term curation of the assembled
            genome sequence  and its annotation.  For more information, contact
            info@vectorbase.org.
            Assembly name: JCVI_ISG_i3_1.0
            Coverage: 3.8x on assembled contigs; 6x based on an estimated
            genome size of 2.1 Gbp
            Annotation was added to the scaffolds in December 2008.
FEATURES             Location/Qualifiers
     source          1..185773
                     /organism="Ixodes scapularis"
                     /mol_type="genomic DNA"
                     /strain="Wikel colony"
                     /db_xref="taxon:6945"
                     /dev_stage="embryonated eggs"
     gene            complement(<971..>23332)
                     /locus_tag="IscW_ISCW006321"
                     /db_xref="VectorBase:ISCW006321"
     mRNA            complement(join(<971..996,1069..1231,1746..1812,
                     4796..5075,5489..5574,6183..6283,6507..6780,19293..19402,
                     20220..20482,21588..21730,22824..>23332))
                     /locus_tag="IscW_ISCW006321"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006321-RA"
                     /db_xref="VectorBase:ISCW006321-RA"
                     /db_xref="VectorBase:ISCW006321"
     CDS             complement(join(971..996,1069..1231,1746..1812,4796..5075,
                     5489..5574,6183..6283,6507..6780,19293..19402,
                     20220..20482,21588..21730,22824..23332))
                     /locus_tag="IscW_ISCW006321"
                     /note="encoded by transcript IscW_ISCW006321-RA;
                     Gene spans sequencing gaps and may be missing exons."
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07954.1"
                     /db_xref="VectorBase:ISCW006321-PA"
                     /db_xref="VectorBase:ISCW006321"
                     /translation="MQDELPFAEFLSAAVELTRSARPPDSVTAAYLLTFLSGFKVAGP
                     VVRKLSRLLTSELAPQTSCSLLQIPQQAPDVSSETSEALQETSSGALSETTLRTPFKS
                     RCLHLLADAAFRKDCGDDGLLWMAILLLSELESQLEVARGNLLEASSSGPLYGVMISL
                     RTLLRKVSWRNLSTSDVKIWKTVLDCSVSLAFGVAEVVSPVVTNASPEGQLDVQGDPG
                     MLERMQAALQKGLGRRFDVVQGAHREGGTGVTEIDAVKSTAVAAQMLLLCGWRAHREV
                     SLLFGELCEGCPFGDVSDDSKQCLLSVDQVLKIGSFFMEQMSSIRHRGAFEQAYTAFQ
                     KLCQMLWRVLGSSRFPVLLLLSRLFPSVVEGGFRLDAFVPHVVRCSRSPSWKVRALAA
                     RAVVPLVAPAERREFLLGAILSLPGATCPPENNAVHGTLLQVLQIVNHSRDFFAEQDF
                     VDSVCCRLEEKVWLASGCNPCLATRAAYLSVVLACSRSLLEKFALSRSIASKLIRAVL
                     PDITPTQRHAVATCEEFFTATAHEVLLELGLQHPSLFSPEATSYFQFLLCALSSRSQE
                     ARFVTLQFVKRATVQRICDACLREHTKQSLLDLSCNIAEQMIHSHIMDDVVGLPEKMA
                     VQRWTLELLNCSEPTQDLAMRVTASRGLGLLVKTVVSESKQVNKICSTL"
     gap             2638..3484
                     /estimated_length=847
     gap             7881..8002
                     /estimated_length=122
     gene            8330..8411
                     /locus_tag="IscW_ISCW006322"
                     /db_xref="VectorBase:ISCW006322"
     tRNA            8330..8411
                     /locus_tag="IscW_ISCW006322"
                     /product="tRNA-Ser"
                     /note="anticodon AGA"
                     /db_xref="VectorBase:ISCW006322-RA"
                     /db_xref="VectorBase:ISCW006322"
     gap             10104..11568
                     /estimated_length=1465
     gap             13449..14219
                     /estimated_length=771
     gap             16157..18725
                     /estimated_length=2569
     gene            complement(<25811..>29782)
                     /locus_tag="IscW_ISCW006323"
                     /db_xref="VectorBase:ISCW006323"
     mRNA            complement(join(<25811..25936,26029..26136,27825..27943,
                     28038..28113,28941..29078,29621..>29782))
                     /locus_tag="IscW_ISCW006323"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006323-RA"
                     /db_xref="VectorBase:ISCW006323-RA"
                     /db_xref="VectorBase:ISCW006323"
     CDS             complement(join(25811..25936,26029..26136,27825..27943,
                     28038..28113,28941..29078,29621..29782))
                     /locus_tag="IscW_ISCW006323"
                     /note="encoded by transcript IscW_ISCW006323-RA"
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07955.1"
                     /db_xref="VectorBase:ISCW006323-PA"
                     /db_xref="VectorBase:ISCW006323"
                     /translation="MALFLMDLPWHRKGKYDTLGYIAELMGCERLLKLRPQLVSGLLS
                     AAEEPAMCSYVKDLVQKLGLLHKSEVSAAEFERAWLDPFLESTREPFRQLSVPLFQHV
                     LPALITVHPGTTQFVFGKLSEGGGDFVPAILKCLLLDRPLIEAGDLERWRNVIDQGMC
                     HKNVQLVNRIYDSNTLLRRQLRKGDPSKPNPLGLELFEAHQEFISWLLRTAIDQLYPG
                     ANFCRRSTAVEILCLLATTQCTKG"
     gap             31867..32551
                     /estimated_length=685
     gap             37117..37157
                     /estimated_length=41
     gap             38289..42053
                     /estimated_length=3765
     gap             44056..45153
                     /estimated_length=1098
     gene            complement(<50746..>50904)
                     /locus_tag="IscW_ISCW006324"
                     /db_xref="VectorBase:ISCW006324"
     mRNA            complement(<50746..>50904)
                     /locus_tag="IscW_ISCW006324"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006324-RA"
                     /db_xref="VectorBase:ISCW006324-RA"
                     /db_xref="VectorBase:ISCW006324"
     CDS             complement(50746..50904)
                     /locus_tag="IscW_ISCW006324"
                     /note="encoded by transcript IscW_ISCW006324-RA"
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07956.1"
                     /db_xref="VectorBase:ISCW006324-PA"
                     /db_xref="VectorBase:ISCW006324"
                     /translation="MKSEGAKDFAKLGRERCEGFINGFLPQRGFCIFFVYWDGFLRSS
                     VFTLIILR"
     gene            complement(<51029..>51226)
                     /locus_tag="IscW_ISCW006325"
                     /db_xref="VectorBase:ISCW006325"
     mRNA            complement(<51029..>51226)
                     /locus_tag="IscW_ISCW006325"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006325-RA"
                     /db_xref="VectorBase:ISCW006325-RA"
                     /db_xref="VectorBase:ISCW006325"
     CDS             complement(51029..51226)
                     /locus_tag="IscW_ISCW006325"
                     /note="encoded by transcript IscW_ISCW006325-RA"
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07957.1"
                     /db_xref="VectorBase:ISCW006325-PA"
                     /db_xref="VectorBase:ISCW006325"
                     /translation="MRKDLWTNKRNQGVLGSGKLSKRPTEEDRTISLYASIVSCCFFL
                     PCPFLPDEAGFDLTLCFVCVL"
     gene            complement(<51361..>60611)
                     /locus_tag="IscW_ISCW006326"
                     /db_xref="VectorBase:ISCW006326"
     mRNA            complement(join(<51361..51523,54580..54857,60609..>60611))
                     /locus_tag="IscW_ISCW006326"
                     /product="actin depolymerizing factor, putative"
                     /note="transcript IscW_ISCW006326-RA"
                     /db_xref="VectorBase:ISCW006326-RA"
                     /db_xref="VectorBase:ISCW006326"
     CDS             complement(join(51361..51523,54580..54857,60609..60611))
                     /locus_tag="IscW_ISCW006326"
                     /note="encoded by transcript IscW_ISCW006326-RA"
                     /codon_start=1
                     /product="actin depolymerizing factor, putative"
                     /protein_id="EEC07958.1"
                     /db_xref="VectorBase:ISCW006326-PA"
                     /db_xref="VectorBase:ISCW006326"
                     /translation="MSSGVTVSNEAKTVYEEVKKDKKYRYIIYHIKDEKVIDVESTGP
                     RNATYSEFLEELQKFKNECRYCVFDFPVPVRAEGASESGMSVDRLILMTWCPESSKIK
                     MKMLYSSSYDALKKALVGIYRYVQACDFEEASKATIDSCFKCGNK"
     gene            complement(<60630..>109114)
                     /locus_tag="IscW_ISCW006327"
                     /db_xref="VectorBase:ISCW006327"
     mRNA            complement(join(<60630..60776,76273..76392,76754..76804,
                     81158..81211,82552..82720,86064..86194,87982..88074,
                     90244..90345,99201..99397,108946..>109114))
                     /locus_tag="IscW_ISCW006327"
                     /product="protein phosphatase 2A B56 regulatory subunit
                     gamma 3 isoform, putative"
                     /note="transcript IscW_ISCW006327-RA"
                     /db_xref="VectorBase:ISCW006327-RA"
                     /db_xref="VectorBase:ISCW006327"
     CDS             complement(join(60630..60776,76273..76392,76754..76804,
                     81158..81211,82552..82720,86064..86194,87982..88074,
                     90244..90345,99201..99397,108946..109114))
                     /locus_tag="IscW_ISCW006327"
                     /note="encoded by transcript IscW_ISCW006327-RA;
                     Gene spans sequencing gaps and may be missing exons."
                     /codon_start=1
                     /product="protein phosphatase 2A B56 regulatory subunit
                     gamma 3 isoform, putative"
                     /protein_id="EEC07959.1"
                     /db_xref="VectorBase:ISCW006327-PA"
                     /db_xref="VectorBase:ISCW006327"
                     /translation="MSAHSGSHPVSSSATFVDKIDPFKKGSLKRKQRKSQGSSRYRSA
                     NDVELQPLPLLKDVASGEQEELLIRKLRQCSVVFDFMDPVADIKGKEIKRATLNELVD
                     YITAGRGVLTESVYPEIIRMISSNLFRTLPPSENPDFDPEEDDPTLEASWPHLQLVYE
                     FFLRFLESPDFQPSIGKKVIDQKFVLQLLELFDSEDPRERDFLKTVLHRIYGKFLGLR
                     AFIRKQINNIFLRFIYETEHFNGVGELLEILGSIINGFALPLKAEHKQFLVKVLIPLH
                     KPKCLGLYHAQLAYCVVQFLEKDATLTEQVMKGLLKFWPKTCSQKEVMFLGEIEEILD
                     VIEPTQFAKIEEALFKQISKCVCSPHFQRRRVCRAEGYIPNVKPISSTTPFPSASERR
                     PSVKIRRWCGYAQLLSSH"
     gap             63825..64011
                     /estimated_length=187
     gap             66865..66979
                     /estimated_length=115
     gap             71971..72114
                     /estimated_length=144
     gap             74309..74632
                     /estimated_length=324
     gap             84149..84859
                     /estimated_length=711
     gap             88100..88255
                     /estimated_length=156
     gap             91303..92356
                     /estimated_length=1054
     gap             94684..95416
                     /estimated_length=733
     gap             96638..97145
                     /estimated_length=508
     gene            <114042..>114209
                     /locus_tag="IscW_ISCW006328"
                     /db_xref="VectorBase:ISCW006328"
     mRNA            <114042..>114209
                     /locus_tag="IscW_ISCW006328"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006328-RA"
                     /db_xref="VectorBase:ISCW006328-RA"
                     /db_xref="VectorBase:ISCW006328"
     CDS             114042..114209
                     /locus_tag="IscW_ISCW006328"
                     /note="encoded by transcript IscW_ISCW006328-RA"
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07960.1"
                     /db_xref="VectorBase:ISCW006328-PA"
                     /db_xref="VectorBase:ISCW006328"
                     /translation="MLVLQIVMGSPRSLNLRNIVWHGFVTPREVDRRFVNVRRVSCGT
                     ANARAAERFHG"
     gap             116512..119403
                     /estimated_length=2892
     gap             122363..122382
                     /estimated_length=20
     gap             124020..124039
                     /estimated_length=20
     gap             125784..128066
                     /estimated_length=2283
     gap             130537..130556
                     /estimated_length=20
     gene            <138867..>140836
                     /locus_tag="IscW_ISCW006329"
                     /db_xref="VectorBase:ISCW006329"
     mRNA            join(<138867..138907,140602..>140836)
                     /locus_tag="IscW_ISCW006329"
                     /product="hypothetical protein"
                     /note="transcript IscW_ISCW006329-RA"
                     /db_xref="VectorBase:ISCW006329-RA"
                     /db_xref="VectorBase:ISCW006329"
     CDS             join(138867..138907,140602..140836)
                     /locus_tag="IscW_ISCW006329"
                     /note="encoded by transcript IscW_ISCW006329-RA"
                     /codon_start=1
                     /product="hypothetical protein"
                     /protein_id="EEC07961.1"
                     /db_xref="VectorBase:ISCW006329-PA"
                     /db_xref="VectorBase:ISCW006329"
                     /translation="MTTLDALQYEKLVRLLKTTLKFSENFGTLTSSSKNRWDECCQLC
                     CDHVDNALRTLSDGQMSLFSGLVTKTTLSIETGLRNFTGDNADLLTI"
     gap             147632..151881
                     /estimated_length=4250
     gap             152663..153011
                     /estimated_length=349
     gene            complement(<154321..>163280)
                     /locus_tag="IscW_ISCW006330"
                     /db_xref="VectorBase:ISCW006330"
     mRNA            complement(join(<154321..154649,163115..>163280))
                     /locus_tag="IscW_ISCW006330"
                     /product="conserved hypothetical protein"
                     /note="transcript IscW_ISCW006330-RA"
                     /db_xref="VectorBase:ISCW006330-RA"
                     /db_xref="VectorBase:ISCW006330"
     CDS             complement(join(<154321..154649,163115..>163280))
                     /locus_tag="IscW_ISCW006330"
                     /note="encoded by transcript IscW_ISCW006330-RA;
                     Gene spans sequencing gaps and may be missing exons."
                     /codon_start=1
                     /product="conserved hypothetical protein"
                     /protein_id="EEC07962.1"
                     /db_xref="VectorBase:ISCW006330-PA"
                     /db_xref="VectorBase:ISCW006330"
                     /translation="LYYTNIMDTVVTLIVPFILIVIMNFMIGRALYLFTTRRRLQRLN
                     SSQLDTTGMDVATMSGGSPIPSPRHQLASSMNGAAPHPRDRVLMHPSQISVSKMLFLV
                     CTVFIILNLPSYVVRIHVFALSISDQPVPGHVFLLQRYFMLLYYTNFAVNFILYNVGS
                     RIFRR"
     gap             158962..159729
                     /estimated_length=768
     gap             161337..161356
                     /estimated_length=20
     gap             162524..162943
                     /estimated_length=420
     gap             164849..167284
                     /estimated_length=2436
     gap             168519..171345
                     /estimated_length=2827
     gap             173288..180709
                     /estimated_length=7422
     gap             182200..184482
                     /estimated_length=2283
CONTIG      join(ABJB010932820.1:1..2637,gap(847),ABJB010651411.1:1..4396,
            gap(122),ABJB011024399.1:1..2101,gap(1465),ABJB010376109.1:1..1880,
            gap(771),ABJB011093657.1:1..1937,gap(2569),
            ABJB010774875.1:1..13141,gap(685),ABJB010956239.1:1..4565,gap(41),
            ABJB010496109.1:1..1131,gap(3765),ABJB010465710.1:1..2002,
            gap(1098),ABJB011044580.1:1..18671,gap(187),
            ABJB010253823.1:1..2853,gap(115),
            complement(ABJB010421427.1:1..4991),gap(144),
            ABJB010093139.1:1..2194,gap(324),ABJB010731842.1:1..9516,gap(711),
            ABJB010699454.1:1..3240,gap(156),ABJB010464659.1:1..3047,gap(1054),
            ABJB010789842.1:1..2327,gap(733),ABJB010768685.1:1..1221,gap(508),
            ABJB010280928.1:1..19366,gap(2892),ABJB010011930.1:1..2959,gap(20),
            ABJB010040682.1:1..1637,gap(20),
            complement(ABJB010301623.1:1..1744),gap(2283),
            complement(ABJB010311096.1:1..2470),gap(20),
            ABJB011125320.1:1..17075,gap(4250),
            complement(ABJB010035782.1:1..781),gap(349),
            ABJB010213477.1:1..5950,gap(768),ABJB010610464.1:1..1607,gap(20),
            ABJB010738297.1:1..1167,gap(420),ABJB010928590.1:1..1905,gap(2436),
            ABJB010151694.1:1..1234,gap(2827),ABJB010034034.1:1..1942,
            gap(7422),ABJB010867055.1:1..1490,gap(2283),
            complement(ABJB010336037.1:1..1291))
//