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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00023003 ID=TCONS_00023003|Name=TCONS_00023003|organism=Clytia hemisphaerica|type=transcript|length=1627bp
ACCCTTTGGGACAAACAGATAGAGTGGAGCATAAAATTATTACTGAACAT
GAAATTCCGATAAGACAGAAACCTTATCGTCTTTCACCCGCTCAAAAGGA
AACCCTTGAAAAAGAGCTAGGTAgtcagctggagaaaaaaatcattcaga
aGAGTAGTTCTCTGTGGTCAAGCCCTATTGTAATGATACCAAAAAGCGAT
GGTGGCACGCGAGTCTGCATTGATTACCGTAAACTTAataagattaagaa
aaaggATGCCCATCCCTTGCCAAAGATTGAGGAAATTTTAGACCATTTAA
ATGGCGCTAAGATATTCTCTACTCTTGACCTGCTAACGGGATACCATCAA
ATTCCCATGGAAAAAGCAAGTATTCCAAAGACAGCTTTTGTTACGCACAA
AGGCCTCTTTGAATACTTGCGCATGCCAATGGGGCTATGTAACGCAGCCG
CTAGTTTTGAAAGACTTGCAGAGCAGGTTTTCGCACTAGAGCTGTGGGTG
TTTCTCCTTTTGTATATAGATGATGTGATCATCTATTCCAAGTCCCCAAG
CGACCATTTAAAACAATTGCGCGTCGTCTTATCAAGACTCCGTGGGAATA
AGTTGCAGGCCAAACTTAGTAAATGTAGATTTGCGATGTCCCAACTTTCC
TTCCTGGGTCACACAGTCAATGAAAAGGGAATCCTTCCTTTGAACTCTAA
TACGGCTGCCATTAAAAGCTTCGAATACCCCAAGAGCCAAAAGGACCTCC
GCACATTCCTTGGCATGTGCTCTTACTATAGAAAATTCATCCCCAATTTT
GGTAAAATAGCTCAATCCCTATACACCCTTCTCAAAAAGGAGCAAAAGTT
TTTCCTAACAGATGAAATGAAAGCCGATTTTGATACTTTAAAGGCCAAGC
TTAGCTCCCCTCCCCTCCTTCACTACCCCGACTACGATAAGACCTTTTTT
GTGATTACCGATGCTTCAAAGTATGCCATTGGGCATATAATAGCCCAAGA
AATTTCAGGAAAATTCGTCCCAATCCGCTATGGAGGAAGGACGTTGAAGC
CTCCAGAGATTAACTATGCTATTTCAGAGAAGGAAGCTCTATCATTGGTC
CATGCCATTCAAAAGAACCACCATTACTTGTATGGAAGGTTCTTTTGGGT
CTTCACAGACCACCTACCCCTCAGGAATATGGTGGATGCCCATGACCCGA
CCGGGCGTTTGAGTCGGTGGCATCTAACCCTCCAACAGTACGACTATACT
GTTAAATATCTACCAGGTAATCAAAATGTAGTAGCGGACGCCTTAAGTAG
GTTAAATACGATTTCTCCagaaattgatgaaaatgaaatacccAGGAAAA
ACCTCATTGATCACGAAAGACCTCAGCCAGTGTCCTGTGTAATACTCCCA
GACCCCGCAATAATAGGAGAACAGGATAAAGATCCAGATTATCTCTTTCA
TGGATAGATACAGCTCTTGGCCAGAAGCCTTTGCTGTGAAATCCATTGAG
ACCGCCACTGTCGCCAGGGTCTTACTAGAAGAGGTAATCTTTCGTTTTGG
TACACCAAGAACGTTCAGTACTGATCAAGGCACCAATTTCACATCTAAGT
TAATGAACGCAGTTTGTCAAAAGCTTG Run BLAST on NCBI protein sequence of TCONS_00023003-protein >TCONS_00023003-protein ID=TCONS_00023003-protein|Name=TCONS_00023003-protein|organism=Clytia hemisphaerica|type=polypeptide|length=484bp
PLGQTDRVEHKIITEHEIPIRQKPYRLSPAQKETLEKELGSQLEKKIIQK
SSSLWSSPIVMIPKSDGGTRVCIDYRKLNKIKKKDAHPLPKIEEILDHLN
GAKIFSTLDLLTGYHQIPMEKASIPKTAFVTHKGLFEYLRMPMGLCNAAA
SFERLAEQVFALELWVFLLLYIDDVIIYSKSPSDHLKQLRVVLSRLRGNK
LQAKLSKCRFAMSQLSFLGHTVNEKGILPLNSNTAAIKSFEYPKSQKDLR
TFLGMCSYYRKFIPNFGKIAQSLYTLLKKEQKFFLTDEMKADFDTLKAKL
SSPPLLHYPDYDKTFFVITDASKYAIGHIIAQEISGKFVPIRYGGRTLKP
PEINYAISEKEALSLVHAIQKNHHYLYGRFFWVFTDHLPLRNMVDAHDPT
GRLSRWHLTLQQYDYTVKYLPGNQNVVADALSRLNTISPEIDENEIPRKN
LIDHERPQPVSCVILPDPAIIGEQDKDPDYLFHG Run BLAST on NCBI transcript from alignment at sc0000438:70331..71957 Legend: exonthree_prime_UTRCDSfive_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00023003 ID=TCONS_00023003|Name=TCONS_00023003|organism=Clytia hemisphaerica|type=transcript|length=1627bp|location=Sequence derived from alignment at sc0000438:70331..71957 (Clytia hemisphaerica)
CAAGCTTTTGACAAACTGCGTTCATTAACTTAGATGTGAAATTGGTGCCT
TGATCAGTACTGAACGTTCTTGGTGTACCAAAACGAAAGATTACCTCTTC
TAGTAAGACCCTGGCGACAGTGGCGGTCTCAATGGATTTCACAGCAAAGG
CTTCTGGCCAAGAGCTGTATCTATCCATGAAAGAGATAATCTGGATCTTT
ATCCTGTTCTCCTATTATTGCGGGGTCTGGGAGTATTACACAGGACACTG
GCTGAGGTCTTTCGTGATCAATGAGGTTTTTCCTgggtatttcattttca
tcaatttctGGAGAAATCGTATTTAACCTACTTAAGGCGTCCGCTACTAC
ATTTTGATTACCTGGTAGATATTTAACAGTATAGTCGTACTGTTGGAGGG
TTAGATGCCACCGACTCAAACGCCCGGTCGGGTCATGGGCATCCACCATA
TTCCTGAGGGGTAGGTGGTCTGTGAAGACCCAAAAGAACCTTCCATACAA
GTAATGGTGGTTCTTTTGAATGGCATGGACCAATGATAGAGCTTCCTTCT
CTGAAATAGCATAGTTAATCTCTGGAGGCTTCAACGTCCTTCCTCCATAG
CGGATTGGGACGAATTTTCCTGAAATTTCTTGGGCTATTATATGCCCAAT
GGCATACTTTGAAGCATCGGTAATCACAAAAAAGGTCTTATCGTAGTCGG
GGTAGTGAAGGAGGGGAGGGGAGCTAAGCTTGGCCTTTAAAGTATCAAAA
TCGGCTTTCATTTCATCTGTTAGGAAAAACTTTTGCTCCTTTTTGAGAAG
GGTGTATAGGGATTGAGCTATTTTACCAAAATTGGGGATGAATTTTCTAT
AGTAAGAGCACATGCCAAGGAATGTGCGGAGGTCCTTTTGGCTCTTGGGG
TATTCGAAGCTTTTAATGGCAGCCGTATTAGAGTTCAAAGGAAGGATTCC
CTTTTCATTGACTGTGTGACCCAGGAAGGAAAGTTGGGACATCGCAAATC
TACATTTACTAAGTTTGGCCTGCAACTTATTCCCACGGAGTCTTGATAAG
ACGACGCGCAATTGTTTTAAATGGTCGCTTGGGGACTTGGAATAGATGAT
CACATCATCTATATACAAAAGGAGAAACACCCACAGCTCTAGTGCGAAAA
CCTGCTCTGCAAGTCTTTCAAAACTAGCGGCTGCGTTACATAGCCCCATT
GGCATGCGCAAGTATTCAAAGAGGCCTTTGTGCGTAACAAAAGCTGTCTT
TGGAATACTTGCTTTTTCCATGGGAATTTGATGGTATCCCGTTAGCAGGT
CAAGAGTAGAGAATATCTTAGCGCCATTTAAATGGTCTAAAATTTCCTCA
ATCTTTGGCAAGGGATGGGCATcctttttcttaatcttatTAAGTTTACG
GTAATCAATGCAGACTCGCGTGCCACCATCGCTTTTTGGTATCATTACAA
TAGGGCTTGACCACAGAGAACTACTCttctgaatgatttttttctccagc
tgacTACCTAGCTCTTTTTCAAGGGTTTCCTTTTGAGCGGGTGAAAGACG
ATAAGGTTTCTGTCTTATCGGAATTTCATGTTCAGTAATAATTTTATGCT
CCACTCTATCTGTTTGTCCCAAAGGGT Coding sequence (CDS) from alignment at sc0000438:70331..71957 >TCONS_00023003 ID=TCONS_00023003|Name=TCONS_00023003|organism=Clytia hemisphaerica|type=CDS|length=1455bp|location=Sequence derived from alignment at sc0000438:70331..71957 (Clytia hemisphaerica)
CTATCCATGAAAGAGATAATCTGGATCTTTATCCTGTTCTCCTATTATTG
CGGGGTCTGGGAGTATTACACAGGACACTGGCTGAGGTCTTTCGTGATCA
ATGAGGTTTTTCCTgggtatttcattttcatcaatttctGGAGAAATCGT
ATTTAACCTACTTAAGGCGTCCGCTACTACATTTTGATTACCTGGTAGAT
ATTTAACAGTATAGTCGTACTGTTGGAGGGTTAGATGCCACCGACTCAAA
CGCCCGGTCGGGTCATGGGCATCCACCATATTCCTGAGGGGTAGGTGGTC
TGTGAAGACCCAAAAGAACCTTCCATACAAGTAATGGTGGTTCTTTTGAA
TGGCATGGACCAATGATAGAGCTTCCTTCTCTGAAATAGCATAGTTAATC
TCTGGAGGCTTCAACGTCCTTCCTCCATAGCGGATTGGGACGAATTTTCC
TGAAATTTCTTGGGCTATTATATGCCCAATGGCATACTTTGAAGCATCGG
TAATCACAAAAAAGGTCTTATCGTAGTCGGGGTAGTGAAGGAGGGGAGGG
GAGCTAAGCTTGGCCTTTAAAGTATCAAAATCGGCTTTCATTTCATCTGT
TAGGAAAAACTTTTGCTCCTTTTTGAGAAGGGTGTATAGGGATTGAGCTA
TTTTACCAAAATTGGGGATGAATTTTCTATAGTAAGAGCACATGCCAAGG
AATGTGCGGAGGTCCTTTTGGCTCTTGGGGTATTCGAAGCTTTTAATGGC
AGCCGTATTAGAGTTCAAAGGAAGGATTCCCTTTTCATTGACTGTGTGAC
CCAGGAAGGAAAGTTGGGACATCGCAAATCTACATTTACTAAGTTTGGCC
TGCAACTTATTCCCACGGAGTCTTGATAAGACGACGCGCAATTGTTTTAA
ATGGTCGCTTGGGGACTTGGAATAGATGATCACATCATCTATATACAAAA
GGAGAAACACCCACAGCTCTAGTGCGAAAACCTGCTCTGCAAGTCTTTCA
AAACTAGCGGCTGCGTTACATAGCCCCATTGGCATGCGCAAGTATTCAAA
GAGGCCTTTGTGCGTAACAAAAGCTGTCTTTGGAATACTTGCTTTTTCCA
TGGGAATTTGATGGTATCCCGTTAGCAGGTCAAGAGTAGAGAATATCTTA
GCGCCATTTAAATGGTCTAAAATTTCCTCAATCTTTGGCAAGGGATGGGC
ATcctttttcttaatcttatTAAGTTTACGGTAATCAATGCAGACTCGCG
TGCCACCATCGCTTTTTGGTATCATTACAATAGGGCTTGACCACAGAGAA
CTACTCttctgaatgatttttttctccagctgacTACCTAGCTCTTTTTC
AAGGGTTTCCTTTTGAGCGGGTGAAAGACGATAAGGTTTCTGTCTTATCG
GAATTTCATGTTCAGTAATAATTTTATGCTCCACTCTATCTGTTTGTCCC
AAAGG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
The following polypeptide feature(s) derives from this transcript:
The following exon feature(s) are a part of this transcript:
| Feature Name | Unique Name | Species | Type |
|---|
| TCONS_00023003-exon-sc0000438-1491911889:70331..71957 | TCONS_00023003-exon-sc0000438-1491911889:70331..71957 | Clytia hemisphaerica | exon |
| TCONS_00023003-exon-sc0000438-1510915933:70331..71957 | TCONS_00023003-exon-sc0000438-1510915933:70331..71957 | Clytia hemisphaerica | exon |
| TCONS_00023003-exon-sc0000438-1575043694:70331..71957 | TCONS_00023003-exon-sc0000438-1575043694:70331..71957 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| sc0000438 | supercontig | sc0000438:70331..71957 . |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
| Term | Definition |
|---|
| IPR000477 | RT_dom |
Blast
BLAST of TCONS_00023003 vs. Swiss-Prot (Human)
Match: RTL1 (Retrotransposon-like protein 1 OS=Homo sapiens GN=RTL1 PE=3 SV=3) HSP 1 Score: 98.5969 bits (244), Expect = 2.467e-21 Identity = 85/299 (28.43%), Postives = 132/299 (44.15%), Query Frame = 3
Query: 276 IEEILDHLNGAKIFSTLDL--------LTGYHQIPMEKASIPKTAFVTHKGL-FEYLR--MPMGLCNAAASFERLAEQVFALELWVFLLLYIDDVIIYSKSPSDHLKQLRVVLSRLRGNKLQAKLSKCRFAMSQLSFLGHTVNEKGILPLNSNTAA-IKSFEYPKSQKDLRTFLGMCSYYRKFIPNFGKIAQSLYTLLKKEQKFFLTDEMKADFDTLKAKLSSPPLLHYPDYDKTFFVITDASKYAIGHIIAQ--EISGKFVPIRYGGRTLKPPEINYAISEKEALSLVHAIQKNHHYL 1130
I E+ D L+GA+ F+ L+L + G+ + K AF GL E ++ P L + + + L F+L Y +V+IYS S +HL +R VL R R + + L K +F + FLG V KG+ LN N I + P S+ LR F+ YR F+ F IA+ L L +F+ E + F+ LK PLLH+P F++ T + A+ + Q + +GK + R + P E+ Y+ +E + L + A YL
Sbjct: 650 IPELFDQLHGAEWFTKLELRGTIVEESVNGHR-----TEDVWKAAF----GLELEEMKSYQPFALSPDPIIPQNVIHFILKDMLGFFVLSYGQEVLIYSMSQEEHLHHVRQVLVRFRHHNVYCSLDKSQFHRQTVEFLGFVVTPKGV-KLNKNVMTIITGYPTPGSKLSLRNFIEFVFPYRHFVERFSIIAEPLVRQLLSSYQFYWGVEEQEAFECLKRAFRKAPLLHHPKPQNPFYLETGVTGTALHASLIQIDDQTGKRACCAFYSRNISPIEVEYSQAEMKILPIRAAFMVWCRYL 938
The following BLAST results are available for this feature:
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