LOCUS DS928991 279600 bp DNA linear CON 26-JUL-2016 DEFINITION Ixodes scapularis 1108463015148 genomic scaffold, whole genome shotgun sequence. ACCESSION DS928991 ABJB010000000 VERSION DS928991.1 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 279600) 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and Strausberg,R. CONSRTM Ixodes scapularis Genome Project Consortium TITLE Annotation of Ixodes scapularis JOURNAL Unpublished REFERENCE 2 (bases 1 to 279600) AUTHORS Nene,V. CONSRTM Ixodes scapularis Genome Project Consortium TITLE Direct Submission JOURNAL Submitted (18-MAR-2008) J.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..279600 /organism="Ixodes scapularis" /mol_type="genomic DNA" /strain="Wikel colony" /db_xref="taxon:6945" /dev_stage="embryonated eggs" gap 2571..4450 /estimated_length=1880 gap 8402..8833 /estimated_length=432 gap 18047..18183 /estimated_length=137 gap 18902..20427 /estimated_length=1526 gap 26247..26911 /estimated_length=665 gap 28145..32454 /estimated_length=4310 gap 36243..52108 /estimated_length=15866 gap 53357..54099 /estimated_length=743 gap 55008..56694 /estimated_length=1687 gene 60904..63667 /locus_tag="IscW_ISCW013037" /db_xref="VectorBase:ISCW013037" mRNA join(60904..60942,61761..61938,62713..62849,63589..63667) /locus_tag="IscW_ISCW013037" /product="ribosomal protein S26, putative" /note="transcript IscW_ISCW013037-RA" /db_xref="VectorBase:ISCW013037-RA" /db_xref="VectorBase:ISCW013037" CDS join(60940..60942,61761..61938,62713..62849,63589..63633) /locus_tag="IscW_ISCW013037" /note="encoded by transcript IscW_ISCW013037-RA" /codon_start=1 /product="ribosomal protein S26, putative" /protein_id="EEC17806.1" /db_xref="VectorBase:ISCW013037-PA" /db_xref="VectorBase:ISCW013037" /translation="MTAKRRNNGRSKHGRGHVKPVRCTNCARCVPKDKSIKKFVIRNI VEAAAVRDITVASVYETYPLPKLYAKLHYCVSCAIHSKIVRNRSKEARKDRAPPPRFP RATADLARGPNAPRVAVK" gap 64406..64740 /estimated_length=335 gene complement(<71891..>72721) /locus_tag="IscW_ISCW013038" /db_xref="VectorBase:ISCW013038" mRNA complement(<71891..>72721) /locus_tag="IscW_ISCW013038" /product="hypothetical protein" /note="transcript IscW_ISCW013038-RA" /db_xref="VectorBase:ISCW013038-RA" /db_xref="VectorBase:ISCW013038" CDS complement(71891..72721) /locus_tag="IscW_ISCW013038" /note="encoded by transcript IscW_ISCW013038-RA" /codon_start=1 /product="hypothetical protein" /protein_id="EEC17807.1" /db_xref="VectorBase:ISCW013038-PA" /db_xref="VectorBase:ISCW013038" /translation="MPAEYSGCGGSFPATMHPSQADTSRPCCYASHSCRHASATDGLT PAAFDGFEASSSATTYLSCIDTSTDTCYVRRPRKESSGDRVFVAGGNVGSQSHSHTSV TNGYGYVLATGAFGTRLPPLRQWGCDCGSLQTSYSRHHIHNVRVDSYCRAFISKCTGI IFSSVPSSVLRAPKKPPQKSPPQLSWFVFSTSTGRLIVVVSKGCKSTRYVAAFFVERR WSFVSTNRRRQRGSFSFCNYSSSDSRRALHAAIAASVPLRPTFVQTYSRLYRRTQRCD " gene complement(<72941..>145653) /locus_tag="IscW_ISCW013039" /db_xref="VectorBase:ISCW013039" mRNA complement(join(<72941..73111,73595..73774,78200..78451, 78849..78989,79841..80068,80916..81109,82403..82782, 87008..87149,89769..89958,92009..92204,93129..93286, 94225..94296,96466..96573,103939..104092,105630..105727, 115302..115503,116182..116258,116351..116402, 119404..119532,120482..120708,132682..132960, 135129..135608,138008..138201,138952..139143, 143067..143321,145620..>145653)) /locus_tag="IscW_ISCW013039" /product="huntingtin interacting protein, putative" /note="transcript IscW_ISCW013039-RA" /db_xref="VectorBase:ISCW013039-RA" /db_xref="VectorBase:ISCW013039" CDS complement(join(72941..73111,73595..73774,78200..78451, 78849..78989,79841..80068,80916..81109,82403..82782, 87008..87149,89769..89958,92009..92204,93129..93286, 94225..94296,96466..96573,103939..104092,105630..105727, 115302..115503,116182..116258,116351..116402, 119404..119532,120482..120708,132682..132960, 135129..135608,138008..138201,138952..139143, 143067..143321,145620..145653)) /locus_tag="IscW_ISCW013039" /EC_number="3.4.21.72" /EC_number="2.1.1.43" /EC_number="2.3.1.48" /note="encoded by transcript IscW_ISCW013039-RA; Gene spans sequencing gaps and may be missing exons." /codon_start=1 /product="huntingtin interacting protein, putative" /protein_id="EEC17808.1" /db_xref="VectorBase:ISCW013039-PA" /db_xref="VectorBase:ISCW013039" /translation="MVRLPSFWGSSVAGSAPAKNCVVVVSVNHGASEDSDHEVLAEDL AAEEVATTMEVVTMEVETTVEEEDGGRSADSGSTQDDSSFTSATDSQASSNDGLTVKR RRGRPLKGSQSPKVSGAKTMESAASSKAPATRRSVRLRSGDGQRSSSPTPAAAKRGRR MMTEPVEEEVCTLGEVEEEEKKMSEEETKVEATNAGQVTDVVMEEQRGDQKEVVMRLE PLLDTEKRREDRLKSDCSDSSPESFPASRVEVKEEDEVVAVTESGTAEPLQPRAHPES ETVSEVEAPPQPEQPVSPKPELSDTSEPKLTSQPTEPKTTSEPAVEPTEKPVAVVETA EHTTTDESKKIRDSKMGEKGPDLEAEEVRAVSADHRDRRYYSSPEKPTVSQDEAPARV LTPRSARRKSRWEDAPPNDVSEPAVAALDFSDASMALRDGHAEGAGASTYDTGGAEGV ALPPPPPPRTTSPQRKEGAVDASGRPEKPTDTRPARAYDAKEDTKRNSTLSREETREK TPPSTPSRESRDRESRESGRGGESSREKGSPSRSLAYEDIEENLYRKKSKCKKEVRRM ICDCSLTKDERDRGIMGCEEDCLNRLLMIECGSRCPNGDSCSNRRFQKKSYIKVEKFL TEKKGWGLRTVETLASGAFVMEYVGEVLTPEDFRKRVKQYARDNHQHYYFMALRSDEI IDATQKGNVSRFINHSCDPNCETQKWTVNGELRIGFFTRRPLRAGEELTFDYQFQRYG KEAQKCYCESSKCRGFIGEDNKMSLKSGRALAPKRVSNSSSRRAEERKRDIRLGGGLR NRKHTLLLARLMVRGEDIETRKRLLNIITSTTETACLRLFLDYHGLSLLWSWMLERAT SRRGHPQILTVLRRLPIPNKTMVKDSKVMSVVHRWASQLAEARERPRECTTPASGASR RSLTGAVVCSPDSTNPVENGDSAERPKGPADDGGKVVKELSQLASTLLDSWSELKEVF RIPRLEQQKRREDEREADRKEREHNRQQRSRESSSSAASGRDSRRRGSPPSSGRDRRD HRDYDRSSDRRRYSASPEHRDDKKSYQRSSDGRSSRSGDPAPSSSSKPRKTLLPTPPR LSKEERRQLFALEVQQRDQEEALRRQYLAPPANGANPAPPMPGASFLPPPGMAQAPPP GVVPALVASGPPPQQNPLFVYDPATAAAVAAAMYGAQPPPGPAYYDPRAGMPPQEYVM QHNTMLGGIPPQQQPQPPHQGMPMGAPLLPAGAMLPGQQQMGPMGTLGPPLPMEESSN QLPPQHAAINYQALSAAVAAVSNLQPRVPSPAAPPPEASIFLTDPMQIPLPPSLSPDT GEVTPQNPDPLSSPPPFEEEEAIAVAQGGFPDASSAEARGAPTQRAPLEYEQIPRVAP SPVQEQTQQVVYPPAQHTPPTSMPYAPPGAMVAATAAPVPAGLFQANPQPMGPYGPGY VAAGPGQPMGAVQGMAQALPQGMPQVYYLPPIPAHAIPAEQPSKKKTLTAAADTSEVA KKIKELFRSKISSHIVHCLNPFRKPDCKLGRIQSTEDFKHLARKLTHFVMAKELKHCK NVEDLECNDNVKHKAKEFVHKYMAKYGPLFYKKDKAVSPKDE" gap 77001..77514 /estimated_length=514 gap 87817..88825 /estimated_length=1009 gap 91256..91625 /estimated_length=370 gap 100847..100866 /estimated_length=20 gap 101951..103774 /estimated_length=1824 gap 106183..106638 /estimated_length=456 gap 108725..109803 /estimated_length=1079 gap 117232..118993 /estimated_length=1762 gap 121847..121866 /estimated_length=20 gap 123787..124259 /estimated_length=473 gap 126285..126304 /estimated_length=20 gap 129555..130199 /estimated_length=645 gap 131678..131697 /estimated_length=20 gap 146262..147700 /estimated_length=1439 gap 148595..148614 /estimated_length=20 gap 154212..154572 /estimated_length=361 gap 156396..157993 /estimated_length=1598 gap 159180..159609 /estimated_length=430 gap 175936..175955 /estimated_length=20 gene <178702..>183495 /locus_tag="IscW_ISCW013040" /db_xref="VectorBase:ISCW013040" mRNA join(<178702..179007,180090..180270,182132..>183495) /locus_tag="IscW_ISCW013040" /product="conserved hypothetical protein" /note="transcript IscW_ISCW013040-RA" /db_xref="VectorBase:ISCW013040-RA" /db_xref="VectorBase:ISCW013040" CDS join(<178702..179007,180090..180270,182132..183495) /locus_tag="IscW_ISCW013040" /note="encoded by transcript IscW_ISCW013040-RA; Gene spans sequencing gaps and may be missing exons." /codon_start=1 /product="conserved hypothetical protein" /protein_id="EEC17809.1" /db_xref="VectorBase:ISCW013040-PA" /db_xref="VectorBase:ISCW013040" /translation="FAMADEKGYFLELSSNPIRFEPVSKITNVFFDDANQQVFAVRSG GATGVVVKGPDDSKSTDFSMDDKGDVISIKFSPDLKILAIQRSQKSVEFVNFSGSVDS RNEGMTFQKGEVPIVRDSIIIFISFNICCVAFLKRFKVPTRSHTHHSSCFGGDQSGNF SLGNILHPFQFKPGIATRLPKFEVDLPIIPKPPRVCLLERDVTAAVLYGKCAIVVLRH QARTSVGGAGAEIVVYTLQKEGPPRKTDLLKLDTSGRFAVNVVDSLIIVHHQASKRSM LFDIRIPGISDGFVSHHRPVVPASPIKPFKLKVPMVPNNSLEEVSYELYSPNWVVFQP NIVIDAKIGCLWYVQLSLEPLLAHFDDKRKLVDFLLQRSNSKEVLLGVCRRLLAKGSE LPLEQLADVFDKLAAKEGCVEPSDMYAHVFSEFADEAEDRHHFVVSTLVEYIRSLVEH RVAVPYCLNELLINVLVRNRRFHQLHQFLQYHVLTDTKPLACLLLSLHTLYPPATQLA LDMLKRLGTANEEIVEVLLSQHKVLSAIRFVQNTGGTDAISARKFLEAARSHDDDTVF YAVFKFFEHRNVALRGKPEFAKGEHCEQYVKHFETLYGEPTATATTAAAT" gap 179051..179070 /estimated_length=20 gap 182096..182115 /estimated_length=20 gap 183509..183528 /estimated_length=20 gene 184147..184219 /locus_tag="IscW_ISCW013041" /db_xref="VectorBase:ISCW013041" tRNA 184147..184219 /locus_tag="IscW_ISCW013041" /product="tRNA-Pro" /note="anticodon GGG" /db_xref="VectorBase:ISCW013041-RA" /db_xref="VectorBase:ISCW013041" gap 185516..187045 /estimated_length=1530 gene complement(<187387..>201746) /locus_tag="IscW_ISCW013042" /db_xref="VectorBase:ISCW013042" mRNA complement(join(<187387..187638,201510..>201746)) /locus_tag="IscW_ISCW013042" /product="NADH-plastoquinone oxidoreductase, putative" /note="transcript IscW_ISCW013042-RA" /db_xref="VectorBase:ISCW013042-RA" /db_xref="VectorBase:ISCW013042" CDS complement(join(187387..187638,201510..201746)) /locus_tag="IscW_ISCW013042" /EC_number="1.6.5.3" /note="encoded by transcript IscW_ISCW013042-RA; Gene spans sequencing gaps and may be missing exons." /codon_start=1 /product="NADH-plastoquinone oxidoreductase, putative" /protein_id="EEC17810.1" /db_xref="VectorBase:ISCW013042-PA" /db_xref="VectorBase:ISCW013042" /translation="MPGRMSAALLHRLLGPRVAKGAAAAVQLRLNASKASSSEPAVQS GQTTPAVRPYSPFKPTNTVEYALARADDLLNWGRKVYDQMLEPRWVISMGSCANGGGY YHYSYSVVRGCDRIIPVDIYVPGETASAVSMCLRCGFWRSLARSEVVGSSSFGRSNSG GE" gap 189414..198127 /estimated_length=8714 gap 199519..200018 /estimated_length=500 gene <203839..>204009 /locus_tag="IscW_ISCW013043" /db_xref="VectorBase:ISCW013043" mRNA <203839..>204009 /locus_tag="IscW_ISCW013043" /product="hypothetical protein" /note="transcript IscW_ISCW013043-RA" /db_xref="VectorBase:ISCW013043-RA" /db_xref="VectorBase:ISCW013043" CDS 203839..204009 /locus_tag="IscW_ISCW013043" /note="encoded by transcript IscW_ISCW013043-RA" /codon_start=1 /product="hypothetical protein" /protein_id="EEC17811.1" /db_xref="VectorBase:ISCW013043-PA" /db_xref="VectorBase:ISCW013043" /translation="MGDSTDGGLSTPSRLQAKCASKAVAFVIKHSQKGIVSLCTNIAT IMEERDRSGGLA" gap 204940..204959 /estimated_length=20 gap 211805..212376 /estimated_length=572 gap 219643..219662 /estimated_length=20 gene complement(<225321..>256187) /locus_tag="IscW_ISCW013044" /db_xref="VectorBase:ISCW013044" mRNA complement(join(<225321..225437,226192..226303, 226772..227072,228970..229141,230928..231019, 231424..231577,238597..238738,240211..240396, 240700..240830,244033..244162,244298..244402, 244474..244525,245245..245395,247769..247852, 250497..250601,254152..254268,255359..255523, 256050..>256187)) /locus_tag="IscW_ISCW013044" /product="embryonic/neonatal myosin heavy chain, putative" /note="transcript IscW_ISCW013044-RA" /db_xref="VectorBase:ISCW013044-RA" /db_xref="VectorBase:ISCW013044" CDS complement(join(<225321..225437,226192..226303, 226772..227072,228970..229141,230928..231019, 231424..231577,238597..238738,240211..240396, 240700..240830,244033..244162,244298..244402, 244474..244525,245245..245395,247769..247852, 250497..250601,254152..254268,255359..255523, 256050..256187)) /locus_tag="IscW_ISCW013044" /note="encoded by transcript IscW_ISCW013044-RA; Gene spans sequencing gaps and may be missing exons." /codon_start=1 /product="embryonic/neonatal myosin heavy chain, putative" /protein_id="EEC17812.1" /db_xref="VectorBase:ISCW013044-PA" /db_xref="VectorBase:ISCW013044" /translation="MFSGPRKRPVNSIDCRCLVKDYEKRPLMSDLMSHKFIQQVPKHP EEIRQELVRILRAQHKVGFCKRLPEVTTKHGQLKTDRKSRPQPILMDDLSALETLTEE IIVDQLYQRYMRCQIYTYIGDILLAMNPFQKLPIYSEEASLKYRNRAKLDNPPHIFAV ADSSYHNMLHQKRNQCIVISGESGAGKTESANFLLRQLVALGKATNRNLEDKILQVNP IMEAFGNARTGINDNSSRFGKFLDLTFTEQGKITGGKLSVYLLEQSRVVWQASHERNF HIFYYLYDGLADIRQLGTYFLDTTGRRQHSFFFFLFCRRYLQGAASDKETASANVDKF NNIKQGFQLLGFRTAETETIYRILAAIIHLGDIEVRAAESNFQNDTCVITNAEKIPLG AHALRDALASSSLVMRGEVITRCNSAQEAESARDSMAKALYARLFDWIVNQTNRHLSL GRIAIGLPLSVALLDIFGFEDLQKNSFEQLCINIANEQIQFFFNQHVFAWEQQEYLNE GLSVQPISFGDNRPVLDMFLGRPLGLLALLDEESHFPSATDQSLIADKFHNNIKSKYY LRPKSNALQFTIRHHAGKVLYDARSFVEKNRNFLPTEIVQLLRQSKLPVVQTLFQSPL TKTGQLYTPSQYTCQNVTLNQSRAHPTQMSAQSLVSQAKALQTTTTSFRFSLMDLLQK MSAGLPHFVRCLKPNDHRVAAGFSREKVLRQLRYTGVLETIYIRQQGFSHRYSFVELL KRYCFLAFSFNEKVIANRENCHLLLSRLKMDDYAIGKSKVFLKYYHVEYLSRLYEQQV RKIVVVQAAVRRWLAKRQVQ" gap 248370..249686 /estimated_length=1317 gap 251071..253898 /estimated_length=2828 gap 257041..258075 /estimated_length=1035 gap 259909..260374 /estimated_length=466 gap 265318..266372 /estimated_length=1055 gap 268208..278232 /estimated_length=10025 CONTIG join(ABJB010479418.1:1..2570,gap(1880), complement(ABJB010997880.1:1..3951),gap(432), ABJB010720214.1:1..9213,gap(137), complement(ABJB010041111.1:1..718),gap(1526), ABJB010398078.1:1..5819,gap(665), complement(ABJB010401181.1:1..1233),gap(4310), ABJB010913365.1:1..3788,gap(15866), complement(ABJB010391340.1:1..1248),gap(743), ABJB010753100.1:1..908,gap(1687), complement(ABJB010150297.1:1..7711),gap(335), ABJB010492793.1:1..12260,gap(514),ABJB010289719.1:1..10302, gap(1009),ABJB010989021.1:1..2430,gap(370),ABJB010605501.1:1..9221, gap(20),ABJB010709925.1:1..1084,gap(1824),ABJB010741622.1:1..2408, gap(456),ABJB010114352.1:1..2086,gap(1079),ABJB011016565.1:1..7428, gap(1762),ABJB010038922.1:1..2853,gap(20),ABJB010342411.1:1..1920, gap(473),complement(ABJB010387149.1:1..2025),gap(20), ABJB010186947.1:1..3250,gap(645),ABJB011123113.1:1..1478,gap(20), ABJB010378910.1:1..14564,gap(1439), complement(ABJB010606754.1:1..894),gap(20),ABJB010481838.1:1..5597, gap(361),complement(ABJB010716891.1:1..1823),gap(1598), complement(ABJB010725072.1:1..1186),gap(430), ABJB010148477.1:1..16326,gap(20), complement(ABJB010709286.1:1..3095),gap(20), complement(ABJB010246435.1:1..3025),gap(20), complement(ABJB010671627.1:1..1393),gap(20), complement(ABJB010692532.1:1..1987),gap(1530), ABJB010699001.1:1..2368,gap(8714),ABJB010953398.1:1..1391,gap(500), ABJB010736204.1:1..4921,gap(20),ABJB010713233.1:1..6845,gap(572), ABJB010720152.1:1..7266,gap(20),ABJB011096926.1:1..28707,gap(1317), ABJB011108912.1:1..1384,gap(2828),ABJB010353636.1:1..3142, gap(1035),ABJB011133774.1:1..1833,gap(466), complement(ABJB010590135.1:1..4943),gap(1055), ABJB010641125.1:1..1835,gap(10025), complement(ABJB010860790.1:1..1368)) //