2024-09-28 08:12:44, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS XM_018817911 4760 bp mRNA linear INV 22-OCT-2018 DEFINITION PREDICTED: Ciona intestinalis zinc finger (C-x8-C-x5-C-x3-H/C2H2)-1 (zf(c3h/c2h2)-1), transcript variant X1, mRNA. ACCESSION XM_018817911 VERSION XM_018817911.2 DBLINK BioProject: PRJNA187185 KEYWORDS RefSeq. SOURCE Ciona intestinalis (vase tunicate) ORGANISM Ciona intestinalis Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia; Cionidae; Ciona. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_020168.2) annotated using gene prediction method: Gnomon, supported by EST evidence. Also see: Documentation of NCBI's Annotation Process On Oct 22, 2018 this sequence version replaced XM_018817911.1. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Ciona intestinalis Annotation Release 104 Annotation Version :: 104 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.1 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..4760 /organism="Ciona intestinalis" /mol_type="mRNA" /db_xref="taxon:7719" /chromosome="3" gene 1..4760 /gene="zf(c3h/c2h2)-1" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 41 ESTs, 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 87 samples with support for all annotated introns" /db_xref="GeneID:100170055" CDS 41..4024 /gene="zf(c3h/c2h2)-1" /codon_start=1 /product="uncharacterized protein zf(c3h/c2h2)-1 isoform X1" /protein_id="XP_018673456.1" /db_xref="GeneID:100170055" /translation="
MVKIFVGRLAPTVTAVQLRELFENYGTVSDCDILRDYGFVHMSSEVEAQKAITALDKYELVGSKLSVEMSTSRSMKSCQLTVKNLPRGTNPQDLHKLFKKFGTVTLCRISSDQAVVHMRFPSMATNAVRNLSGEIYRGNVLSVELANNNNRPPNNWPKTTPKEWKASDIFPVIKGSSESLENILQDETNSIELKNEFSSESTVMVNGISNEHSVAETTESIDTTLPTPIIVAISTQSSVTAATHGNGTVVSSTMQPTIEKAHEPREARKRRIQQGLKFLQSPMPWSGSAELYETFLNQLKEMMMHEGTELCREGLFKESVAQLNEAINICAYMKKEGINGYMDNFEKLLMERASVHLTSGNNSAALEDAEKAFNLSNGSNQVALRFKARCLVNCGRRNDALFLMLKFSQVATFDAESAQLCSILKQSMGNMNDEQSLGLSNNKGAIGDGRNRISSSFFPRNPMDGGTFNGSRGGWSMMNGSGDAHNGFLSSYSNFGNGSRSLLGAGTQSLQPNESFSSPLGSQFQPYFNQNSNSSGFSGFSGNFLDNPVPGPITRPGQNLFTNTLYQAPQQKSSIFSQDVLYPMEQTNGLHRESSMPLPIGFRRPQVNSANSYPSSAGSPWNDTTNALSGINSAPTNRGCVDNTIDEELARGIEEELKTNLNHKVNSLTLTSNSKSLWPNSLNSDPGFQGNSTHNTSSYTHFPMNTSKSGFTGSFLGPAMLGISAGNQQQLPVSVSLLSHDTEVVNSTPSSVINNNIGAVETNQSNDSLSEILRNPLHDTHEFKLGCSDCVLRTGPRVTDFRHDDSLVHSCYKNIVLCRRRGNKDWLKIRPRPQPQSKAQLYDGPYYICKDLMAGQDCTYPAVCTFAYNQEEIDVWTLERKGMLNRAWLCKSMDLNYVNKLSLVGLLICKHRGTFDFLCRSCFQNKPRIISMFSGNSNKCTNESCPHLNTEENQQLTHILRESSVRFTEIRFPIQQAILCRHAIRFQCTRGEDCHFAHSLVERDIWAIMEKEDLTAAEVVRQAQEHIKKQAAVNKESENSMLFSEGGDLGSFRWKVKFICSLCHKNGQVNEATKDMKYCTARAQHSWTTNKKVALVHTAKRWVQIRDLPYLKNKVNNGACQINLPVRFELCENFRRQKRCAFSGKCNFAHSQEEMDIWMYLRDNNLKDLEELYEALTKAKQAKLASKNQSFTTDTSNIVLPTDTILHQSSYHCWLCDKECNGQRQWEHHCLSEKHKMRAISDSDGHWKFRKPGGNYKLCERHEKGVCEFDFLPASDNTCSFAHGKEELEEWVHRRQYVINRIRKAQDDHLIDAGDDMNNLINQTPEA"
misc_feature 47..244 /gene="zf(c3h/c2h2)-1" /note="RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins; Region: RRM1_2_CoAA_like; cd12343" /db_xref="CDD:409779" misc_feature 50..>934 /gene="zf(c3h/c2h2)-1" /note="polyadenylate binding protein, human types 1, 2, 3, 4 family; Region: PABP-1234; TIGR01628" /db_xref="CDD:130689" misc_feature order(941..943,950..955,962..967,971..973,1079..1081, 1088..1093,1100..1105,1109..1114,1184..1186,1193..1198, 1205..1210,1217..1219) /gene="zf(c3h/c2h2)-1" /note="putative protein binding surface [polypeptide binding]; other site" /db_xref="CDD:276809" misc_feature 941..1024 /gene="zf(c3h/c2h2)-1" /note="TPR repeat [structural motif]; Region: TPR repeat" /db_xref="CDD:276809" misc_feature 1073..1165 /gene="zf(c3h/c2h2)-1" /note="TPR repeat [structural motif]; Region: TPR repeat" /db_xref="CDD:276809" misc_feature 3425..3496 /gene="zf(c3h/c2h2)-1" /note="Zinc finger C-x8-C-x5-C-x3-H type (and similar); Region: zf-CCCH; pfam00642" /db_xref="CDD:459885" ORIGIN
tttatattataacttttttgtgtttttattttaagggattatggttaagatatttgtagggcgtctggccccgactgttactgcagttcagctgcgtgaattgtttgagaattatggaactgtttctgattgcgatattctacgagattatggattcgttcacatgtcgagcgaagtagaggcacagaaggcaattactgctcttgataaatatgagctcgttggaagtaaactgagtgttgagatgtcaacatcgcgctccatgaagtcgtgtcaactcactgtcaagaatctgccgcgcggcaccaaccctcaggacttgcataaacttttcaaaaaatttggaactgtgacattgtgtagaattagcagcgatcaagcagtggtgcatatgcgttttccatctatggcaactaacgctgttagaaatctaagtggagaaatatatcgtggaaatgttttgtctgtcgaattagcaaataataataatcgaccaccaaataattggccaaagacaactccgaaggaatggaaagcaagcgatatttttccagttatcaaaggaagttctgaaagtctggaaaatattttacaagatgaaactaattcaattgaattgaaaaatgaattttcaagtgaaagcacagttatggtgaatggaatctcaaatgaacactcggttgcagaaaccacagaatcaatcgatactacgctacccaccccaattattgttgcaatatcaacacaaagctctgtaacagctgctacacatggcaatgggactgttgtttcaagcacaatgcaaccaactatagaaaaagcccatgaaccacgagaagctaggaaacgcaggatacagcaaggccttaaatttttacaatcaccaatgccttggagtggtagtgctgagctgtatgagacattcctgaaccaactgaaagaaatgatgatgcatgagggaacagagttatgcagggagggtttgtttaaggaatcagttgctcaattgaatgaagccatcaacatatgcgcatatatgaagaaggagggtatcaatggatacatggataactttgagaagttacttatggagagagcaagtgttcatctaacttccggaaacaattcagctgctttggaagatgcagaaaaagcgtttaatttaagcaacggcagcaaccaagttgcgttgaggtttaaagcaaggtgtttggtgaattgtggtcgtagaaacgatgctttgtttctcatgttgaagttttctcaagttgctacatttgatgctgaatcggctcagttatgcagcatcttgaagcagagcatgggaaacatgaatgatgaacaatcgcttggtttgagtaacaataaaggagcgataggtgatggaagaaaccggatatcttccagtttttttcctcgaaatccgatggatggtgggaccttcaatggatctcgaggaggttggtcgatgatgaacggatccggtgatgcccacaacggattcctctcctcatattccaactttggaaacgggagtagatctctcttgggtgccggtacacaatccttgcaaccgaatgaatcgttttcttccccacttggaagtcaatttcaaccttattttaaccaaaacagcaacagttcgggtttctctggtttttccggaaattttcttgacaatccagttccaggtccaataaccaggccagggcagaacctcttcacaaacactctatatcaagctcctcaacaaaagtcttctatcttttcccaagatgttctttatcccatggagcaaacgaatggacttcatcgagaatcttcgatgcctcttccaattggtttccgccgacctcaggtcaactcagctaattcatatccctctagtgcaggaagtccatggaacgatacaactaacgctctctcaggaataaacagtgcaccgacaaacagaggttgtgtagataacacgattgatgaagaacttgcaagaggaattgaagaagaattaaaaactaacttaaatcataaagtaaattcattaacgcttacatcaaattccaagtcgctttggccaaactcgttaaacagcgatccaggttttcaaggcaattcaacgcacaacacatcaagctatactcattttccaatgaatacctcaaaaagtgggttcactggctcatttctcggacctgcaatgttaggaatatccgcaggaaatcaacaacaattgcctgtgtctgtttcattgctaagccatgatacagaagtagtaaacagcacaccatcatctgttataaacaacaacattggtgctgttgaaaccaaccaatcaaacgactcgctgagcgagatattgcgcaatccacttcatgatacgcacgagtttaaactcggatgttccgactgtgtcttgaggactggaccaagggtcacagacttcagacacgatgatagtcttgtccattcctgctataaaaatattgttctttgtcgtcgccgtggcaacaaggattggttgaaaatacgaccaagacctcaaccgcagtctaaggcccagttatatgatggtccttactatatatgcaaggatctgatggctgggcaggattgcacgtaccctgccgtgtgtacatttgcttacaaccaagaagagattgatgtatggacacttgaaaggaaaggaatgcttaacagagcatggctgtgcaagtcaatggatctgaattatgtgaacaagctttctttggttggtttgcttatctgcaaacatcgtggaacgtttgactttctctgtcgatcttgcttccagaacaaacctcgcatcattagtatgttttcaggcaattcaaacaaatgcaccaatgagagctgccctcatttaaatacagaagaaaaccaacagttgactcatatattgcgcgaatcttcagttcgtttcactgagataaggttccccatccaacaagccattctctgtcgtcatgccattcgatttcaatgcactcgtggtgaagattgtcattttgctcacagtcttgtggagagagatatatgggcaatcatggagaaggaagacctcacagcagcagaggttgtgaggcaagcacaggaacacattaagaagcaagctgctgtcaataaagaatcagaaaattcaatgttgttttcagaaggaggtgaccttggatcatttagatggaaagtgaagtttatttgttcactgtgtcacaaaaatggtcaggtaaacgaagcaacgaaagacatgaaatattgcacagctcgtgcccaacactcgtggactaccaacaagaaagtagcccttgtgcacactgccaagcgctgggtgcaaatacgtgatctgccgtacctaaagaataaggtgaataacggcgcctgccaaatcaaccttccagtaagattcgaactgtgcgaaaactttcgtcgacagaaacgatgcgctttctcaggaaaatgtaacttcgcacattctcaggaggaaatggatatctggatgtatctcagggataataatttaaaagacttggaagagttgtacgaagcattaacgaaagcaaaacaagcaaaattggcttcaaagaatcaatcgtttacaactgatacaagtaatattgttctaccaactgatactattcttcatcagagctcataccactgttggttatgcgacaaagaatgcaatggccagcgacagtgggaacatcattgtttatctgaaaaacacaaaatgcgcgcaatttctgacagtgatgggcactggaaattcaggaaacctggggggaattataaactttgcgaaagacatgagaaaggtgtttgtgagtttgactttctaccagcaagtgataacacttgttcgtttgctcatgggaaagaagagcttgaggaatgggtccatcgtcgacagtacgttataaaccgaatacgaaaggcccaagatgatcatttgatcgacgcaggagatgatatgaacaatttgataaaccaaacaccagaggcttaggatttccttcatttataacccccattgttcgttgttcctcagaaatattcgttttgtttcgtgcgtttcgttaatggcgctactgggcaccctatgacgtagtactcgtagtatctgttctgatttattaaaatactcagattattacccacaaacaccggaactagaaatgaacactccgtacactggggagatgtgttattccaacatgtgccaaactctttagatactaaagcctcagtaaacctttaacgtgtgcctttgaagagtttatctttcagcgtattggtaccgaagtcaccttcatctcaacctcacattttgaaccttttcattagtgccccatcatctcttttcaattctcatttttatacaagcattctctcttttccatagatgccatagccaaccaagccaccctgcttggtcagtactttcttttcattcaaaactagtttaaatagtcttcattgtaaagtctgcactaagtatagtcacactcgtttggaatattcttcaattcttgtcatttttagatacagagaaaattacccctatatttttgtgccacatagcaacacgtcattttttcatacgaacccagtgacgttgtgcactcgtttcatttgtacgattcgcagtttcagatttcggataactgatgtttatgcgttcgatgtgagtaatggtttcaggcgtcctatttgtgaatattaaaataaaatggtcccgaaaa
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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