TCONS_00019172 (transcript) - C. hemisphaerica

Overview
NameTCONS_00019172
Unique NameTCONS_00019172
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1124

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00019172 ID=TCONS_00019172|Name=TCONS_00019172|organism=Clytia hemisphaerica|type=transcript|length=1124bp
TTCACATTTAACTCGTCAATAAGCAAACATACAACTttacaaacttttgc
gattttaagcctcgttttgATGTGTACAAAGACGATGATGGCAAACGATA
AATCACCATTCTCCATCGATTGGATTCTACGCAAAGAGAGCGGCTTGGAT
CGCGTGGATAAAATCAAAAACGTCATTCGCGTTTATGAGCAAGCCAACCC
CTTCAGATACCCTTCCTGTTATAAGGACTTATCTTTGGTCAAATACAAGT
TGGACAAATGTTGTCCACCATCAAGACAGAATCCGCTTCACACTTTGCAG
CGATCAAGGTCACCCGTTTCTCCTGCAAAGTCTCATACAACCATATCGTC
CATCAGTAAACCCCCGTCACCTCTCCATTCATCTTGCACATGTCACACGA
AGGTTGACATCAAAGACGGGGGTCATGTTGTTGAGAAATCGGGGTACGAA
GATCACAATATGAATAGCTATGATGATGTTTTTGTAGAAGAGCGTATCAC
AATGACATCACTCAATACTAAAGCAAAAGATCTATCAAGAAGTTTATCAA
CGAGTTCATCCAACTGTTCGGATCTTTCTGCACCAAGTCCTCGCTCTGAT
GAAGAGGGAAGTGAAACATTCGCACATGGTAGACGAAACCGAACCATTTT
TACCAAGAAACAAGCCTCTGAACTCGAACGCGTCTTCCAAACCACTCACT
ATCCCGACCTTAAATGCCGACACGAAATCTCCAAAGTCACCAAATTATCG
GAAAATAGGATTCAGGTTTGGTTTCAAAATCGTCGTGCTAAATGGAGACG
AACGGAAAAAACGTGGGGCGAAGGCTCGGTGATGGCGAAATACGGCCTTT
ACGGTGCCATGGTCCGTCATTCATTGAAAACACGGAAAAGTGAGAATGAA
ACGAGTTAGACACTCAATACTCGGAACTTTGTACAAATATTAGAGATTAT
TTTTCAGAGTTTATATGTTCTTCTTGTATATAAAATATGGCTTTTTGGTA
AAATGAGAATTGTaaattttataattattttcaaatgatttatatttgtt
tcaaatttaaaaatttaacttgCAGTGAATTTAATAATATCTTTTTATTA
TCGAATGAATCAGAGCAAAATCTA
Run BLAST on NCBI

protein sequence of TCONS_00019172-protein

>TCONS_00019172-protein ID=TCONS_00019172-protein|Name=TCONS_00019172-protein|organism=Clytia hemisphaerica|type=polypeptide|length=302bp
FTFNSSISKHTTLQTFAILSLVLMCTKTMMANDKSPFSIDWILRKESGLD
RVDKIKNVIRVYEQANPFRYPSCYKDLSLVKYKLDKCCPPSRQNPLHTLQ
RSRSPVSPAKSHTTISSISKPPSPLHSSCTCHTKVDIKDGGHVVEKSGYE
DHNMNSYDDVFVEERITMTSLNTKAKDLSRSLSTSSSNCSDLSAPSPRSD
EEGSETFAHGRRNRTIFTKKQASELERVFQTTHYPDLKCRHEISKVTKLS
ENRIQVWFQNRRAKWRRTEKTWGEGSVMAKYGLYGAMVRHSLKTRKSENE
TS
Run BLAST on NCBI

transcript from alignment at sc0000320:38273..40683-

Legend: exonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00019172 ID=TCONS_00019172|Name=TCONS_00019172|organism=Clytia hemisphaerica|type=transcript|length=2411bp|location=Sequence derived from alignment at sc0000320:38273..40683- (Clytia hemisphaerica)
TTCACATTTAACTCGTCAATAAGCAAACATACAACTTTACAAACTTTTGC
GATTTTAAGCCTCGTTTTGATGTGTACAAAGACGATGATGGCAAACGATA
AATCACCATTCTCCATCGATTGGATTCTACGCAAAGAGAGCGGCTTGGAT
CGCGTGGATAAAATCAAAAACGTCATTCGCGTTTATGAGCAAGCCAACCC
CTTCAGATACCCTTCCTGTTATAAGGACTTATCTTTGGTCAAATACAAGT
TGGACAAATGTTGTCCACCATCAAGACAGAATCCGCTTCACACTTTGCAG
CGATCAAGGTCACCCGTTTCTCCTGCAAAGTCTCATACAACCATATCGTC
CATCAGTAAACCCCCGTCACCTCTCCATTCATCTTGCACATGTCACACGA
AGGTTGACATCAAAGACGGGGGTCATGTTGTTGAGAAATCGGGGTACGAA
GATCACAATATGAATAGCTATGATGATGTTTTTGTAGAAGAGCGTATCAC
AATGACATCACTCAATACTAAAGCAAAAGGTAAGCATTTCCTCCGAGAAT
TTCTAATTTCAACAACTTTCTAACTATTGGAAGTTGATAACGCTCTTCGT
TTTAATAGACCCTTCTCTCGAACTTTTCTCTCCTTTTTACACGATGTAGA
TCTATCAAGAAGTTTATCAACGAGTTCATCCAACTGTTCGGATCTTTCTG
CACCAAGTCCTCGCTCTGATGAAGAGGGAAGTGAAACATTCGCACATGGT
AGACGAAACCGAACCATTTTTACCAAGAAACAAGCCTCTGAACTCGAACG
CGTCTTCCAAACCACTCACTATCCCGACCTTAAATGCCGACACGAAATCT
CCAAAGTCACCAAATTATCGGAAAATAGGATTCAGGTACGTTACACATTT
ACGTTTGCTCTTATAATAGTTTTTGAGGAGAATGACATGAACAAAATGTG
TCCAGAAGTTCTGTAAACATGCGACGAAACTAAAATGTTAAAAAGAAATA
TTTATAGCGGTTCATAAAAATAAAACCCTTGAGAAATAGTGCTGGTGAGC
AATTATCATTAAATTTCTATTGGCTTTTTCTCTTTGAGTGGCATCAAGCA
TAAATTCGTTTTTAATTAATCATTACTAATTAGCCTTGAAGTGAATTGCT
TGATCGCGTTAATGAGCAGTAAAGACAGAAATAGAATTGAAACAATGCTT
TTGAAACAATGTGCATGCTTTTGTTTCATTGATTAGTATTGTCATTAGCA
GTAAACGCACGCGTCCAATTAAAGCGTACCAATCAAATGTGAAACTCTTG
GTTGAATCTTTTTAGTTTCCAGGTCTCTCAGTGTCCAGTCTCAATCTCAA
ACAAAACAAAACAAAACAAAATGAACAATATTGCACAATAATTTCAAAAG
CTCACCCATCTAATTTTCGACATATACAAAAATGAAGCCAAAATTGTTGT
GTTCGGAGCAACACTATTTGGTGACTTTGATCACTTGGCAACCTGACATG
AAAATTTCTAAATGGCTAATCTCAATGTCTTGACAACGCAATTAAGAAAA
AGCCAATAAAGATCTCGCCATTAATATTTGCGCAATGATGGAACATTAAT
CTTGCGGCCACCAGAAAAAGGGAGAAATGACTAAAAAACGAGTAATAACT
GACCGGCTGAAAGGGGCTTAGCTAGGCAACAACGAACAAAGAGCAATAAA
ATATTGACACTCGTTAAAAATTTTCTTTTCAACAAACGATTCAGCCAATT
GCTCTACCACAAGTTACTTACTTAAAACCGTAAATGACGCATGAAAGAGA
CTGGACCCTAATTATGGTAATGAAGTCGAACAGCCTCCGTTTAATGAGCT
GTGGTGTGCTAATTTGAATTTCAATCGATTAAAATTTTAATTGCTAACTT
TCGTAAACTATAAATCAGGTTAATAAGGCACCTCAAATCATAATTAAAAT
GTTTTGTTAACTACCCGCTAAAAATAACTCTACCAGTACCAGGCTCCAAA
ATCTTTATCCCAAACGATTTATAATATCAATTTTTCCTTTTCTTTTTTCC
AGGTTTGGTTTCAAAATCGTCGTGCTAAATGGAGACGAACGGAAAAAACG
TGGGGCGAAGGCTCGGTGATGGCGAAATACGGCCTTTACGGTGCCATGGT
CCGTCATTCATTGAAAACACGGAAAAGTGAGAATGAAACGAGTTAGACAC
TCAATACTCGGAACTTTGTACAAATATTAGAGATTATTTTTCAGAGTTTA
TATGTTCTTCTTGTATATAAAATATGGCTTTTTGGTAAAATGAGAATTGT
AAATTTTATAATTATTTTCAAATGATTTATATTTGTTTCAAATTTAAAAA
TTTAACTTGCAGTGAATTTAATAATATCTTTTTATTATCGAATGAATCAG
AGCAAAATCTA

Coding sequence (CDS) from alignment at sc0000320:38273..40683-

>TCONS_00019172 ID=TCONS_00019172|Name=TCONS_00019172|organism=Clytia hemisphaerica|type=CDS|length=2727bp|location=Sequence derived from alignment at sc0000320:38273..40683- (Clytia hemisphaerica)
GTTTGGTTTCAAAATCGTCGTGCTAAATGGAGACGAACGGAAAAAACGTG
GGGCGAAGGCTCGGTGATGGCGAAATACGGCCTTTACGGTGCCATGGTCC
GTCATTCATTGAAAACACGGAAAAGTGAGAATGAAACGAGTTAGATCTAT
CAAGAAGTTTATCAACGAGTTCATCCAACTGTTCGGATCTTTCTGCACCA
AGTCCTCGCTCTGATGAAGAGGGAAGTGAAACATTCGCACATGGTAGACG
AAACCGAACCATTTTTACCAAGAAACAAGCCTCTGAACTCGAACGCGTCT
TCCAAACCACTCACTATCCCGACCTTAAATGCCGACACGAAATCTCCAAA
GTCACCAAATTATCGGAAAATAGGATTCAGTTCACATTTAACTCGTCAAT
AAGCAAACATACAACTTTACAAACTTTTGCGATTTTAAGCCTCGTTTTGA
TGTGTACAAAGACGATGATGGCAAACGATAAATCACCATTCTCCATCGAT
TGGATTCTACGCAAAGAGAGCGGCTTGGATCGCGTGGATAAAATCAAAAA
CGTCATTCGCGTTTATGAGCAAGCCAACCCCTTCAGATACCCTTCCTGTT
ATAAGGACTTATCTTTGGTCAAATACAAGTTGGACAAATGTTGTCCACCA
TCAAGACAGAATCCGCTTCACACTTTGCAGCGATCAAGGTCACCCGTTTC
TCCTGCAAAGTCTCATACAACCATATCGTCCATCAGTAAACCCCCGTCAC
CTCTCCATTCATCTTGCACATGTCACACGAAGGTTGACATCAAAGACGGG
GGTCATGTTGTTGAGAAATCGGGGTACGAAGATCACAATATGAATAGCTA
TGATGATGTTTTTGTAGAAGAGCGTATCACAATGACATCACTCAATACTA
AAGCAAAAGGTTTGGTTTCAAAATCGTCGTGCTAAATGGAGACGAACGGA
AAAAACGTGGGGCGAAGGCTCGGTGATGGCGAAATACGGCCTTTACGGTG
CCATGGTCCGTCATTCATTGAAAACACGGAAAAGTGAGAATGAAACGAGT
TAGATCTATCAAGAAGTTTATCAACGAGTTCATCCAACTGTTCGGATCTT
TCTGCACCAAGTCCTCGCTCTGATGAAGAGGGAAGTGAAACATTCGCACA
TGGTAGACGAAACCGAACCATTTTTACCAAGAAACAAGCCTCTGAACTCG
AACGCGTCTTCCAAACCACTCACTATCCCGACCTTAAATGCCGACACGAA
ATCTCCAAAGTCACCAAATTATCGGAAAATAGGATTCAGTTCACATTTAA
CTCGTCAATAAGCAAACATACAACTTTACAAACTTTTGCGATTTTAAGCC
TCGTTTTGATGTGTACAAAGACGATGATGGCAAACGATAAATCACCATTC
TCCATCGATTGGATTCTACGCAAAGAGAGCGGCTTGGATCGCGTGGATAA
AATCAAAAACGTCATTCGCGTTTATGAGCAAGCCAACCCCTTCAGATACC
CTTCCTGTTATAAGGACTTATCTTTGGTCAAATACAAGTTGGACAAATGT
TGTCCACCATCAAGACAGAATCCGCTTCACACTTTGCAGCGATCAAGGTC
ACCCGTTTCTCCTGCAAAGTCTCATACAACCATATCGTCCATCAGTAAAC
CCCCGTCACCTCTCCATTCATCTTGCACATGTCACACGAAGGTTGACATC
AAAGACGGGGGTCATGTTGTTGAGAAATCGGGGTACGAAGATCACAATAT
GAATAGCTATGATGATGTTTTTGTAGAAGAGCGTATCACAATGACATCAC
TCAATACTAAAGCAAAAGGTTTGGTTTCAAAATCGTCGTGCTAAATGGAG
ACGAACGGAAAAAACGTGGGGCGAAGGCTCGGTGATGGCGAAATACGGCC
TTTACGGTGCCATGGTCCGTCATTCATTGAAAACACGGAAAAGTGAGAAT
GAAACGAGTTAGATCTATCAAGAAGTTTATCAACGAGTTCATCCAACTGT
TCGGATCTTTCTGCACCAAGTCCTCGCTCTGATGAAGAGGGAAGTGAAAC
ATTCGCACATGGTAGACGAAACCGAACCATTTTTACCAAGAAACAAGCCT
CTGAACTCGAACGCGTCTTCCAAACCACTCACTATCCCGACCTTAAATGC
CGACACGAAATCTCCAAAGTCACCAAATTATCGGAAAATAGGATTCAGTT
CACATTTAACTCGTCAATAAGCAAACATACAACTTTACAAACTTTTGCGA
TTTTAAGCCTCGTTTTGATGTGTACAAAGACGATGATGGCAAACGATAAA
TCACCATTCTCCATCGATTGGATTCTACGCAAAGAGAGCGGCTTGGATCG
CGTGGATAAAATCAAAAACGTCATTCGCGTTTATGAGCAAGCCAACCCCT
TCAGATACCCTTCCTGTTATAAGGACTTATCTTTGGTCAAATACAAGTTG
GACAAATGTTGTCCACCATCAAGACAGAATCCGCTTCACACTTTGCAGCG
ATCAAGGTCACCCGTTTCTCCTGCAAAGTCTCATACAACCATATCGTCCA
TCAGTAAACCCCCGTCACCTCTCCATTCATCTTGCACATGTCACACGAAG
GTTGACATCAAAGACGGGGGTCATGTTGTTGAGAAATCGGGGTACGAAGA
TCACAATATGAATAGCTATGATGATGTTTTTGTAGAAGAGCGTATCACAA
TGACATCACTCAATACTAAAGCAAAAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_010760XLOC_010760Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00019172-proteinTCONS_00019172-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00019172-exon-sc0000320-1575043694:40155..40683TCONS_00019172-exon-sc0000320-1575043694:40155..40683Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1575043694:39799..40034TCONS_00019172-exon-sc0000320-1575043694:39799..40034Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1575043694:38273..38631TCONS_00019172-exon-sc0000320-1575043694:38273..38631Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1510915933:40155..40683TCONS_00019172-exon-sc0000320-1510915933:40155..40683Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1510915933:39799..40034TCONS_00019172-exon-sc0000320-1510915933:39799..40034Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1510915933:38273..38631TCONS_00019172-exon-sc0000320-1510915933:38273..38631Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1491911889:40155..40683TCONS_00019172-exon-sc0000320-1491911889:40155..40683Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1491911889:39799..40034TCONS_00019172-exon-sc0000320-1491911889:39799..40034Clytia hemisphaericaexon
TCONS_00019172-exon-sc0000320-1491911889:38273..38631TCONS_00019172-exon-sc0000320-1491911889:38273..38631Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000320supercontigsc0000320:38273..40683 -
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
0.0387735	0.0378103	0	0	0	0.0826377	0	0	0	0	0	0	24.575	28.012	38.2213	77.0256	5.85053	2.95355	0	0.0862614	0	0	0.0444569	0.0404178	0	0	0	0	0	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001356Homeobox_dom
IPR017970Homeobox_CS
IPR023339CVC
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_00019172 vs. Swiss-Prot (Human)
Match: VSX1 (Visual system homeobox 1 OS=Homo sapiens GN=VSX1 PE=1 SV=2)

HSP 1 Score: 117.857 bits (294), Expect = 1.274e-29
Identity = 51/80 (63.75%), Postives = 61/80 (76.25%), Query Frame = 1 
Query:  631 RRNRTIFTKKQASELERVFQTTHYPDLKCRHEISKVTKLSENRIQVWFQNRRAKWRRTEKTWGEGSVMAKYGLYGAMVRH 870
            RR+RT+FT  Q  ELE+ F   HYPD+  R  ++  T+L E+RIQVWFQNRRAKWR+ EK WG  SVMA+YGLYGAMVRH
Sbjct:  165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRKREKRWGGSSVMAEYGLYGAMVRH 244
The following BLAST results are available for this feature:
BLAST of TCONS_00019172 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
VSX11.274e-2963.75Visual system homeobox 1 OS=Homo sapiens GN=VSX1 P... [more]
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