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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00049474 ID=TCONS_00049474|Name=TCONS_00049474|organism=Clytia hemisphaerica|type=transcript|length=3403bp
aaattcAAGAAGAgtagattttaataaaaatctgtaaaaattccaaagaa
aaattaatGGAAAGTATCTGTGTATGGTCAACACACTTAACAAAGTCCAT
GTAAAAATCNGATTCTAAAGAAAAATGTATGGAAAGTATCTGTGTATGGT
CAACACAgttaacaaagtccaaaaaaaataacTACTAATCATAATGATTT
AATATCTGCTAGAAAATTTCAAGCTAtctacaaaacaaacaaaaacataa
aaatatgcCAATAAAACATTTGGAATAGAAAAATTATTCGATTGTTATTC
GTTTGAATTCCTTGGAGGAGCAGGAGGTATTGGTGGTAACCCCTGGCGAC
GTCGTTCAGCTTTCAACTTATTGAATTCTTTCTTACAGTTGCGGTAAGCT
TCAAAATATTCCTCACATTTGTCTTTATCATAACCGTTATCTGAGAGACA
TTTGTAAGACGCATTAGCCTCATCCAAACAAAAATTAACACCACGGTCAG
TCCATTTACGCGGGGTACCTGGACGTTGTGGTGTCCTTGCCTCTCCAGAC
ATCTATTTGcacaaattatatatttttgttgtttttactttaatttgtgc
tgaaagtaaaagaaagagaagcataatataataaatataacaaaaaaaat
gGTCAACTGTTCAGGTTTTTAAAGACACTTaacataaaatattgaaatac
aaaaacaaacagaaaaggTAGAAAATTctcaacaaaaaaaagttttatgt
gataaaagtgacaaaaaaggtatttttttgaataaaacttTAGGGTATCC
ATGACTCgtaacaaaatcaatttttttatcaattaaaaAATGTTGTATCT
TCTTAAGTATAATCTAAAGTGTggttaaataaaataataataataaaaac
agCAATGACACCAATGGTGGATATGTCCCTTGTATATTCTGTATCTGAGA
ATACTGAATAAGCCTATTGCAAAATCAAAGTCACATTATAGTACATACTC
TATTGTTTATTCATATCCAAGCAATTTTGAATTGGGTTGAGTGAAAAAAG
TCCCACGTATATTGTAGATCTAAGAATATTGAATAAACGTATTGCAAAAT
CAAAGCCACAATAGCACTCTATTGTTTATTTAAATCCatgcaattttgat
ttttggtaaacTAAAAACAAGACATCAAATGGCTAAAACATCAGCTGCAA
TTTCATGACTGTGTTGTGTTTGCAAGTCACtcagtttctttttcaaaaca
gaaAGTCCAGACAAGATAATTCTTTCAGGTCTCAGTGACCCAGATGTTTC
GACATTGAAAAAGAACTTGTTTGGTTTAGCACCAACATCAAAATCACCTT
GTGTTTGATCCTCGTCAAGTTGTGAATATTCACTTTTAGGCCATTCCTCT
GGTCTTGGATATGTTGTATGTCTCATCACATTATCAGGATCGTACTCAAA
AGCCACTCCAGCTGTTGGATTCCATTTGGCATGCTCTTTACCAAACCCTT
TTTTTGCATAAGCACGTAATTTCAGTTCTTGACCTTTTCgaagtttcaaa
ataatgatATCGTTATTTTCCTGCATGTCACTATCATCATCTTTGTTTTG
AGAAGTAACTGGAACAATTTTTGGGTTAGCTGATATCAAATCACGGCTTG
TTATACGTCTTGTTGTATCTTCAGTGCATTTGACCTCAAGAGTGAATTCT
ACAGAACACTCAGGGCAAAAATCAATACATGTGCAATCTCTGGAGTAGCT
CATCCCTTCGACTGATTCATCACATGTTAAAGGAATCAAACCAACACGAT
GGGCTATAAATTCATCATGTAGTACTGaagtattattttcaatttgaacc
CAATCAATTGCAATAGTTGGGACTTCTNTGAATAAACGTATTGCAAAATC
AAAGCCACAATAGCACTCTATTGTTTATTTAAATCCatgcaattttgatt
tttggtaaacTAAAAACAAGACATCAAATGGCTAAAACATCAGCTGCAAT
TTCATGACTGTGTTGTGTTTGCAAGTCACtcagtttctttttcaaaacag
aaAGTCCAGACAAGATAATTCTTTCAGGTCTCAGTGACCCAGATGTTTCG
ACATTGAAAAAGAACTTGTTTGGTTTAGCACCAACATCAAAATCACCTTG
TGTTTGATCCTCGTCAAGTTGTGAATATTCACTTTTAGGCCATTCCTCTG
GTCTTGGATATGTTGTATGTCTCATCACATTATCAGGATCATACTCAAAA
GCCACTCCAGCTGTTGGATTCCATTTGGCATGCTCTTTACCAAACCCTTT
TTTGGCATAAGCACGTAATTTCAGTTCTTGACCTTTTCGAAGcttcaaaa
taataatatcgTTATTTTCCTGCATGTCACTATCATCATCTTTGTTTTGA
GAAGTAACTGGAACAATTTTTGGGTTAGCTGATATCAAATCACGGCTTGT
TATACGTCTTGTTGTATCTTCAGTGCATTTGACCTCAAGAGTGAATTCTA
CAGAACACTCAGGGCAAAAATCAATACATGTGCAATCTCTGGAGTAGCTC
ATCCCCTCGACTGATTCATCACATGTTAAAGGAATCAAACCAACACGATG
GGCTATAAATTCATCATGTAGTACTGaagtattattttcaatttgaaccC
AATCAATTGCAATAGTTGGGACTTCTGAAATGAAGATCCTTCTCAAACCA
TTTGCCATGGACAAATCAGTATCCTCAAGTgtgaatttgatattttcatc
acTCAGTTctgatattttgacttttggttGACTAGCGTAAGGCATCTTTC
TCAGGAGGGTTCAATGATAATTGTATATGGTAGTTTTAGCTGAAACATAA
TGTCAAAATGGTCAAGGTTCTAGGCTAAAAGAGTTTTTCCAGAAACCAAA
TTAAGATAAACCCAAAAACCCTCTGAGCTTCACAAAAGCAGAtagtttac
agaaatctaaattcaaaaaaattcaagaactgtttttgaaacatttgaaa
TGAATAGGGTTGGCAGTTTTGAATAGCTATTTTACCAAAAACCAGACTTA
CGTCCTGTAGTTGAATACTTTTGAAAACCTGTTCTCTGTTATTATCGTGT
GTACCTGGGTTGGTAAAATTGCAACATTCCCAATTAAGATTGATTGTTGC
AATGtaaaccaatttttttcaaaacacaagCAAAATCAGGTTGAAAAAAA
GCAGCCTTACtgtaggctgcacacatcccctctgatatgatagGGAATGC
ATATTGTCTACAATATTTCTGTCCCAACTTACCACTGTAAACCACCAAAA
CTTAACACTGTTGCAGAATTTGACAATGCAGAAATTGCAGAATTTTTCAG
CACTGCAATTCTTTACAATTTCCATCAGTTTTCAGAACTGACGACTGATG
TGG Run BLAST on NCBI transcript from alignment at scaffold_16:98557..101959+ Legend: exon Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00049474 ID=TCONS_00049474|Name=TCONS_00049474|organism=Clytia hemisphaerica|type=transcript|length=3403bp|location=Sequence derived from alignment at scaffold_16:98557..101959+ (Clytia hemisphaerica)
aaattcAAGAAGAgtagattttaataaaaatctgtaaaaattccaaagaa
aaattaatGGAAAGTATCTGTGTATGGTCAACACACTTAACAAAGTCCAT
GTAAAAATCNGATTCTAAAGAAAAATGTATGGAAAGTATCTGTGTATGGT
CAACACAgttaacaaagtccaaaaaaaataacTACTAATCATAATGATTT
AATATCTGCTAGAAAATTTCAAGCTAtctacaaaacaaacaaaaacataa
aaatatgcCAATAAAACATTTGGAATAGAAAAATTATTCGATTGTTATTC
GTTTGAATTCCTTGGAGGAGCAGGAGGTATTGGTGGTAACCCCTGGCGAC
GTCGTTCAGCTTTCAACTTATTGAATTCTTTCTTACAGTTGCGGTAAGCT
TCAAAATATTCCTCACATTTGTCTTTATCATAACCGTTATCTGAGAGACA
TTTGTAAGACGCATTAGCCTCATCCAAACAAAAATTAACACCACGGTCAG
TCCATTTACGCGGGGTACCTGGACGTTGTGGTGTCCTTGCCTCTCCAGAC
ATCTATTTGcacaaattatatatttttgttgtttttactttaatttgtgc
tgaaagtaaaagaaagagaagcataatataataaatataacaaaaaaaat
gGTCAACTGTTCAGGTTTTTAAAGACACTTaacataaaatattgaaatac
aaaaacaaacagaaaaggTAGAAAATTctcaacaaaaaaaagttttatgt
gataaaagtgacaaaaaaggtatttttttgaataaaacttTAGGGTATCC
ATGACTCgtaacaaaatcaatttttttatcaattaaaaAATGTTGTATCT
TCTTAAGTATAATCTAAAGTGTggttaaataaaataataataataaaaac
agCAATGACACCAATGGTGGATATGTCCCTTGTATATTCTGTATCTGAGA
ATACTGAATAAGCCTATTGCAAAATCAAAGTCACATTATAGTACATACTC
TATTGTTTATTCATATCCAAGCAATTTTGAATTGGGTTGAGTGAAAAAAG
TCCCACGTATATTGTAGATCTAAGAATATTGAATAAACGTATTGCAAAAT
CAAAGCCACAATAGCACTCTATTGTTTATTTAAATCCatgcaattttgat
ttttggtaaacTAAAAACAAGACATCAAATGGCTAAAACATCAGCTGCAA
TTTCATGACTGTGTTGTGTTTGCAAGTCACtcagtttctttttcaaaaca
gaaAGTCCAGACAAGATAATTCTTTCAGGTCTCAGTGACCCAGATGTTTC
GACATTGAAAAAGAACTTGTTTGGTTTAGCACCAACATCAAAATCACCTT
GTGTTTGATCCTCGTCAAGTTGTGAATATTCACTTTTAGGCCATTCCTCT
GGTCTTGGATATGTTGTATGTCTCATCACATTATCAGGATCGTACTCAAA
AGCCACTCCAGCTGTTGGATTCCATTTGGCATGCTCTTTACCAAACCCTT
TTTTTGCATAAGCACGTAATTTCAGTTCTTGACCTTTTCgaagtttcaaa
ataatgatATCGTTATTTTCCTGCATGTCACTATCATCATCTTTGTTTTG
AGAAGTAACTGGAACAATTTTTGGGTTAGCTGATATCAAATCACGGCTTG
TTATACGTCTTGTTGTATCTTCAGTGCATTTGACCTCAAGAGTGAATTCT
ACAGAACACTCAGGGCAAAAATCAATACATGTGCAATCTCTGGAGTAGCT
CATCCCTTCGACTGATTCATCACATGTTAAAGGAATCAAACCAACACGAT
GGGCTATAAATTCATCATGTAGTACTGaagtattattttcaatttgaacc
CAATCAATTGCAATAGTTGGGACTTCTNTGAATAAACGTATTGCAAAATC
AAAGCCACAATAGCACTCTATTGTTTATTTAAATCCatgcaattttgatt
tttggtaaacTAAAAACAAGACATCAAATGGCTAAAACATCAGCTGCAAT
TTCATGACTGTGTTGTGTTTGCAAGTCACtcagtttctttttcaaaacag
aaAGTCCAGACAAGATAATTCTTTCAGGTCTCAGTGACCCAGATGTTTCG
ACATTGAAAAAGAACTTGTTTGGTTTAGCACCAACATCAAAATCACCTTG
TGTTTGATCCTCGTCAAGTTGTGAATATTCACTTTTAGGCCATTCCTCTG
GTCTTGGATATGTTGTATGTCTCATCACATTATCAGGATCATACTCAAAA
GCCACTCCAGCTGTTGGATTCCATTTGGCATGCTCTTTACCAAACCCTTT
TTTGGCATAAGCACGTAATTTCAGTTCTTGACCTTTTCGAAGcttcaaaa
taataatatcgTTATTTTCCTGCATGTCACTATCATCATCTTTGTTTTGA
GAAGTAACTGGAACAATTTTTGGGTTAGCTGATATCAAATCACGGCTTGT
TATACGTCTTGTTGTATCTTCAGTGCATTTGACCTCAAGAGTGAATTCTA
CAGAACACTCAGGGCAAAAATCAATACATGTGCAATCTCTGGAGTAGCTC
ATCCCCTCGACTGATTCATCACATGTTAAAGGAATCAAACCAACACGATG
GGCTATAAATTCATCATGTAGTACTGaagtattattttcaatttgaaccC
AATCAATTGCAATAGTTGGGACTTCTGAAATGAAGATCCTTCTCAAACCA
TTTGCCATGGACAAATCAGTATCCTCAAGTgtgaatttgatattttcatc
acTCAGTTctgatattttgacttttggttGACTAGCGTAAGGCATCTTTC
TCAGGAGGGTTCAATGATAATTGTATATGGTAGTTTTAGCTGAAACATAA
TGTCAAAATGGTCAAGGTTCTAGGCTAAAAGAGTTTTTCCAGAAACCAAA
TTAAGATAAACCCAAAAACCCTCTGAGCTTCACAAAAGCAGAtagtttac
agaaatctaaattcaaaaaaattcaagaactgtttttgaaacatttgaaa
TGAATAGGGTTGGCAGTTTTGAATAGCTATTTTACCAAAAACCAGACTTA
CGTCCTGTAGTTGAATACTTTTGAAAACCTGTTCTCTGTTATTATCGTGT
GTACCTGGGTTGGTAAAATTGCAACATTCCCAATTAAGATTGATTGTTGC
AATGtaaaccaatttttttcaaaacacaagCAAAATCAGGTTGAAAAAAA
GCAGCCTTACtgtaggctgcacacatcccctctgatatgatagGGAATGC
ATATTGTCTACAATATTTCTGTCCCAACTTACCACTGTAAACCACCAAAA
CTTAACACTGTTGCAGAATTTGACAATGCAGAAATTGCAGAATTTTTCAG
CACTGCAATTCTTTACAATTTCCATCAGTTTTCAGAACTGACGACTGATG
TGG
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_00049474-exon-scaffold_16-1491911889:98557..101959 | TCONS_00049474-exon-scaffold_16-1491911889:98557..101959 | Clytia hemisphaerica | exon |
| TCONS_00049474-exon-scaffold_16-1510915933:98557..101959 | TCONS_00049474-exon-scaffold_16-1510915933:98557..101959 | Clytia hemisphaerica | exon |
| TCONS_00049474-exon-scaffold_16-1575043694:98557..101959 | TCONS_00049474-exon-scaffold_16-1575043694:98557..101959 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| scaffold_16 | supercontig | scaffold_16:98557..101959 + |
Blast
BLAST of TCONS_00049474 vs. Swiss-Prot (Human)
Match: RPB3 (DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens GN=POLR2C PE=1 SV=2) HSP 1 Score: 403.29 bits (1035), Expect = 6.854e-131 Identity = 194/274 (70.80%), Postives = 240/274 (87.59%), Query Frame = -3
Query: 1977 MPYASQPKVKISELSDENIKFTLEDTDLSMANGLRRIFISEVPTIAIDWVQIENNTSVLHDEFIAHRVGLIPLTCDESVEGMSYSRDCTCIDFCPECSVEFTLEVKCTEDTTRRITSRDLISANPKIVPVTSQNKDDD-SDMQENNDIIILKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNVMRHTTYPRPEEWPKSEYSQLDEDQTQGDFDVGAKPNKFFFNVETSGSLRPERIIXXXXXXXXXXXXXLQTQHSHEIAADVLAI 2795
MPYA+QP V+I+EL+DEN+KF +E+TDL++AN +RR+FI+EVP IAIDWVQI+ N+SVLHDEFIAHR+GLIPL D+ V+ + YSRDCTC +FCPECSVEFTL+V+C ED TR +TSRDLIS +P+++PVTS+N+D+D +D E +DI+I+KLRKGQEL+LRAYAKKGFGKEHAKWNPTAGVAFEYDPDN +RHT YP+PEEWPKSEYS+LDED++Q +D KP +F++NVE+ GSLRPE I+LS LS LKKKLSDLQTQ SHEI +DVL I
Sbjct: 1 MPYANQPTVRITELTDENVKFIIENTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHDEFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHEIQSDVLTI 274 HSP 2 Score: 343.584 bits (880), Expect = 1.874e-108 Identity = 171/239 (71.55%), Postives = 206/239 (86.19%), Query Frame = -1
Query: 1178 RLF-XEVPTIAIDWVQIENNTSVLHDEFIAHRVGLIPLTCDESVEGMSYSRDCTCIDFCPECSVEFTLEVKCTEDTTRRITSRDLISANPKIVPVTSQNKDDD-SDMQENNDIIILKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNVMRHTTYPRPEEWPKSEYSQLDEDQTQGDFDVGAKPNKFFFNVETSGSLRPERIIXXXXXXXXXXXXXLQTQHSHEIAADVLAI 1888
R+F EVP IAIDWVQI+ N+SVLHDEFIAHR+GLIPL D+ V+ + YSRDCTC +FCPECSVEFTL+V+C ED TR +TSRDLIS +P+++PVTS+N+D+D +D E +DI+I+KLRKGQEL+LRAYAKKGFGKEHAKWNPTAGVAFEYDPDN +RHT YP+PEEWPKSEYS+LDED++Q +D KP +F++NVE+ GSLRPE I+LS LS LKKKLSDLQTQ SHEI +DVL I
Sbjct: 36 RVFIAEVPIIAIDWVQIDANSSVLHDEFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHEIQSDVLTI 274
The following BLAST results are available for this feature:
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