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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00047278 ID=TCONS_00047278|Name=TCONS_00047278|organism=Clytia hemisphaerica|type=transcript|length=1464bp
ATCGAGTCATTTGCTAATTTGCCTTCACGTGTACCGGTGTTCTAATTCTT
TTTTCACCAAATATTTTGTTCAATGGGAGAACTCAGTGATGACCAAGACT
CGTACAAGAATCGCTATCCCAATGGCAAACGAAAACAAAGACGTTACCGA
ACCACCTTTTCACAAATCCAGTTGGATGAGTTGGAGCGAGCTTTCGAGAA
GACACATTATCCTGACGTCTTTATGAGAGAAGAACTTGCCATGAGAATCA
ACTTGACTGAAGCTAGAGTCCAGGTGTGGTTTCAAAACAGACGTGCCAAA
TGGAGAAAGCGTGAAAAACTCAGTTTCAACATGCAACCGGGACAACCCGG
TACCGGGATGCCCAACTGTGACGTCACAAACCCCTACATCCCGACCAGTC
CAAAGCTGGGACAACAAGGTCAACAACAACGCGGCCCTTTCTCGTCGCAC
CTTCCGACGCCACTTTCGCATCACAGTCCTTATCAATCATGGGGACAATC
TTATTACCCACAAGCCACTTCACCATACCCACAATACCCTGAATACCAAC
AGAATACGCAAATGACCACCGCCGGAACGTTCGGTCGTCAGGTAGCAGGA
TACCCATATCATAACAATAATAACGGAATCTCTCGTTTGAATTCCTCCAA
TGAGGACATGACACAGGACCCTACAGCTTCGTACGGAAGCCAATCATCAT
TCGCCAATTTGAAAGCACCGACAGGGGGTAGTCAGCTCATATACGCTTAA
AGAAGCACCCGCAGTGACATCCTCCTGACGGATTGAACAAACACATTAAG
GCCACCGATGGCGTAAATTGCAGACCCAAAAATGATCACGTGATCTAAGG
GTGACGTCATTTTAGATGACAGATTTCATAAACAAgcaaaacgaaaaaaa
acacTAAATCACATGAAAACGAGAATTTATTAATTTTATGCAACAGAAGA
CGCGTTCAACAAATATTATATATCATTTGGTTGAATTTTTAGgatcattt
ttatttctttacgGCGGTATAAATAATATTATAAATAAAATGCAAATATT
AAACCAAAGAAAGACTCTAGCCATAATttcaacttttatattttttaact
ttgaaaggaagaatttttttttgaaatcgctGTACATAGTATATTTTCAT
GGTACAAAATTTTgggtttttaagttttaagtgaATTCAATTTGAAGAGG
AAATTCTTAAAAAGTTAATGACAAGGTGGTTGATCCTTGCCAGTTAGATG
GTAATCTTTTCAGAAGCATTTCTTGTTAAAATAATGTTgaattcttttta
ctttttaaggCATATATAGCTTATTTTATTGTTCCCTGGaaggtatttta
ttttattgtagTAAAAAGATTTTATCTTTATTATGTGATGAGCCTTACTG
TAAATATGATTTAGAGCATAAAGAGAAATACAAAGCATTATACTCGACGA
ACATacaaaattat Run BLAST on NCBI protein sequence of paired-like homeodomain protein >TCONS_00047278-protein ID=TCONS_00047278-protein|Name=paired-like homeodomain protein|organism=Clytia hemisphaerica|type=polypeptide|length=225bp
MGELSDDQDSYKNRYPNGKRKQRRYRTTFSQIQLDELERAFEKTHYPDVF
MREELAMRINLTEARVQVWFQNRRAKWRKREKLSFNMQPGQPGTGMPNCD
VTNPYIPTSPKLGQQGQQQRGPFSSHLPTPLSHHSPYQSWGQSYYPQATS
PYPQYPEYQQNTQMTTAGTFGRQVAGYPYHNNNNGISRLNSSNEDMTQDP
TASYGSQSSFANLKAPTGGSQLIYA Run BLAST on NCBI transcript from alignment at scaffold_124:69382..71653+ Legend: exonfive_prime_UTRCDSthree_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00047278 ID=TCONS_00047278|Name=TCONS_00047278|organism=Clytia hemisphaerica|type=transcript|length=2272bp|location=Sequence derived from alignment at scaffold_124:69382..71653+ (Clytia hemisphaerica)
ATCGAGTCATTTGCTAATTTGCCTTCACGTGTACCGGTGTTCTAATTCTT
TTTTCACCAAATATTTTNACATCGAGTCATTTGCTAATTTGCTTTCACGT
GTACCGGTGTTCTAATTCTTTTTCCACCAAACATTTTGTTCAATGGGAGA
ACTCAGTGATGACCAAGGTTATTAATTTGTTTACGTttaattaattgttt
gatgCAACCTTCACTACTACTGTGTACTTCTTGAATAGACTAGCCATACC
ACTCTGCATGGCATAGATACCAAATTCATATCACTTTCAatttaaaatgg
aaaaattaacAATTCTTGTATTCTTCTTTCTACTTCAGACTCGTACAAGA
ATCGCTATCCCAATGGCAAACGAAAACAAAGACGTTACCGAACCACCTTT
TCACAAATCCAGTTGGATGAGTTGGAGCGAGCTTTCGAGAAGACACATTA
TCCTGACGTCTTTATGAGAGAAGAACTTGCCATGAGAATCAACTTGACTG
AAGCTAGAGTCCAGGTGAGATTCCATCTTCAATATAGTTTATCAAGGAAA
AGCGAACAGTTTTTTATGACAACTggaaatttttctgtttttttttcgaa
atccccTGTATCGATTTTTGTAATCAGGTTCGGAGGGAATCTTAATTCTC
GagcttttttttctaattttgattatGAATGCAAACCTCTATGATCTTAG
TCTTTTTTGTAAAGCATTACATAAATGCGAGAGTTGTAAAGTGTATGCGA
AAAAAAAGAGATTGTTTTCCTTAAGCAAAACCACTAGAAAATATAGCAAG
GTAACGActaatccgccattttgaattgaaataaaaataaagcttTATAA
AAGTTCGATTGAGCTAGATGTTAGATGTGGTTTTCTATTGGATAGTTCAA
CCGACGACAGATTAAGACCTAGGTATTGAAAAAGATGTCGTCGTTCAGAG
ATTTTATTTTGGTATCTTTACTCTATGTATCCCATAATAATATGACAAAA
TGTCTCTCATCAGCATAGTAGTATGCGCGGCATGCAAAAATCGTGACTTT
TTTGTAATCCTCGTCTTTTTCCTTGTCTCAGGTGTGGTTTCAAAACAGAC
GTGCCAAATGGAGAAAGCGTGAAAAACTCAGTTTCAACATGCAACCGGGA
CAACCCGGTACCGGGATGCCCAACTGTGACGTCACAAACCCCTACATCCC
GACCAGTCCAAAGCTGGGACAACAAGGTCAACAACAACGCGGCCCTTTCT
CGTCGCACCTTCCGACGCCACTTTCGCATCACAGTCCTTATCAATCATGG
GGACAATCTTATTACCCACAAGCCACTTCACCATACCCACAATACCCTGA
ATACCAACAGAATACGCAAATGACCACCGCCGGAACGTTCGGTCGTCAGG
TAGCAGGATACCCATATCATAACAATAATAACGGAATCTCTCGTTTGAAT
TCCTCCAATGAGGACATGACACAGGACCCTACAGCTTCGTACGGAAGCCA
ATCATCATTCGCCAATTTGAAAGCACCGACAGGGGGTAGTCAGCTCATAT
ACGCTTAAAGAAGCACCCGCAGTGACATCCTCCTGACGGATTGAACAAAC
ACATTAAGGCCACCGATGGCGTAAATTGCAGACCCAAAAATGATCACGTG
ATCTAAGGGTGACGTCATTTTAGATGACAGATTTCATAAACAAgcaaaac
gaaaaaaaacacTAAATCACATGAAAACGAGAATTTATTAATTTTATGCA
ACAGAAGACGCGTTCAACAAATATTATATATCATTTGGTTGAATTTTTAG
gatcatttttatttctttacgGCGGTATAAATAATATTATAAATAAAATG
CAAATATTAAACCAAAGAAAGACTCTAGCCATAATttcaacttttatatt
ttttaactttgaaaggaagaatttttttttgaaatcgctGTACATAGTAT
ATTTTCATGGTACAAAATTTTgggtttttaagttttaagtgaATTCAATT
TGAAGAGGAAATTCTTAAAAAGTTAATGACAAGGTGGTTGATCCTTGCCA
GTTAGATGGTAATCTTTTCAGAAGCATTTCTTGTTAAAATAATGTTgaat
tctttttactttttaaggCATATATAGCTTATTTTATTGTTCCCTGGaag
gtattttattttattgtagTAAAAAGATTTTATCTTTATTATGTGATGAG
CCTTACTGTAAATATGATTTAGAGCATAAAGAGAAATACAAAGCATTATA
CTCGACGAACATacaaaattat Coding sequence (CDS) from alignment at scaffold_124:69382..71653+ >TCONS_00047278 ID=TCONS_00047278|Name=TCONS_00047278|organism=Clytia hemisphaerica|type=CDS|length=2034bp|location=Sequence derived from alignment at scaffold_124:69382..71653+ (Clytia hemisphaerica)
ATGGGAGAACTCAGTGATGACCAAGACTCGTACAAGAATCGCTATCCCAA
TGGCAAACGAAAACAAAGACGTTACCGAACCACCTTTTCACAAATCCAGT
TGGATGAGTTGGAGCGAGCTTTCGAGAAGACACATTATCCTGACGTCTTT
ATGAGAGAAGAACTTGCCATGAGAATCAACTTGACTGAAGCTAGAGTCCA
GGTGTGGTTTCAAAACAGACGTGCCAAATGGAGAAAGCGTGAAAAACTCA
GTTTCAACATGCAACCGGGACAACCCGGTACCGGGATGCCCAACTGTGAC
GTCACAAACCCCTACATCCCGACCAGTCCAAAGCTGGGACAACAAGGTCA
ACAACAACGCGGCCCTTTCTCGTCGCACCTTCCGACGCCACTTTCGCATC
ACAGTCCTTATCAATCATGGGGACAATCTTATTACCCACAAGCCACTTCA
CCATACCCACAATACCCTGAATACCAACAGAATACGCAAATGACCACCGC
CGGAACGTTCGGTCGTCAGGTAGCAGGATACCCATATCATAACAATAATA
ACGGAATCTCTCGTTTGAATTCCTCCAATGAGGACATGACACAGGACCCT
ACAGCTTCGTACGGAAGCCAATCATCATTCGCCAATTTGAAAGCACCGAC
AGGGGGTAGTCAGCTCATATACGCTTAAATGGGAGAACTCAGTGATGACC
AAGACTCGTACAAGAATCGCTATCCCAATGGCAAACGAAAACAAAGACGT
TACCGAACCACCTTTTCACAAATCCAGTTGGATGAGTTGGAGCGAGCTTT
CGAGAAGACACATTATCCTGACGTCTTTATGAGAGAAGAACTTGCCATGA
GAATCAACTTGACTGAAGCTAGAGTCCAGGTGTGGTTTCAAAACAGACGT
GCCAAATGGAGAAAGCGTGAAAAACTCAGTTTCAACATGCAACCGGGACA
ACCCGGTACCGGGATGCCCAACTGTGACGTCACAAACCCCTACATCCCGA
CCAGTCCAAAGCTGGGACAACAAGGTCAACAACAACGCGGCCCTTTCTCG
TCGCACCTTCCGACGCCACTTTCGCATCACAGTCCTTATCAATCATGGGG
ACAATCTTATTACCCACAAGCCACTTCACCATACCCACAATACCCTGAAT
ACCAACAGAATACGCAAATGACCACCGCCGGAACGTTCGGTCGTCAGGTA
GCAGGATACCCATATCATAACAATAATAACGGAATCTCTCGTTTGAATTC
CTCCAATGAGGACATGACACAGGACCCTACAGCTTCGTACGGAAGCCAAT
CATCATTCGCCAATTTGAAAGCACCGACAGGGGGTAGTCAGCTCATATAC
GCTTAAATGGGAGAACTCAGTGATGACCAAGACTCGTACAAGAATCGCTA
TCCCAATGGCAAACGAAAACAAAGACGTTACCGAACCACCTTTTCACAAA
TCCAGTTGGATGAGTTGGAGCGAGCTTTCGAGAAGACACATTATCCTGAC
GTCTTTATGAGAGAAGAACTTGCCATGAGAATCAACTTGACTGAAGCTAG
AGTCCAGGTGTGGTTTCAAAACAGACGTGCCAAATGGAGAAAGCGTGAAA
AACTCAGTTTCAACATGCAACCGGGACAACCCGGTACCGGGATGCCCAAC
TGTGACGTCACAAACCCCTACATCCCGACCAGTCCAAAGCTGGGACAACA
AGGTCAACAACAACGCGGCCCTTTCTCGTCGCACCTTCCGACGCCACTTT
CGCATCACAGTCCTTATCAATCATGGGGACAATCTTATTACCCACAAGCC
ACTTCACCATACCCACAATACCCTGAATACCAACAGAATACGCAAATGAC
CACCGCCGGAACGTTCGGTCGTCAGGTAGCAGGATACCCATATCATAACA
ATAATAACGGAATCTCTCGTTTGAATTCCTCCAATGAGGACATGACACAG
GACCCTACAGCTTCGTACGGAAGCCAATCATCATTCGCCAATTTGAAAGC
ACCGACAGGGGGTAGTCAGCTCATATACGCTTAA
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_00047278-exon-scaffold_124-1491911889:69382..69443 | TCONS_00047278-exon-scaffold_124-1491911889:69382..69443 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1510915933:69382..69443 | TCONS_00047278-exon-scaffold_124-1510915933:69382..69443 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1575043694:69382..69443 | TCONS_00047278-exon-scaffold_124-1575043694:69382..69443 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1491911889:69514..69548 | TCONS_00047278-exon-scaffold_124-1491911889:69514..69548 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1510915933:69514..69548 | TCONS_00047278-exon-scaffold_124-1510915933:69514..69548 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1575043694:69514..69548 | TCONS_00047278-exon-scaffold_124-1575043694:69514..69548 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1491911889:69720..69895 | TCONS_00047278-exon-scaffold_124-1491911889:69720..69895 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1510915933:69720..69895 | TCONS_00047278-exon-scaffold_124-1510915933:69720..69895 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1575043694:69720..69895 | TCONS_00047278-exon-scaffold_124-1575043694:69720..69895 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1491911889:70463..71653 | TCONS_00047278-exon-scaffold_124-1491911889:70463..71653 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1510915933:70463..71653 | TCONS_00047278-exon-scaffold_124-1510915933:70463..71653 | Clytia hemisphaerica | exon |
| TCONS_00047278-exon-scaffold_124-1575043694:70463..71653 | TCONS_00047278-exon-scaffold_124-1575043694:70463..71653 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| scaffold_124 | supercontig | scaffold_124:69382..71653 + |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Molecular Function
| Term | Definition |
|---|
| GO:0003677 | DNA binding |
| GO:0043565 | sequence-specific DNA binding |
Vocabulary: Biological Process
| Term | Definition |
|---|
| GO:0006355 | regulation of transcription, DNA-templated |
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
| Category |
Term Accession |
Term Name |
| biological_process |
GO:0006355 |
regulation of transcription, DNA-templated |
| molecular_function |
GO:0003677 |
DNA binding |
| molecular_function |
GO:0043565 |
sequence-specific DNA binding |
Blast
BLAST of TCONS_00047278 vs. Swiss-Prot (Human)
Match: ARX (Homeobox protein ARX OS=Homo sapiens GN=ARX PE=1 SV=1) HSP 1 Score: 125.561 bits (314), Expect = 6.306e-31 Identity = 60/79 (75.95%), Postives = 66/79 (83.54%), Query Frame = 1
Query: 82 LSDDQDSYKNRYPNGKRKQRRYRTTFSQIQLDELERAFEKTHYPDVFMREELAMRINLTEARVQVWFQNRRAKWRKREK 318
LS DS + KRKQRRYRTTF+ QL+ELERAF+KTHYPDVF REELAMR++LTEARVQVWFQNRRAKWRKREK
Sbjct: 313 LSAGSDSEEGLL---KRKQRRYRTTFTSYQLEELERAFQKTHYPDVFTREELAMRLDLTEARVQVWFQNRRAKWRKREK 388
The following BLAST results are available for this feature:
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