TCONS_00050614 (transcript) - C. hemisphaerica

Overview
NameTCONS_00050614
Unique NameTCONS_00050614
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1411

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00050614 ID=TCONS_00050614|Name=TCONS_00050614|organism=Clytia hemisphaerica|type=transcript|length=1411bp
gaaaaagaaaaagaacattCTTTTTTAATAGCATAAATAGAGAGATAGAA
ATGTCAAATAGTTTAAAATCTGTGTCGCAAGTGCGCATGCCCAAAGTAAG
ACAACATCTATAAAGAGGTTGTTAAAAAATTCTGATATATCATTAACAGA
AACGTCGCGTCACAGTACACTGCACACGCagaaagtgaagaagaagaaga
agaagaagaaagcagaaaatagatttaaaaGGAATTTTATTTGTgaagaa
aaatttattaaaaaaatgtcgCGATCATTTTTCATCGATACGATCATTCA
CGAGAAAGAGAAGTTGTTACGACAGACCTCGCCGATCAAACAACAACCGA
TCGCATCGTCGTCGCCATCATCACGCGAACCATCGCCGATCTCCGAACAC
GGAAATCAATACCAACTTTCACCGATATCCCGATACAATCAATCGCCATC
ACCTCGCTCACCTCCCTCACCAACTGGACATCAAGATTATTCAAGATCAT
CGCAAAATATCTCTTCCACATCGTTACACCATGGCTCCGCATTGTGCGGA
TGTTGTCCACCACAGCCACACTCACGCTTATGCATGTGCTCCTCGTGTGA
GAGCGGACCCAGAGAAGGGGAAGCGGCGCCGTTCGGATCACCAAGAGAAG
CAACTCATCACACAACAAGATATTTATATGGTGGAAGCGAAAGAGGGCGT
ATCTTTTCTCTTGCATCTCCGATCAATTCAAGAGCTCGACCACAATTTCC
CGCGCTTTATGTACGAGACTTGGACAGCCGTCGCTTACAACTTCAACAAC
AGGTACAACACCAACGACAACAACAACTTGAAGAACAACAAGGAGGAGGT
AGCAAAAGCAAACGAATCCGTACAGCCTATACTAGTATCCAACTTcttga
acttgaaaaagaatTCCAAAATAATCGATATCTTTCAAGATTAAGGCGTA
TTCAAATTGCAGCTATGTTAGATCTGACGGAAAAACAAGTGAAGATTTGG
TTTCAGAACCGACGTGTGAAATGGAAGAAGGATAAGAAAAGCGGTTTCAA
CAATAGTTATTCACCTATTGGATCTCCAGAATCTCCACTTTACCAAACTG
GTGAACTATTACATTAAGAAGaactataatttttttgtaatttcttttgt
aaaaacgATAGAATAATATCATAGAAATTTAATATATCTTGAAGGTAGTT
ATTTATTTATCATTGATGCCGCATATGATGTcattttatcaataaaatta
atttttgtataCCTTAATTTATTGTCCTAGGGGAAGGAATTCCCAATaca
taattttgaaaaagaatgatgtaaatatattttttgtgaaagaattTGTA
CATAAacgaatgaaatgaaatttgatacaAAAATATAACAGAAACAGAAA
GCAAaaataat
Run BLAST on NCBI

protein sequence of homeodomain transcription factor protein GSX

>TCONS_00050614-protein ID=TCONS_00050614-protein|Name=homeodomain transcription factor protein GSX|organism=Clytia hemisphaerica|type=polypeptide|length=283bp
MSRSFFIDTIIHEKEKLLRQTSPIKQQPIASSSPSSREPSPISEHGNQYQ
LSPISRYNQSPSPRSPPSPTGHQDYSRSSQNISSTSLHHGSALCGCCPPQ
PHSRLCMCSSCESGPREGEAAPFGSPREATHHTTRYLYGGSERGRIFSLA
SPINSRARPQFPALYVRDLDSRRLQLQQQVQHQRQQQLEEQQGGGSKSKR
IRTAYTSIQLLELEKEFQNNRYLSRLRRIQIAAMLDLTEKQVKIWFQNRR
VKWKKDKKSGFNNSYSPIGSPESPLYQTGELLH
Run BLAST on NCBI

transcript from alignment at scaffold_18:133888..135776-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00050614 ID=TCONS_00050614|Name=TCONS_00050614|organism=Clytia hemisphaerica|type=transcript|length=1889bp|location=Sequence derived from alignment at scaffold_18:133888..135776- (Clytia hemisphaerica)
GAAAAAGAAAAAGAACATTCTTTTTTAATAGCATAAATAGAGAGATAGAA
ATGTCAAATAGTTTAAAATCTGTGTCGCAAGTGCGCATGCCCAAAGTAAG
ACAACATCTATAAAGAGGTTGTTAAAAAATTCTGATATATCATTAACAGA
AACGTCGCGTCACAGTACACTGCACACGCAGAAAGTGAAGAAGAAGAAGA
AGAAGAAGAAAGCAGAAAATAGATTTAAAAGGAATTTTATTTGTGAAGAA
AAATTTATTAAAAAAATGTCGCGATCATTTTTCATCGATACGATCATTCA
CGAGAAAGAGAAGTTGTTACGACAGACCTCGCCGATCAAACAACAACCGA
TCGCATCGTCGTCGCCATCATCACGCGAACCATCGCCGATCTCCGAACAC
GGAAATCAATACCAACTTTCACCGATATCCCGATACAATCAATCGCCATC
ACCTCGCTCACCTCCCTCACCAACTGGACATCAAGATTATTCAAGATCAT
CGCAAAATATCTCTTCCACATCGTTACACCATGGCTCCGCATTGTGCGGA
TGTTGTCCACCACAGCCACACTCACGCTTATGCATGTGCTCCTCGTGTGA
GAGCGGACCCAGAGAAGGGGAAGCGGCGCCGTTCGGATCACCAAGAGAAG
CAACTCATCACACAACAAGATATTTATATGGTGGAAGCGAAAGAGGGCGT
ATCTTTTCTCTTGCATCTCCGATCAATTCAAGAGCTCGACCACAATTTCC
CGCGCTTTATGGTAAATTTCATTATCTCATTATTCTATCATTTTTCTTGA
TCTCTTTTCTTGACTCCCAAACAAATTTTACATTGGAAGGGTAAATCTTC
TTGACTTTCTGCATTTTTAAAAGGACACAAATACAATTTTAAGAAATTTG
GCGCGCATTGAGGTATAAGTAAAAGCGCGCAAATTGTCTTTGCATGATAT
TGTAAACATATTTATGCTGAAGAATATTGCGCCTGAAATAATGATATTTT
CGCGCCAAAAACACATATTACGTGTTGCGATAATTGCAAACAAAGTAGAT
ATTCTGAATTGTTTGATAATTATGTTTTAAACGTTAGATCGTTTATGAAG
ACGCAAACATTAAAAACATTCTTGTTTTGACAAAACAATCGCGTACTACA
GAGAAGAGTACTATCAAGATGACCCCTCCCTTTCTGTAAAGCTACAATGA
ATGAAACTTAACATTCTTTCTTCCTTTTTCTTTCAACAGTACGAGACTTG
GACAGCCGTCGCTTACAACTTCAACAACAGGTACAACACCAACGACAACA
ACAACTTGAAGAACAACAAGGAGGAGGTAGCAAAAGCAAACGAATCCGTA
CAGCCTATACTAGTATCCAACTTCTTGAACTTGAAAAAGAATTCCAAAAT
AATCGATATCTTTCAAGATTAAGGCGTATTCAAATTGCAGCTATGTTAGA
TCTGACGGAAAAACAAGTGAAGATTTGGTTTCAGAACCGACGTGTGAAAT
GGAAGAAGGATAAGAAAAGCGGTTTCAACAATAGTTATTCACCTATTGGA
TCTCCAGAATCTCCACTTTACCAAACTGGTGAACTATTACATTAAGAAGA
ACTATAATTTTTTTGTAATTTCTTTTGTAAAAACGATAGAATAATATCAT
AGAAATTTAATATATCTTGAAGGTAGTTATTTATTTATCATTGATGCCGC
ATATGATGTCATTTTATCAATAAAATTAATTTTTGTATACCTTAATTTAT
TGTCCTAGGGGAAGGAATTCCCAATACATAATTTTGAAAAAGAATGATGT
AAATATATTTTTTGTGAAAGAATTTGTACATAAACGAATGAAATGAAATT
TGATACAAAAATATAACAGAAACAGAAAGCAAAAATAAT

Coding sequence (CDS) from alignment at scaffold_18:133888..135776-

>TCONS_00050614 ID=TCONS_00050614|Name=TCONS_00050614|organism=Clytia hemisphaerica|type=CDS|length=1704bp|location=Sequence derived from alignment at scaffold_18:133888..135776- (Clytia hemisphaerica)
TACGAGACTTGGACAGCCGTCGCTTACAACTTCAACAACAGGTACAACAC
CAACGACAACAACAACTTGAAGAACAACAAGGAGGAGGTAGCAAAAGCAA
ACGAATCCGTACAGCCTATACTAGTATCCAACTTCTTGAACTTGAAAAAG
AATTCCAAAATAATCGATATCTTTCAAGATTAAGGCGTATTCAAATTGCA
GCTATGTTAGATCTGACGGAAAAACAAGTGAAGATTTGGTTTCAGAACCG
ACGTGTGAAATGGAAGAAGGATAAGAAAAGCGGTTTCAACAATAGTTATT
CACCTATTGGATCTCCAGAATCTCCACTTTACCAAACTGGTGAACTATTA
CATTAAATGTCGCGATCATTTTTCATCGATACGATCATTCACGAGAAAGA
GAAGTTGTTACGACAGACCTCGCCGATCAAACAACAACCGATCGCATCGT
CGTCGCCATCATCACGCGAACCATCGCCGATCTCCGAACACGGAAATCAA
TACCAACTTTCACCGATATCCCGATACAATCAATCGCCATCACCTCGCTC
ACCTCCCTCACCAACTGGACATCAAGATTATTCAAGATCATCGCAAAATA
TCTCTTCCACATCGTTACACCATGGCTCCGCATTGTGCGGATGTTGTCCA
CCACAGCCACACTCACGCTTATGCATGTGCTCCTCGTGTGAGAGCGGACC
CAGAGAAGGGGAAGCGGCGCCGTTCGGATCACCAAGAGAAGCAACTCATC
ACACAACAAGATATTTATATGGTGGAAGCGAAAGAGGGCGTATCTTTTCT
CTTGCATCTCCGATCAATTCAAGAGCTCGACCACAATTTCCCGCGCTTTA
TGTACGAGACTTGGACAGCCGTCGCTTACAACTTCAACAACAGGTACAAC
ACCAACGACAACAACAACTTGAAGAACAACAAGGAGGAGGTAGCAAAAGC
AAACGAATCCGTACAGCCTATACTAGTATCCAACTTCTTGAACTTGAAAA
AGAATTCCAAAATAATCGATATCTTTCAAGATTAAGGCGTATTCAAATTG
CAGCTATGTTAGATCTGACGGAAAAACAAGTGAAGATTTGGTTTCAGAAC
CGACGTGTGAAATGGAAGAAGGATAAGAAAAGCGGTTTCAACAATAGTTA
TTCACCTATTGGATCTCCAGAATCTCCACTTTACCAAACTGGTGAACTAT
TACATTAAATGTCGCGATCATTTTTCATCGATACGATCATTCACGAGAAA
GAGAAGTTGTTACGACAGACCTCGCCGATCAAACAACAACCGATCGCATC
GTCGTCGCCATCATCACGCGAACCATCGCCGATCTCCGAACACGGAAATC
AATACCAACTTTCACCGATATCCCGATACAATCAATCGCCATCACCTCGC
TCACCTCCCTCACCAACTGGACATCAAGATTATTCAAGATCATCGCAAAA
TATCTCTTCCACATCGTTACACCATGGCTCCGCATTGTGCGGATGTTGTC
CACCACAGCCACACTCACGCTTATGCATGTGCTCCTCGTGTGAGAGCGGA
CCCAGAGAAGGGGAAGCGGCGCCGTTCGGATCACCAAGAGAAGCAACTCA
TCACACAACAAGATATTTATATGGTGGAAGCGAAAGAGGGCGTATCTTTT
CTCTTGCATCTCCGATCAATTCAAGAGCTCGACCACAATTTCCCGCGCTT
TATG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_032060XLOC_032060Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
homeodomain transcription factor protein GSXTCONS_00050614-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00050614-exon-scaffold_18-1575043694:135016..135776TCONS_00050614-exon-scaffold_18-1575043694:135016..135776Clytia hemisphaericaexon
TCONS_00050614-exon-scaffold_18-1575043694:133888..134537TCONS_00050614-exon-scaffold_18-1575043694:133888..134537Clytia hemisphaericaexon
TCONS_00050614-exon-scaffold_18-1510915933:135016..135776TCONS_00050614-exon-scaffold_18-1510915933:135016..135776Clytia hemisphaericaexon
TCONS_00050614-exon-scaffold_18-1510915933:133888..134537TCONS_00050614-exon-scaffold_18-1510915933:133888..134537Clytia hemisphaericaexon
TCONS_00050614-exon-scaffold_18-1491911889:135016..135776TCONS_00050614-exon-scaffold_18-1491911889:135016..135776Clytia hemisphaericaexon
TCONS_00050614-exon-scaffold_18-1491911889:133888..134537TCONS_00050614-exon-scaffold_18-1491911889:133888..134537Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_18supercontigscaffold_18:133888..135776 -
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
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Values : 
    GrOo_1	 GrOo_2	 FGOo_1	 FGOo_2	 EG_1	 EG_2	 P1_1	 P1_2	 P2_1	 P2_2	 P3_1	 P3_2	 PoPr_1	 PoPr_2	 St_1	 St_2	 GO_1	 GO_2	 PH_1	 PH_2	 BMF_1	 BMF_2	 MMF_1	 MMF_2	 M_1	 M_2	 GEC_1	 GEC_2	 GEN_1	 GEN_2
0	0.0287824	0.0668381	0.0326953	9.95086	7.51732	2.73218	2.77099	2.73594	0.801015	4.45558	4.44253	7.77344	5.07607	1.50839	4.71232	13.5159	14.4211	4.1416	3.67723	16.6373	16.9957	1.79363	2.52292	3.6443	3.90294	1.01179	0.475118	0	0.0333773
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR020479Homeobox_metazoa
IPR001356Homeobox_dom
IPR017970Homeobox_CS
IPR009057Homeobox-like
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0043565sequence-specific DNA binding
Vocabulary: Biological Process
TermDefinition
GO:0006355regulation 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
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BLAST of TCONS_00050614 vs. Swiss-Prot (Human)
Match: HXB3 (Homeobox protein Hox-B3 OS=Homo sapiens GN=HOXB3 PE=2 SV=2)

HSP 1 Score: 106.686 bits (265), Expect = 5.349e-25
Identity = 52/89 (58.43%), Postives = 68/89 (76.40%), Query Frame = 2 
Query:  845 GGSKSKRIRTAYTSIQLLELEKEFQNNRYLSRLRRIQIAAMLDLTEKQVKIWFQNRRVKWKKDKKS-GFNNSY---SPIGSPESPLYQT 1099
            G + SKR RTAYTS QL+ELEKEF  NRYL R RR+++A +L+L+E+Q+KIWFQNRR+K+KKD+K+ G  +S    SP GSP  P+  T
Sbjct:  184 GSAASKRARTAYTSAQLVELEKEFHFNRYLCRPRRVEMANLLNLSERQIKIWFQNRRMKYKKDQKAKGLASSSGGPSPAGSPPQPMQST 272
The following BLAST results are available for this feature:
BLAST of TCONS_00050614 vs. Swiss-Prot (Human)
Analysis Date: 2017-10-03 (blastx Clytia hemisphaerica v1.0 mRNA vs SwissProt (Homo sapiens))
Total hits: 1
Match NameE-valueIdentityDescription
HXB35.349e-2558.43Homeobox protein Hox-B3 OS=Homo sapiens GN=HOXB3 P... [more]
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