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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00061956 ID=TCONS_00061956|Name=TCONS_00061956|organism=Clytia hemisphaerica|type=transcript|length=2487bp
TTGTTCTTTAGCGATTATTTTCGATTTCCCATTGTTTTAAGATGCGTCAT
TTTTGTTGTGCCGTTGAAAACACCGTTGTGCCGGGTTTTTGTTCATTGTG
ATTTTCCGGAGGAGACTTTATACACAACAAAACATGTTAGGTTTAGAAGA
CATTGATGGATCAGGCCTTTCTCAGAGGAGACGAAGCTGAACAGCCTCAa
cgttttttcttcaatagaaaaacaacattttgcaaaCGAGCTTTTGATAC
TGACAAATCAGTTGATGTATGTGATAGTGGAAAGCTGACGACCGTATAAT
AGCTGGCTCACTTCTAACGAATACAAAAGAAGAAGGGGACGAATTTCAAT
ACACTGATATACAATAAACCGATTCAAGATCATCCTTACAAATTCTTCAA
GAAAAACATCGTACCGCTCGCCGTTAAGTCGAGGTACTGGAGACGCGTGC
CTTCTTTCGATATCAAGAAGACTGTCGCCAAGCAACAGATCAATTTTATT
TGGAAACATTCGTTCGTATAAAAGGGGAAAACAAGAAAATATCATTTCAC
TGTCTTCAATGCAAGACTCGACAACAGAAGGACCAAAACATACAgaagaa
attcatcaaaaacagGACACGCTACAACTTCCTTCGACAACTCTACAACA
ACAACATCAAGAAGACATGGCAGCCACAACGGCTTCGTGCCAATTCTTAA
ACTGTCATGGATATTCACACACTTTACAGTACTTCCCACCATCATGCAGC
CCTCTAACCATGGAGAAATTACGACAGAATGGTGTAGCGGTGCCGACAGA
CCTTACTTTCCCATACATGCAGCAAGAGTACAATTTGCAAGAGGATTTCC
AACAACTTTCACAACATGCACAACAAGAGAAAGAAGATCAGCAACACTAC
CAGATGATGAGCGACAGTAGCAACACCAACAACAAACGTAAGAAACAAGG
GCAACAGAAAAGATCTTGGAACACGGAGAATTACCAGTGGATGAACATCA
AAAGAACAAGGAAACCTCAGCGAATGGAAGATATGGACAACTTAGATTTG
AACAACAATAATATGGACCAGAAATCGGATGTTATCAGTCTGACCGAAAC
ATCTCTCGATTCCTTCAACAGTAGTTCGGAATCCATTCAACCGAATCCAC
CACAAACAACCACGAGCGCTACTGGTGAACAGGGCAAAAAGCGAATCTGT
TTCAGTCAAAAACAAGTAGTCGAACTCGAGaaagaatttcatttcaataa
ataTTTGACTCGCGCACGACGGGTAGAGATTTCACAATCATTGAATTTAA
CGGAAgcacagatcaaaatttggttcCAGAACCGGCGCATGAAACACAAG
CGTGAAATGAAAGGGAAGAGGTTCCAGCTACGTAAACACGATACGCCTCC
CAATAGATGTCCGGTAGAATATCCCTGCGTCACTTCTGACACTATGCAAA
ACATTCAGTGTATGACGTATCAAGAACAGATGCCCGTCTTCCCGCCCATC
ACGCCGCCCGTATGACGAGGCGCTTCGGAGACGAACACTTTTAAATGTTG
GGATTACAATACGGGCGCGGATCGATGCGGGCGGGATGGACAGATAGTCT
TTAACATGTGTACATATGTGGAAATATGATGTAAATATagaataaaacta
aaaaatgcgaagaatcttataaaaaaactgatgCTCACTATTTCAATTTG
CACGCGTGGTTCAGGACCTAACTctaatgaaatttttaatttggaaattt
taagtCCGAAATGATAAGAGGGCTTATCCATAGGAAGAACGGATGAAGCT
GATTAGTAATATTGGAATCGCTCAACGAAATATTAAGATAGACAAAGATT
TATGTCTCTCGAATTCAGATGCTAGAGATCctctagaatttgaaaaatag
ccAACATTACAGATTGGCAAGCCAAAAGTATTTCCAAGGTCAGCTTaaaa
actgcaaaatattttcaaattcaagcaataaataatttctatttttaata
acaataatatagctaattttttgaagaaaaactgaatatttctaaattta
aaaaaaccaaAATCGTGATAAAATAATATAACTGCAAGTAAAAGCCGGGA
GGCCAAGTCAAACATCGCCTCAACGGATAGAAGCTGTCTCCTCATATAAC
TAATTATTTTTTCTGATGATCAAATTATAAAAGTTATAATATATCAGGGA
GTCAGTGATCCAAATGATGTTTGACCTCAATTTGATTAAAGAAACGAGAC
GACACGGCAATCCTTAATTCGTCACGGAATGTGTTTATCTTTGTGTTAGt
tatcttcaaattttgatgtcattcttttttttcattcaattttattATCA
TCAGGTAAGctctaccttaaaggaagaaattttggcggaaagaaaatttg
gcggatttggcggatttcgccaaaatctgccaaattaagttcccgccaaa
atttattttttcctccatcccccaaattaaattcccg Run BLAST on NCBI protein sequence of homeodomain transcription factor protein HOX1 >TCONS_00061956-protein ID=TCONS_00061956-protein|Name=homeodomain transcription factor protein HOX1|organism=Clytia hemisphaerica|type=polypeptide|length=318bp
MQDSTTEGPKHTEEIHQKQDTLQLPSTTLQQQHQEDMAATTASCQFLNCH
GYSHTLQYFPPSCSPLTMEKLRQNGVAVPTDLTFPYMQQEYNLQEDFQQL
SQHAQQEKEDQQHYQMMSDSSNTNNKRKKQGQQKRSWNTENYQWMNIKRT
RKPQRMEDMDNLDLNNNNMDQKSDVISLTETSLDSFNSSSESIQPNPPQT
TTSATGEQGKKRICFSQKQVVELEKEFHFNKYLTRARRVEISQSLNLTEA
QIKIWFQNRRMKHKREMKGKRFQLRKHDTPPNRCPVEYPCVTSDTMQNIQ
CMTYQEQMPVFPPITPPV Run BLAST on NCBI transcript from alignment at scaffold_361:1685742..1688626+ Legend: exonfive_prime_UTRCDSthree_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00061956 ID=TCONS_00061956|Name=TCONS_00061956|organism=Clytia hemisphaerica|type=transcript|length=2885bp|location=Sequence derived from alignment at scaffold_361:1685742..1688626+ (Clytia hemisphaerica)
TTGTTCTTTAGCGATTATTTTCGATTTCCCATTGTTTTAAGATGCGTCAT
TTTTGTTGTGCCGTTGAAAACACCGTTGTGCCGGGTTTTTGTTCATTGTG
ATTTTCCGGAGGAGACTTTATACACAACAAAACATGTTAGGTTTAGAAGA
CATTGATGGATCAGGCCTTTCTCAGAGGAGACGAAGCTGAACAGCCTCAa
cgttttttcttcaatagaaaaacaacattttgcaaaCGAGCTTTTGATAC
TGACAAATCAGTTGATGTATGTGATAGTGGAAAGCTGACGACCGTATAAT
AGCTGGCTCACTTCTAACGAATACAAAAGAAGAAGGGGACGAATTTCAAT
ACACTGATATACAATAAACCGATTCAAGATCATCCTTACAAATTCTTCAA
GAAAAACATCGTACCGCTCGCCGTTAAGTCGAGGTACTGGAGACGCGTGC
CTTCTTTCGATATCAAGAAGACTGTCGCCAAGCAACAGATCAATTTTATT
TGGAAACATTCGTTCGTATAAAAGGGGAAAACAAGAAAATATCATTTCAC
TGTCTTCAATGCAAGACTCGACAACAGAAGGACCAAAACATACAgaagaa
attcatcaaaaacagGACACGCTACAACTTCCTTCGACAACTCTACAACA
ACAACATCAAGAAGACATGGCAGCCACAACGGCTTCGTGCCAATTCTTAA
ACTGTCATGGATATTCACACACTTTACAGTACTTCCCACCATCATGCAGC
CCTCTAACCATGGAGAAATTACGACAGAATGGTGTAGCGGTGCCGACAGA
CCTTACTTTCCCATACATGCAGCAAGAGTACAATTTGCAAGAGGATTTCC
AACAACTTTCACAACATGCACAACAAGAGAAAGAAGATCAGCAACACTAC
CAGATGATGAGCGACAGTAGCAACACCAACAACAAACGTAAGAAACAAGG
GCAACAGAAAAGATCTTGGAACACGGAGAATTACCAGTGGATGAACATCA
AAAGAACAAGGAAACCTCAGCGAATGGAAGGTAAACAAAATACTCTTCTC
TTTTTATCTGATAAAAGATAGTACCAACTTGAATTCTCCTGACCATCTAA
GTCTATAGGTGTATAACTAGATCTAAAAGTCATCCCAAGGGTTTAGAATT
TACTACCCGTTAGCATCAGTTTAGGCATACGCTTGAACAGTGacaaaaac
taaaacaaaaaatttctttttaaactgaagtatcaaagttttttttatgg
ctgagtttcagtttttaaaattgagctTGTACCATTTAGTatagtctgta
cacaaaccaGATATCTACTACGCTatgataaacgtgagatacactctggt
acagaatACATTTGGCACGAATTGAATGAATTTAAATGATCCTGAAGTCT
GAAAATAAACATGATTTCTACCTTCTAGATATGGACAACTTAGATTTGAA
CAACAATAATATGGACCAGAAATCGGATGTTATCAGTCTGACCGAAACAT
CTCTCGATTCCTTCAACAGTAGTTCGGAATCCATTCAACCGAATCCACCA
CAAACAACCACGAGCGCTACTGGTGAACAGGGCAAAAAGCGAATCTGTTT
CAGTCAAAAACAAGTAGTCGAACTCGAGaaagaatttcatttcaataaat
aTTTGACTCGCGCACGACGGGTAGAGATTTCACAATCATTGAATTTAACG
GAAgcacagatcaaaatttggttcCAGAACCGGCGCATGAAACACAAGCG
TGAAATGAAAGGGAAGAGGTTCCAGCTACGTAAACACGATACGCCTCCCA
ATAGATGTCCGGTAGAATATCCCTGCGTCACTTCTGACACTATGCAAAAC
ATTCAGTGTATGACGTATCAAGAACAGATGCCCGTCTTCCCGCCCATCAC
GCCGCCCGTATGACGAGGCGCTTCGGAGACGAACACTTTTAAATGTTGGG
ATTACAATACGGGCGCGGATCGATGCGGGCGGGATGGACAGATAGTCTTT
AACATGTGTACATATGTGGAAATATGATGTAAATATagaataaaactaaa
aaatgcgaagaatcttataaaaaaactgatgCTCACTATTTCAATTTGCA
CGCGTGGTTCAGGACCTAACTctaatgaaatttttaatttggaaatttta
agtCCGAAATGATAAGAGGGCTTATCCATAGGAAGAACGGATGAAGCTGA
TTAGTAATATTGGAATCGCTCAACGAAATATTAAGATAGACAAAGATTTA
TGTCTCTCGAATTCAGATGCTAGAGATCctctagaatttgaaaaatagcc
AACATTACAGATTGGCAAGCCAAAAGTATTTCCAAGGTCAGCTTaaaaac
tgcaaaatattttcaaattcaagcaataaataatttctatttttaataac
aataatatagctaattttttgaagaaaaactgaatatttctaaatttaaa
aaaaccaaAATCGTGATAAAATAATATAACTGCAAGTAAAAGCCGGGAGG
CCAAGTCAAACATCGCCTCAACGGATAGAAGCTGTCTCCTCATATAACTA
ATTATTTTTTCTGATGATCAAATTATAAAAGTTATAATATATCAGGGAGT
CAGTGATCCAAATGATGTTTGACCTCAATTTGATTAAAGAAACGAGACGA
CACGGCAATCCTTAATTCGTCACGGAATGTGTTTATCTTTGTGTTAGtta
tcttcaaattttgatgtcattcttttttttcattcaattttattATCATC
AGGTAAGctctaccttaaaggaagaaattttggcggaaagaaaatttggc
ggatttggcggatttcgccaaaatctgccaaattaagttcccgccaaaat
ttattttttcctccatcccccaaattaaattcccg Coding sequence (CDS) from alignment at scaffold_361:1685742..1688626+ >TCONS_00061956 ID=TCONS_00061956|Name=TCONS_00061956|organism=Clytia hemisphaerica|type=CDS|length=1914bp|location=Sequence derived from alignment at scaffold_361:1685742..1688626+ (Clytia hemisphaerica)
ATGCAAGACTCGACAACAGAAGGACCAAAACATACAgaagaaattcatca
aaaacagGACACGCTACAACTTCCTTCGACAACTCTACAACAACAACATC
AAGAAGACATGGCAGCCACAACGGCTTCGTGCCAATTCTTAAACTGTCAT
GGATATTCACACACTTTACAGTACTTCCCACCATCATGCAGCCCTCTAAC
CATGGAGAAATTACGACAGAATGGTGTAGCGGTGCCGACAGACCTTACTT
TCCCATACATGCAGCAAGAGTACAATTTGCAAGAGGATTTCCAACAACTT
TCACAACATGCACAACAAGAGAAAGAAGATCAGCAACACTACCAGATGAT
GAGCGACAGTAGCAACACCAACAACAAACGTAAGAAACAAGGGCAACAGA
AAAGATCTTGGAACACGGAGAATTACCAGTGGATGAACATCAAAAGAACA
AGGAAACCTCAGCGAATGGAAGATATGGACAACTTAGATTTGAACAACAA
TAATATGGACCAGAAATCGGATGTTATCAGTCTGACCGAAACATCTCTCG
ATTCCTTCAACAGTAGTTCGGAATCCATTCAACCGAATCCACCACAAACA
ACCACGAGCGCTACTGGTGAACAGGGCAAAAAGCGAATCTGTTTCAGTCA
AAAACAAGTAGTCGAACTCGAGaaagaatttcatttcaataaataTTTGA
CTCGCGCACGACGGGTAGAGATTTCACAATCATTGAATTTAACGGAAgca
cagatcaaaatttggttcCAGAACCGGCGCATGAAACACAAGCGTGAAAT
GAAAGGGAAGAGGTTCCAGCTACGTAAACACGATACGCCTCCCAATAGAT
GTCCGGTAGAATATCCCTGCGTCACTTCTGACACTATGCAAAACATTCAG
TGTATGACGTATCAAGAACAGATGCCCGTCTTCCCGCCCATCACGCCGCC
CGTATGAATGCAAGACTCGACAACAGAAGGACCAAAACATACAgaagaaa
ttcatcaaaaacagGACACGCTACAACTTCCTTCGACAACTCTACAACAA
CAACATCAAGAAGACATGGCAGCCACAACGGCTTCGTGCCAATTCTTAAA
CTGTCATGGATATTCACACACTTTACAGTACTTCCCACCATCATGCAGCC
CTCTAACCATGGAGAAATTACGACAGAATGGTGTAGCGGTGCCGACAGAC
CTTACTTTCCCATACATGCAGCAAGAGTACAATTTGCAAGAGGATTTCCA
ACAACTTTCACAACATGCACAACAAGAGAAAGAAGATCAGCAACACTACC
AGATGATGAGCGACAGTAGCAACACCAACAACAAACGTAAGAAACAAGGG
CAACAGAAAAGATCTTGGAACACGGAGAATTACCAGTGGATGAACATCAA
AAGAACAAGGAAACCTCAGCGAATGGAAGATATGGACAACTTAGATTTGA
ACAACAATAATATGGACCAGAAATCGGATGTTATCAGTCTGACCGAAACA
TCTCTCGATTCCTTCAACAGTAGTTCGGAATCCATTCAACCGAATCCACC
ACAAACAACCACGAGCGCTACTGGTGAACAGGGCAAAAAGCGAATCTGTT
TCAGTCAAAAACAAGTAGTCGAACTCGAGaaagaatttcatttcaataaa
taTTTGACTCGCGCACGACGGGTAGAGATTTCACAATCATTGAATTTAAC
GGAAgcacagatcaaaatttggttcCAGAACCGGCGCATGAAACACAAGC
GTGAAATGAAAGGGAAGAGGTTCCAGCTACGTAAACACGATACGCCTCCC
AATAGATGTCCGGTAGAATATCCCTGCGTCACTTCTGACACTATGCAAAA
CATTCAGTGTATGACGTATCAAGAACAGATGCCCGTCTTCCCGCCCATCA
CGCCGCCCGTATGA
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_00061956-exon-scaffold_361-1491911889:1685742..1686771 | TCONS_00061956-exon-scaffold_361-1491911889:1685742..1686771 | Clytia hemisphaerica | exon |
| TCONS_00061956-exon-scaffold_361-1510915933:1685742..1686771 | TCONS_00061956-exon-scaffold_361-1510915933:1685742..1686771 | Clytia hemisphaerica | exon |
| TCONS_00061956-exon-scaffold_361-1575043694:1685742..1686771 | TCONS_00061956-exon-scaffold_361-1575043694:1685742..1686771 | Clytia hemisphaerica | exon |
| TCONS_00061956-exon-scaffold_361-1491911889:1687170..1688626 | TCONS_00061956-exon-scaffold_361-1491911889:1687170..1688626 | Clytia hemisphaerica | exon |
| TCONS_00061956-exon-scaffold_361-1510915933:1687170..1688626 | TCONS_00061956-exon-scaffold_361-1510915933:1687170..1688626 | Clytia hemisphaerica | exon |
| TCONS_00061956-exon-scaffold_361-1575043694:1687170..1688626 | TCONS_00061956-exon-scaffold_361-1575043694:1687170..1688626 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
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| scaffold_361 | supercontig | scaffold_361:1685742..1688626 + |
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_00061956 vs. Swiss-Prot (Human)
Match: HXA3 (Homeobox protein Hox-A3 OS=Homo sapiens GN=HOXA3 PE=1 SV=1) HSP 1 Score: 100.908 bits (250), Expect = 2.021e-22 Identity = 52/111 (46.85%), Postives = 70/111 (63.06%), Query Frame = 1
Query: 1186 KKRICFSQKQVVELEKEFHFNKYLTRARRVEISQSLNLTEAQIKIWFQNRRMKHKREMKGKRFQLRKHDTPPNRCPVEYPCVTS--DTMQN-IQCMTYQEQMPVFPPITPP 1509
+ R ++ Q+VELEKEFHFN+YL R RRVE++ LNLTE QIKIWFQNRRMK+K++ KGK P+R PV P ++M + + + Y+ Q P PP + P
Sbjct: 193 RARTAYTSAQLVELEKEFHFNRYLCRPRRVEMANLLNLTERQIKIWFQNRRMKYKKDQKGKGMLTSSGGQSPSRSPVP-PGAGGYLNSMHSLVNSVPYEPQSP--PPFSKP 300
The following BLAST results are available for this feature:
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