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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=transcript|length=1447bp
CGTTCACTTCGCAAGAAAAATAAGACGTCATGCCAAAAGGCATATGACTC
TTACATCAATGACTCAATAATGAATGACAACCCCAAAAAGTTTTACAAAT
TCATTAAAAGTAAACGCCAAGACAGTGTTGGTGTACCAACTTTGAAAGTA
AACAATAAAGTGATTATTGACGACCAAATGAAGGCTGAAGTATTAAACAG
CCAGTATTGTAGTGTTTTCTCCAACCCAGATGGTAAAACTCCACCCATAC
CTAACAGAGTTGTCAATCAAATGAGTGACTTTACAGTATCATCTGATGGG
ATTAAGAAACTCATCAAATCCCTCAGGCCACATAAAGCAACCGGCCCAGA
TACCATTAAAGCCAGATTCCTCATCGAGTTTGCAGATGAAATATCTCCTG
CCCTGAAACTTATCTTTGAAGCTTCTCTAAAACAATCTGAACTCCCGACA
GCTTGGAAACATTCCCTCATTGTCCCAGCATACAAAGGGAATGGGAAATG
TCGAAGTAATCCTGAAAGCTACAGGCCAATATCACTTACTTCCATCGTTT
GTAAATTGCTAGAACACATACTTTACAGTAAAGTAATGTCGCACCTAACC
GAAAACAAAGTATTGTCAGAGTTGCAAGTTGGTTTCAGAGAAAAAAGATC
CTGTGAATCTCAACTTTTGTTAACAGTAAATGACTTTGCGAAAGCTTTGA
ACAATGGTGATCAAGTTGATTCCATCCTACTCGATTTCAGCAAAGCTTTC
GACAAGGTTGACCATTCAAAGCTTTGCCACAAACTTGAGCACTATGGAGT
CAGAGGTAGTCACCTATCTTGGATAAAATCATTCCTTAGGAATCGAACGC
AACAAGTTGTGGTCAATGGTAAAACATCAAAGTATGCTGAAGTCAAGTCA
GGAGTCCCGCAAGGAACAGTATTGGGTCCTTTATTATTCCTTGTATACAT
CAATGACCTTTACGTTTATTTTCGGATGATGCCTATCTGTACCGAACGAT
ATCTTCTCTTGAAGACAAAATAACGTTACAAAATGACCTAAATAACCTCC
AAATATGGGAAGACTTATGGNTATTTGCGGATGATGCCTATCTGTACCGA
ACGATATCTTCTCTTGAAGACAAAATAACGTTACAAAATGACCTAAATAA
CCTCCAAATATGGGAAGACTTATGGAGCATGGAGTTTCACCCAGGTAAAT
GTAAACTATTGCGCATAACTAATAAAACAAAACCGTTTCTCGCTAACTAC
AACATTCACaatgagattcttgaatgtgtCGACAATGCCAAATATCTTGG
TGTCATTATGAACAAACGCTTGAAATGGAATACACACATTGATATGGTTT
GCAAAAAAGGTACACAAACACGAAATTTTCTACAGCGAAATCTGACAGGA
TGCACCAAAGCCACCAAAGCAAAAGCCTACAAGACGTACATAAACCC Run BLAST on NCBI protein sequence of TCONS_00001270-protein >TCONS_00001270-protein ID=TCONS_00001270-protein|Name=TCONS_00001270-protein|organism=Clytia hemisphaerica|type=polypeptide|length=340bp
RSLRKKNKTSCQKAYDSYINDSIMNDNPKKFYKFIKSKRQDSVGVPTLKV
NNKVIIDDQMKAEVLNSQYCSVFSNPDGKTPPIPNRVVNQMSDFTVSSDG
IKKLIKSLRPHKATGPDTIKARFLIEFADEISPALKLIFEASLKQSELPT
AWKHSLIVPAYKGNGKCRSNPESYRPISLTSIVCKLLEHILYSKVMSHLT
ENKVLSELQVGFREKRSCESQLLLTVNDFAKALNNGDQVDSILLDFSKAF
DKVDHSKLCHKLEHYGVRGSHLSWIKSFLRNRTQQVVVNGKTSKYAEVKS
GVPQGTVLGPLLFLVYINDLYVYFRMMPICTERYLLLKTK Run BLAST on NCBI transcript from alignment at sc0000007:5189..6635 Legend: exonthree_prime_UTRCDS Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=transcript|length=1447bp|location=Sequence derived from alignment at sc0000007:5189..6635 (Clytia hemisphaerica)
GGGTTTATGTACGTCTTGTAGGCTTTTGCTTTGGTGGCTTTGGTGCATCC
TGTCAGATTTCGCTGTAGAAAATTTCGTGTTTGTGTACCTTTTTTGCAAA
CCATATCAATGTGTGTATTCCATTTCAAGCGTTTGTTCATAATGACACCA
AGATATTTGGCATTGTCGacacattcaagaatctcattGTGAATGTTGTA
GTTAGCGAGAAACGGTTTTGTTTTATTAGTTATGCGCAATAGTTTACATT
TACCTGGGTGAAACTCCATGCTCCATAAGTCTTCCCATATTTGGAGGTTA
TTTAGGTCATTTTGTAACGTTATTTTGTCTTCAAGAGAAGATATCGTTCG
GTACAGATAGGCATCATCCGCAAATANCCATAAGTCTTCCCATATTTGGA
GGTTATTTAGGTCATTTTGTAACGTTATTTTGTCTTCAAGAGAAGATATC
GTTCGGTACAGATAGGCATCATCCGAAAATAAACGTAAAGGTCATTGATG
TATACAAGGAATAATAAAGGACCCAATACTGTTCCTTGCGGGACTCCTGA
CTTGACTTCAGCATACTTTGATGTTTTACCATTGACCACAACTTGTTGCG
TTCGATTCCTAAGGAATGATTTTATCCAAGATAGGTGACTACCTCTGACT
CCATAGTGCTCAAGTTTGTGGCAAAGCTTTGAATGGTCAACCTTGTCGAA
AGCTTTGCTGAAATCGAGTAGGATGGAATCAACTTGATCACCATTGTTCA
AAGCTTTCGCAAAGTCATTTACTGTTAACAAAAGTTGAGATTCACAGGAT
CTTTTTTCTCTGAAACCAACTTGCAACTCTGACAATACTTTGTTTTCGGT
TAGGTGCGACATTACTTTACTGTAAAGTATGTGTTCTAGCAATTTACAAA
CGATGGAAGTAAGTGATATTGGCCTGTAGCTTTCAGGATTACTTCGACAT
TTCCCATTCCCTTTGTATGCTGGGACAATGAGGGAATGTTTCCAAGCTGT
CGGGAGTTCAGATTGTTTTAGAGAAGCTTCAAAGATAAGTTTCAGGGCAG
GAGATATTTCATCTGCAAACTCGATGAGGAATCTGGCTTTAATGGTATCT
GGGCCGGTTGCTTTATGTGGCCTGAGGGATTTGATGAGTTTCTTAATCCC
ATCAGATGATACTGTAAAGTCACTCATTTGATTGACAACTCTGTTAGGTA
TGGGTGGAGTTTTACCATCTGGGTTGGAGAAAACACTACAATACTGGCTG
TTTAATACTTCAGCCTTCATTTGGTCGTCAATAATCACTTTATTGTTTAC
TTTCAAAGTTGGTACACCAACACTGTCTTGGCGTTTACTTTTAATGAATT
TGTAAAACTTTTTGGGGTTGTCATTCATTATTGAGTCATTGATGTAAGAG
TCATATGCCTTTTGGCATGACGTCTTATTTTTCTTGCGAAGTGAACG Coding sequence (CDS) from alignment at sc0000007:5189..6635 >TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=CDS|length=1023bp|location=Sequence derived from alignment at sc0000007:5189..6635 (Clytia hemisphaerica)
TTATTTTGTCTTCAAGAGAAGATATCGTTCGGTACAGATAGGCATCATCC
GAAAATAAACGTAAAGGTCATTGATGTATACAAGGAATAATAAAGGACCC
AATACTGTTCCTTGCGGGACTCCTGACTTGACTTCAGCATACTTTGATGT
TTTACCATTGACCACAACTTGTTGCGTTCGATTCCTAAGGAATGATTTTA
TCCAAGATAGGTGACTACCTCTGACTCCATAGTGCTCAAGTTTGTGGCAA
AGCTTTGAATGGTCAACCTTGTCGAAAGCTTTGCTGAAATCGAGTAGGAT
GGAATCAACTTGATCACCATTGTTCAAAGCTTTCGCAAAGTCATTTACTG
TTAACAAAAGTTGAGATTCACAGGATCTTTTTTCTCTGAAACCAACTTGC
AACTCTGACAATACTTTGTTTTCGGTTAGGTGCGACATTACTTTACTGTA
AAGTATGTGTTCTAGCAATTTACAAACGATGGAAGTAAGTGATATTGGCC
TGTAGCTTTCAGGATTACTTCGACATTTCCCATTCCCTTTGTATGCTGGG
ACAATGAGGGAATGTTTCCAAGCTGTCGGGAGTTCAGATTGTTTTAGAGA
AGCTTCAAAGATAAGTTTCAGGGCAGGAGATATTTCATCTGCAAACTCGA
TGAGGAATCTGGCTTTAATGGTATCTGGGCCGGTTGCTTTATGTGGCCTG
AGGGATTTGATGAGTTTCTTAATCCCATCAGATGATACTGTAAAGTCACT
CATTTGATTGACAACTCTGTTAGGTATGGGTGGAGTTTTACCATCTGGGT
TGGAGAAAACACTACAATACTGGCTGTTTAATACTTCAGCCTTCATTTGG
TCGTCAATAATCACTTTATTGTTTACTTTCAAAGTTGGTACACCAACACT
GTCTTGGCGTTTACTTTTAATGAATTTGTAAAACTTTTTGGGGTTGTCAT
TCATTATTGAGTCATTGATGTAAGAGTCATATGCCTTTTGGCATGACGTC
TTATTTTTCTTGCGAAGTGAACG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
The following exon feature(s) are a part of this transcript:
| Feature Name | Unique Name | Species | Type |
|---|
| TCONS_00001270-exon-sc0000007-1491911889:5189..6635 | TCONS_00001270-exon-sc0000007-1491911889:5189..6635 | Clytia hemisphaerica | exon |
| TCONS_00001270-exon-sc0000007-1510915933:5189..6635 | TCONS_00001270-exon-sc0000007-1510915933:5189..6635 | Clytia hemisphaerica | exon |
| TCONS_00001270-exon-sc0000007-1575043694:5189..6635 | TCONS_00001270-exon-sc0000007-1575043694:5189..6635 | Clytia hemisphaerica | exon |
The following polypeptide feature(s) derives from this transcript:
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| sc0000007 | supercontig | sc0000007:5189..6635 . |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
| Term | Definition |
|---|
| IPR000477 | RT_dom |
Blast
BLAST of TCONS_00001270 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1) HSP 1 Score: 91.2781 bits (225), Expect = 3.356e-19 Identity = 63/219 (28.77%), Postives = 109/219 (49.77%), Query Frame = 1
Query: 286 VSSDGIKKLIKSLRPHKATGPDTIKARFLIEFADEISPALKLIFEASLKQSELPTAWKHSLIVPAYKGNGKCRSNPESYRPISLTSIVCKLLEHILYSKVMSHLTENKVLSELQVGFREKRSCESQLLLTVNDFAKALNNGDQVDSIL-LDFSKAFDKVDHSKLCHKLEHYGVRGSHLSWIKSFLRNRTQQVVVNGKTSKYAEVKSGVPQGTVLGPLLF 939
++ I +I SL K+ GPD A F + +E+ P L +F++ K+ LP ++ + I+ K G+ + E++RPISL +I K+L IL +++ H+ K++ QVGF + ++N D+ I+ +D KAFDK+ + L G+ G +L I++ T +++NG+ + +K+G QG L PLLF
Sbjct: 453 ITGSEIVAIINSLPTKKSPGPDGFTAEFYQRYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKP-GRDTTKKENFRPISLMNIDAKILNKILANRIQQHI--KKLIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLF 668
The following BLAST results are available for this feature:
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