LOCUS ABJB010636263 7672 bp DNA linear INV 29-FEB-2008 DEFINITION Ixodes scapularis strain Wikel colony gcontig_1107728767738, whole genome shotgun sequence. ACCESSION ABJB010636263 ABJB010000000 VERSION ABJB010636263.1 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 7672) AUTHORS Ayllon,N., Villar,M., Galindo,R.C., Kocan,K.M., Sima,R., Lopez,J.A., Vazquez,J., Alberdi,P., Cabezas-Cruz,A., Kopacek,P. and de la Fuente,J. TITLE Systems Biology of Tissue-Specific Response to Anaplasma phagocytophilum Reveals Differentiated Apoptosis in the Tick Vector Ixodes scapularis JOURNAL PLoS Genet. 11 (3), E1005120 (2015) PUBMED 25815810 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7672) AUTHORS Nene,V. CONSRTM Ixodes scapularis Genome Project TITLE Direct Submission JOURNAL Submitted (11-DEC-2007) J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA REFERENCE 3 (bases 1 to 7672) AUTHORS Nene,V. CONSRTM Ixodes scapularis Genome Project TITLE Direct Submission JOURNAL Submitted (21-FEB-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 genome of Ixodes scapularis Wikel strain has been sequenced to approximately 6x coverage in a joint effort by the Broad Institute and The J. Craig Venter Institute (JCVI) and funded by the National Institute of Allergy and Infectious Diseases, National Institutes of Health. Assembly was performed at JCVI and consists of 369,492 scaffolds built from 570,637 contigs with an estimated 3.8x coverage of the assembly. The other 570958 contigs in the 01 version of this project represent degenerate contigs that were not incorporated into scaffolds. The first public assembly is deposited as JCVI_ISG_i3_1.0 and has the VectorBase Designation IscaW1. Additional information about the Ixodes scapularis sequencing project and assembly can be found at http://iscapularis.vectorbase.org/ and http://msc.jcvi.org/i_scapularis/. The annotation for this assembly was produced in a joint effort between JCVI and VectorBase with support from The Broad Institute of Harvard/MIT. A total of 18,385 scaffolds were annotated, containing 20,486 protein coding genes, and 4,439 non-coding RNA genes. Computational annotation methods were optimized with respect to training data sets resulting in a high confidence set of predicted gene models making extensive use of protein and/or EST supporting evidence. Long-term curation of the sequence and subsequent annotation updates will be the responsibility of VectorBase at http://www.vectorbase.org. Assembly name: JCVI_ISG_i3_1.0 Genome 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. The VEuPathDB Bioinformatics Resource Center (www.veupathdb.org) is responsible for the assembled genome sequence and its annotation as of March 2022. Annotation and related data can be viewed and updated at http://veupathdb.org and inquiries can be sent to help@veupathdb.org. ##Genome-Assembly-Data-START## Assembly Method :: unknown v. before 2008 Assembly Name :: JCVI_ISG_i3_1.0 Genome Coverage :: 6x Sequencing Technology :: Sanger ##Genome-Assembly-Data-END## FEATURES Location/Qualifiers source 1..7672 /organism="Ixodes scapularis" /mol_type="genomic DNA" /strain="Wikel colony" /db_xref="taxon:6945" /dev_stage="embryonated eggs" BASE COUNT 2107 a 1818 c 1732 g 2015 t ORIGIN 1 gagaacgggc tcaaatgaaa tgataaagtg aaatgcattc tcctaataaa gtggtcgtcg 61 ctgtgtgcta gtttcctttt aggatctata tccttttttg ttttctatta gctttaagat 121 ggagtgcagc cacctggtgg ctccttgtcg tgacgtagta tcaagtatca cgtgaccgct 181 tttctgcttc gttggacagt atgtaagttg aggtgtatcg ttcacaattc atgtttgatt 241 ggtcaatttt aacgagagtt atttcgctgt acttctcgtc aaaattgagc tcaagcagcg 301 cgacaacagt ggcgtcgcga tctacggaac aggactcagt gactatactc gtggagggaa 361 ccgcatccat cgtttcaact actcacacac agaccacagc cctacgcgcc gctacaacgg 421 aaattcaaag cgaagaacaa ctggcgacgg cagaaaggca acatgagcac ccctgcgttc 481 caccgcgccg cgccgcaccc cctcctatat aacaaagtcg cagtgctaaa tgagatgtct 541 tcatcagaga aggccagcgc tgggcacaga ttgtacacga cgattgcgtc aacgtttgcc 601 tcgaacttga ttcgaagcct gagtcaggct tcgagtcaag acgtagcact cgttcaaatt 661 tgtgttcagc gttggccttc tctgatgacg ccatcttatt cagcgctacg gctttgttat 721 gtggaaggtg ttgcgcggcg cctcctcctc tctggtccgc gccagctttt gcgcgtgact 781 ttaacgaaaa caaaatggct gcttttcaca gaactccggc ggtgtctgtc ggtttgtcag 841 caccggagag agagggagag gttgacacgc gctgacgtca tcacttccga ccagtgggag 901 cgtcggacgt gtcaccctct tccctccccc tccctctgaa gaaaataggt acattatatt 961 gcatgtcaaa aacaatccta catatttctt cataatgtta ccatgaaatg cgtttcatta 1021 tggttttttt ttttttgttg tttaacttgg taccctttcg agaagggaac ggtataagta 1081 ccaatcacac aagtttccat tctgtcaggc atgtgagtca tgcggcatgg ccgtgagaaa 1141 caggaatatc tcactcgcga actatgagat atatcgcgat gttgcattca cgagtacctt 1201 tcgaaaacac agcattattt accatgctca agattttgca ccaacgtcat gataccttca 1261 caaatataaa aacgcgagaa gaaaaaaaaa atcggtgccc agtcgcgaat ctaagctaga 1321 gaacgatggg cgaagatggc acacaatcac ctaactatac gcgattctgg tgtacgctta 1381 cacggcaacg ttccgcgctt atcaaacccg tttcagggtc tttccatact aaaatacgca 1441 caaacatttc gcataaaatt gtgcacaagc gaggaactct caggtcgaag agctaccccc 1501 ataaacttaa tttattcgca caaagctagt ggctattctc tgacgaaagt aaagaggctg 1561 cgatatgtgt atcgctgtta taacacacac tgggccgttt tagggaacca tttttacaat 1621 tccgattaat cgctcgatcc aatcgctgag gtaaagcgag gacttatttc gcagggcaac 1681 aactccgatc acggagcgat cggttggagt tgcaaaaacg gtgcctgaaa actgcctaat 1741 attgcatgca gcacgtgtta gaagaaatcg tacgaccttt tataaattac ttcgcagatc 1801 ttcgagttct cagtagccct ccaaggatgg cgcttgacct ggaattccaa ttttcttctt 1861 cgcaccttct ctcggggaag cgaaaagatc ggagtcaatt ttccgacgaa ccggcgcaca 1921 gtggcacaga agctacaacc taccgtcatt ctaatgcatg aacgatcagg cgtcttcacg 1981 ataacacatt tcaagtgcat gagaccacac gacttctgac gaaatcaggg agattttttt 2041 tttttttttt tttttcacgc acgtatactg cgcgcccaac tacacacgca ttccgcccga 2101 cccaatatgg cgcagcggag gggaagaggc ggcgcggcgc gggacaaagg gtgtcgtctc 2161 cttagcctgt aaggcggcgc tggaatcgaa gcaccctaat taggtcggcg cttcggtgtt 2221 gcccaaacgt ttgctcccga cagtacatat gcacgtctaa aacattgttg atatgtttct 2281 ttctttcttt ctttgtgaac gattaccata tatccttaca aggacaagcg tgttgctctc 2341 gccgacacta ccacaccaat ttaacgcgaa catgcatatt taactctcat tccaactagc 2401 ccagccaatt tcactgagga gagacaagcc gttccaagtg accagccctt gtatttgacg 2461 ccattcattg aggacggccg actggatgaa gcaaagtccc tgagccgcgt caagtcactg 2521 ggcgatgtgg aggacgtgcc gagctacgca ggattcctca ccgtcaagaa ggaaacgggc 2581 agcaacctgt tcttctggtt ctttccagca aaggtatagt taacacagtt ccctgctctc 2641 caatgaatga aaagtattac caaccaaaac actataaact ctgaagacat gttcctgcag 2701 ccaatgacac aactacgtgt gtaatattct ttaaccactt ccatccagtg ctagttgttg 2761 caacatcgaa atgtgtccgc cccttttttc tagagttcga caccttatta aagtatagta 2821 taatatgcgt gacagattgc tcctcctctg gtacagcaaa cttgtccttt atttacttag 2881 tctttctgct gaaggggatt agatctccgg ttctttattg tctgaagagg cgctgcgtaa 2941 tctttgcagg aaaacccaga gagtgcgccc gtgatcctct ggcttcaagg aggtcccgga 3001 agttcgagta tgatcggcct cttcacggaa catggtccgt ttgtcgtgga cgatgatggc 3061 aatctgaaac ttcgggaggt cacctggact agtcgcttct cgatgctcta cgttgacaac 3121 ccagtggaaa cggggttcag cttcgtcgaa aaagctcacg gctgcgcgag aaaccagaca 3181 gacgtgggcc gggacatgct tgaagctcta cagcagttct tcacactctt ccacgagctc 3241 gccaacaacg agttttatgt catgggagaa tcgtatgccg gtaagaactt ggaatctagc 3301 tatttaaatt ttgttaaaat gaaactaaca gcgtactgaa cttgaataca agcaaccatg 3361 gtgtatggat ttaaaatatg aggtccattg aaaagttaca aaggaagatt aaaggaagta 3421 attttagcta gatagagggg agtttctttc ggaaatatgc ttggagaact accttccact 3481 tctctcatat tccggcagag gattgctaag gtggcgtttt ttctcttagc ctgacgtatt 3541 tagcatgaag cactcacgta tctatctccc cgccgatcca ggtttcgtag gaaagaccgc 3601 actgcagtta gaaagagaga aaattaggac atttgccggt acttttattt ttcagaaata 3661 gactgaaagt actcgtatct ggctgtaatt aatagtgatg gcttcggtgt ttacttaaat 3721 agtttgcttt tcatgtcgac cgtatcacgt tcgtaatcag cttgccttcg gcacatatta 3781 aggttttaaa cgagagcctg gtagattttc ataataccga ttaatatttt tttatatatt 3841 caacggtttc ttgcatggtc gttcataaga cattttttgc ttatcaaagt attggtttat 3901 gtatgttgtc tatatgctac tcctcgttcc gccgatatat cttgctggat cgtttgctag 3961 aatttttgta tgtttatgac aaggtccaca tttataaacg ttgtttataa atgtggacct 4021 cgtcatgtca aatatcggtg ttttgtttgg tttttacctg gctgtcgttc ccataacatc 4081 cccagagctg gttaacagta tcagtaaaaa aatacagact agaacagtat ggaaagtata 4141 tacttctcaa ctgcaatttc taatgtacag gctggaaggc gaacttttgt gccatggttt 4201 cagtgattgg ctctgataac tctcctccct gttttttttt ttttttccat tcaacccagg 4261 aaaatacgtc ccagccgttg catacgctat tcacacggcc gtcaagccca gagtccgaat 4321 caacctcaag ggtatcgcca tcggtaatgg actggtggat ctagaatcta tgctggacta 4381 cggagactac ctgtaccaga taggccttgt ggaccgcaac caagccgcaa tatttcgcca 4441 gcggtgcgaa gaagtcaagc acttgatcca aaacaagagc tatagcgatg cagttcgaaa 4501 attcaactct attattatgt gtgcctcctt tgaccaatgc tacttcagta agtttacggg 4561 atatgacagc aaatttaatt acttgcacgc caagtatccc agtggcttgg acaactttgt 4621 cgccttccta aaaaagcctg tagttcaaga tgcaatccac gtggggaaac ttcatttttt 4681 gaagagatcg ccgagagttg cgcagaatct gcttgatgac atagcaaaat ccgttaagcc 4741 ctggctagct actttgatgg aagagtacaa agtgctgatt tacagcggcc aactagacat 4801 cctcgtcccg tatccactta cggtcaacat gatctcaacc atttcgtggt caggcgcagg 4861 ggcactcagc aatgcaacgc ggaagatttg gcggtctcca aatgagcaag atatctatgg 4921 ctacgtaagg cagttcagaa attttacgga agtattggtg ttaggtgcgg gacacatggt 4981 tccttacgat cagcctaaag cagggttgga catgattacg aggtttgttc gaggagacga 5041 atttggaagt gactagccag catgcactaa gttggttctg gttcgtgttc acttttcaaa 5101 tagaacgaac cttgccatgg taacaaaaat aaatcgaatg tactcccact atacacgtat 5161 attcaaaaca aaactgggat cagttgttaa aaacttaata cgaaattaac atcgagcctc 5221 accatgaccc gtggatctat taggtttcac gaggactgaa gctgtactac gaccgtcaaa 5281 tgaatagatg ccccaagaaa gtatggaagt tgcagatgct aacagcatct gcactctgaa 5341 tgtcttgggg agccttagac cggcactcga caaattcgga aagatagagc ttcgtcaaga 5401 gtgtgttcac tagataaaaa tcagctgttg atttgagagt cacccagaag attcacgcaa 5461 caaatgtcct ctaaattatt tttttcattg ttgcttccaa aactgaaaaa agcggacagt 5521 ttacttaact tcttgcctca tttttgtttc gttggtttgc agctgctttg actagttgtt 5581 gtatttccat attaccgtta tgtatcagac gacatttgaa tgtgctttgt ttggtataac 5641 ttcatgtgct gtaaatctac tagcccctcc aatcacaacc tctgaaagaa agttatccct 5701 atttatgtac aataaataca agaaaaaaaa tatgttccct gtcaaatcag attttttcta 5761 taatgcatca ctcatcgatt tcctccgatc ctccggggtc ggtaggttca tctaatcatc 5821 ataacccatc acttcccccc taccttgagg ccctccagcc agaagacaga tatccaataa 5881 aagtattatc cgtccatcta gcttctcgtt cgacgttcca tacaaaataa atgaacttcg 5941 actagctcgt ctgcgcctgc aattttgatg atttagcata gttgaaaacc cgagactagc 6001 gatacggaca aggggcaaac acagaacgac acggacgaag tcagctaggc tgcaccctca 6061 ccattgcttc actggtgatt taggttgtct ccgtattatg gggaatccca ggggtatata 6121 tatatatata tatatatata taatgggttt gttctcgtgt tagtttaatt gatttgtgtc 6181 aaagtgcgag ctaaactttc cagcactgca aagccaaacg cggagaactt tcagatattt 6241 ccagagtggc cagtaaagtc gcaatcacga cgcagtagga acagattcgt gttcccactg 6301 catcgtgcac gttaaagact tccaggctag tagcagtcat aaactctaag aaaaaaaaaa 6361 tgaaagacgt tttgcaattc tctgtaatga cgaattagag cgcagttctt gaggaggagg 6421 aggggagggt tcggagggga aggtatgccc ctcctcccct tcgtacactc ccctcctcct 6481 ctcatgtttc cttcccaatt agcgcgaaat ttcctcacta aatttagcag agaaattttt 6541 ccactaaatt tagcggagaa attttctgct aaatttagcg ggacattttt ccgctgggca 6601 agacgtggcg actgctccgg cacctcctcg acgacaccca gaccaaggga gaacaacagt 6661 acaagctcag cagaattata cacaaggcgg tagcggagca cggggaagcg gaggtgaaga 6721 ggagactcga cgccaaatac ctcccggttt ccccaaagga aaagcaccca gaataccagg 6781 gggcagagaa catcgaggtt gaccaagaca tcgaggaatg ggaggtccga aatgcgatgc 6841 aagacctgaa caggcgttcg gcgtcgggcc cggaccgcgt cagcaataaa gcgctcagaa 6901 acttgaacga cgcggccgtg acggcactga cggcgtactt caataaatgc tggagggccg 6961 gcaagctacc acgccagtgg aagcaagcca aaaccatcct cattccgaaa ccaagcaagt 7021 cgcccgacat cgagaatcta cgcccaatat ccttaacatc gtgcgtgggt aaactgctag 7081 agcacatctt aatggccaga tggcaacagt acctcgaaga ggcagagctc tacccggatt 7141 ctctcgtcgg ctttcgaagc aagcttagaa cgcaagacgc catgctccaa ctcaagaagg 7201 agatagtaga ctacgaaact cacaccagcg acaacagggc aatactgggc ctggacctgc 7261 agagcgcctt cgacaaagtc cggcactcag cgatcctcgc ccaagtgtcg cacctgaaca 7321 tgggacagag atcttacaat tacattcggg atttcctgac cgaccgcacg actcacatct 7381 gcgccgggga tctccaacta ccagacaaaa cgctcggcag cgaggggaca ccacaaggcg 7441 cggtaatctc tccgctgctc ttcaacttgg tcatgatcga agtcgccaac cggctgcgga 7501 gcgtcgatgg ggtgcgccac acggtttatg ccgacgatgt gacgctgtgg gtcaccggcg 7561 gcagcgacgg ccacatagag aatacactac aagaagcagt aaaaacgata gaggaccaac 7621 tgaagggatc ggggctggtg tgttcccccg caaagtcgga gctgatggtg at //