TCONS_00065540 (transcript) - C. hemisphaerica

Overview
NameTCONS_00065540
Unique NameTCONS_00065540
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length2224

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00065540 ID=TCONS_00065540|Name=TCONS_00065540|organism=Clytia hemisphaerica|type=transcript|length=2224bp
GCAAATTTTCCCTCTTGAAGTTTGATGAATTAACTTGAAATACTCGAAAA
CAAGCCAACTGTTGAACCCCCTGATAAGGGCTCGTAACGTATAAAATCGG
CTGGTAGAAATGGGATTGGTCAAAACAGTTACATTGCTTCATGAGGAAAA
CTTCACAGTATAGTTTTGAGCTCTAATATGGGTGCAAATGATGGATTGAT
TTTCATGTATCTTATTACACCGACATCCATTATTCTCAACATAATGGTCA
TCGTCACTTTACGAAAGGGCTTTAAGAATGAGCCCACAAATGTTCGATTC
ACACTACTGAACAGTTTGTCCATATCTGAGCTGTTTGTCAGCGTGGTCGG
CTTCTCgcttcaaacatttttcaagaCGCATGATGCTTGCATCGTGGCCG
GACATGTTGTGGCTTGTTTTTCATTGGTCTCACTCACTCATATGGTATCC
CTCACCGTGGAAAGATTCTTAGCTGTCAAATATCCTTTCAAGTCTGAAGA
TTGGTTGATATCAAGGAAAGTTATTGTCGCCTTCTTGGTACCGACCTGGC
TGTATGGATTCGTTTGGGGCTCGTTGTTCAACATGATTGGTTGGGGAGCA
ATCATTTACGAATCTAAAGAAACACACAGATGTAGCATCGACTTTATTTC
AACAGATCCTATCCGAAAATCTTACGTCTACTGTTTACTCGTCTTCTGCT
ATATCATCCCCATCATAACAACCATTTCCTTCTTCCTCATTATCAAGCGA
GAATTACACAAGATGCGTCAATTCATTGCCGACAATCTTGGTGAAGATTC
CAAAATCTCCAAAGATACTGTCAAAGAAGAGAAGAGGTTCAGCATCCTGG
TCGCTGTCATGTTGGTGTGTTTTTTGATCTCTTGGACTCCGTATGCTATC
AGTGTCTTTTATTGGAAAATCAAAGGAAATATCAAAGATACAGTGTTCTT
CGATATGTGTGCTTACTTCGGTAAAACATCCTCTTTATGGAACCCTATTA
TCTACTTCTTCGTTTATAAGAAGTTTCGAACGGCTTTTCTACGTTGGTGC
CCTTTCACACGGAACTGGGTTCAGAGGATTGAGCCGACACATGAACAGAA
GGCTACTGGACACAGCCAACCCTTGAAAGATATAACTAACACAAATTTCT
AAGGAAAttgggaaatttgaaaaaaagagacTTAGCCATGCTGTAGCCAA
AGAGTCCAGCTCTGGCTATTTTCTGTTATAATTTTGTTATAAATCTAAAA
CGGAAAAACAGGAGCTATCCGTGGAGACCGGGAGCCATAAATGTACATAG
GTTTGTTTGGCTCAATTACATCATTATAGAtaaaccttttcgaccgtagt
cgcgcagtCAGGCGCCTAACACTTTATTATTCAATCAggtatttaattta
ccaccctaaactcgatccaatccttttttacacttttttctattgtcttt
aagtgcgacaaaaaagactggtacggttttagggtggtaaatggacaaaa
aatacttgcgcggcaattggcggctacggtcaagAAGGTGTATTGATTCG
ATTGTTGAGGGGACTTTTGGATATAGTTAGCCGTAAGTGCGGTAGTAAAG
CTTGACAGGAAAATAATGAAACCAATTTGTATATTCTATACCCTatcgaa
aaagaaataaatgctTTCACCTCAGATTCTTGTCAatttgacacgttttt
agcgccttctataggtgcaatgtaaattttttttcgcctgcggcccttca
ttttctttaacgaatattttcaaaactactatcaacattgaattgcgaaa
agtcaaagcaagagaagtgttgtgtatccaccaggggttaaagaggatgc
tcactCCCAAAGtgagagattgatcgaaactgctcgctctggtttttgtg
gtcttatgcggactaaatttttgctttttagaatttcttataagctgttt
gacctttcttacaccaaatttttttgcctgcggcgccagaattacaaaga
acccttattcttgccaactttcgaatttttggggcctctttcagccattg
atctttaatggagagtacAGTAAGAAcaggaaataacaaggaaatagata
tcaaattatcattaccaccacctttgtataaataaaactttgttgactca
gagattccgggcgttactttcaaccagtcactgctcttacctTAATAGTT
TCACTTAATGGtatagggcgcaaa
Run BLAST on NCBI

protein sequence of opsin 7

>TCONS_00065540-protein ID=TCONS_00065540-protein|Name=opsin 7|organism=Clytia hemisphaerica|type=polypeptide|length=324bp
MGANDGLIFMYLITPTSIILNIMVIVTLRKGFKNEPTNVRFTLLNSLSIS
ELFVSVVGFSLQTFFKTHDACIVAGHVVACFSLVSLTHMVSLTVERFLAV
KYPFKSEDWLISRKVIVAFLVPTWLYGFVWGSLFNMIGWGAIIYESKETH
RCSIDFISTDPIRKSYVYCLLVFCYIIPIITTISFFLIIKRELHKMRQFI
ADNLGEDSKISKDTVKEEKRFSILVAVMLVCFLISWTPYAISVFYWKIKG
NIKDTVFFDMCAYFGKTSSLWNPIIYFFVYKKFRTAFLRWCPFTRNWVQR
IEPTHEQKATGHSQPLKDITNTNF
Run BLAST on NCBI

transcript from alignment at scaffold_44:166825..169048

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00065540 ID=TCONS_00065540|Name=TCONS_00065540|organism=Clytia hemisphaerica|type=transcript|length=2224bp|location=Sequence derived from alignment at scaffold_44:166825..169048 (Clytia hemisphaerica)
tttgcgccctataCCATTAAGTGAAACTATTAaggtaagagcagtgactg
gttgaaagtaacgcccggaatctctgagtcaacaaagttttatttataca
aaggtggtggtaatgataatttgatatctatttccttgttatttcctgTT
CTTACTgtactctccattaaagatcaatggctgaaagaggccccaaaaat
tcgaaagttggcaagaataagggttctttgtaattctggcgccgcaggca
aaaaaatttggtgtaagaaaggtcaaacagcttataagaaattctaaaaa
gcaaaaatttagtccgcataagaccacaaaaaccagagcgagcagtttcg
atcaatctctcaCTTTGGGagtgagcatcctctttaacccctggtggata
cacaacacttctcttgctttgacttttcgcaattcaatgttgatagtagt
tttgaaaatattcgttaaagaaaatgaagggccgcaggcgaaaaaaaatt
tacattgcacctatagaaggcgctaaaaacgtgtcaaatTGACAAGAATC
TGAGGTGAAagcatttatttctttttcgatAGGGTATAGAATATACAAAT
TGGTTTCATTATTTTCCTGTCAAGCTTTACTACCGCACTTACGGCTAACT
ATATCCAAAAGTCCCCTCAACAATCGAATCAATACACCTTcttgaccgta
gccgccaattgccgcgcaagtattttttgtccatttaccaccctaaaacc
gtaccagtcttttttgtcgcacttaaagacaatagaaaaaagtgtaaaaa
aggattggatcgagtttagggtggtaaattaaataccTGATTGAATAATA
AAGTGTTAGGCGCCTGactgcgcgactacggtcgaaaaggtttaTCTATA
ATGATGTAATTGAGCCAAACAAACCTATGTACATTTATGGCTCCCGGTCT
CCACGGATAGCTCCTGTTTTTCCGTTTTAGATTTATAACAAAATTATAAC
AGAAAATAGCCAGAGCTGGACTCTTTGGCTACAGCATGGCTAAgtctctt
tttttcaaatttcccaaTTTCCTTAGAAATTTGTGTTAGTTATATCTTTC
AAGGGTTGGCTGTGTCCAGTAGCCTTCTGTTCATGTGTCGGCTCAATCCT
CTGAACCCAGTTCCGTGTGAAAGGGCACCAACGTAGAAAAGCCGTTCGAA
ACTTCTTATAAACGAAGAAGTAGATAATAGGGTTCCATAAAGAGGATGTT
TTACCGAAGTAAGCACACATATCGAAGAACACTGTATCTTTGATATTTCC
TTTGATTTTCCAATAAAAGACACTGATAGCATACGGAGTCCAAGAGATCA
AAAAACACACCAACATGACAGCGACCAGGATGCTGAACCTCTTCTCTTCT
TTGACAGTATCTTTGGAGATTTTGGAATCTTCACCAAGATTGTCGGCAAT
GAATTGACGCATCTTGTGTAATTCTCGCTTGATAATGAGGAAGAAGGAAA
TGGTTGTTATGATGGGGATGATATAGCAGAAGACGAGTAAACAGTAGACG
TAAGATTTTCGGATAGGATCTGTTGAAATAAAGTCGATGCTACATCTGTG
TGTTTCTTTAGATTCGTAAATGATTGCTCCCCAACCAATCATGTTGAACA
ACGAGCCCCAAACGAATCCATACAGCCAGGTCGGTACCAAGAAGGCGACA
ATAACTTTCCTTGATATCAACCAATCTTCAGACTTGAAAGGATATTTGAC
AGCTAAGAATCTTTCCACGGTGAGGGATACCATATGAGTGAGTGAGACCA
ATGAAAAACAAGCCACAACATGTCCGGCCACGATGCAAGCATCATGCGtc
ttgaaaaatgtttgaagcGAGAAGCCGACCACGCTGACAAACAGCTCAGA
TATGGACAAACTGTTCAGTAGTGTGAATCGAACATTTGTGGGCTCATTCT
TAAAGCCCTTTCGTAAAGTGACGATGACCATTATGTTGAGAATAATGGAT
GTCGGTGTAATAAGATACATGAAAATCAATCCATCATTTGCACCCATATT
AGAGCTCAAAACTATACTGTGAAGTTTTCCTCATGAAGCAATGTAACTGT
TTTGACCAATCCCATTTCTACCAGCCGATTTTATACGTTACGAGCCCTTA
TCAGGGGGTTCAACAGTTGGCTTGTTTTCGAGTATTTCAAGTTAATTCAT
CAAACTTCAAGAGGGAAAATTTGC

Coding sequence (CDS) from alignment at scaffold_44:166825..169048

>TCONS_00065540 ID=TCONS_00065540|Name=TCONS_00065540|organism=Clytia hemisphaerica|type=CDS|length=975bp|location=Sequence derived from alignment at scaffold_44:166825..169048 (Clytia hemisphaerica)
TTAGAAATTTGTGTTAGTTATATCTTTCAAGGGTTGGCTGTGTCCAGTAG
CCTTCTGTTCATGTGTCGGCTCAATCCTCTGAACCCAGTTCCGTGTGAAA
GGGCACCAACGTAGAAAAGCCGTTCGAAACTTCTTATAAACGAAGAAGTA
GATAATAGGGTTCCATAAAGAGGATGTTTTACCGAAGTAAGCACACATAT
CGAAGAACACTGTATCTTTGATATTTCCTTTGATTTTCCAATAAAAGACA
CTGATAGCATACGGAGTCCAAGAGATCAAAAAACACACCAACATGACAGC
GACCAGGATGCTGAACCTCTTCTCTTCTTTGACAGTATCTTTGGAGATTT
TGGAATCTTCACCAAGATTGTCGGCAATGAATTGACGCATCTTGTGTAAT
TCTCGCTTGATAATGAGGAAGAAGGAAATGGTTGTTATGATGGGGATGAT
ATAGCAGAAGACGAGTAAACAGTAGACGTAAGATTTTCGGATAGGATCTG
TTGAAATAAAGTCGATGCTACATCTGTGTGTTTCTTTAGATTCGTAAATG
ATTGCTCCCCAACCAATCATGTTGAACAACGAGCCCCAAACGAATCCATA
CAGCCAGGTCGGTACCAAGAAGGCGACAATAACTTTCCTTGATATCAACC
AATCTTCAGACTTGAAAGGATATTTGACAGCTAAGAATCTTTCCACGGTG
AGGGATACCATATGAGTGAGTGAGACCAATGAAAAACAAGCCACAACATG
TCCGGCCACGATGCAAGCATCATGCGtcttgaaaaatgtttgaagcGAGA
AGCCGACCACGCTGACAAACAGCTCAGATATGGACAAACTGTTCAGTAGT
GTGAATCGAACATTTGTGGGCTCATTCTTAAAGCCCTTTCGTAAAGTGAC
GATGACCATTATGTTGAGAATAATGGATGTCGGTGTAATAAGATACATGA
AAATCAATCCATCATTTGCACCCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_041071XLOC_041071Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
opsin 7TCONS_00065540-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00065540-exon-scaffold_44-1491911889:166825..169048TCONS_00065540-exon-scaffold_44-1491911889:166825..169048Clytia hemisphaericaexon
TCONS_00065540-exon-scaffold_44-1510915933:166825..169048TCONS_00065540-exon-scaffold_44-1510915933:166825..169048Clytia hemisphaericaexon
TCONS_00065540-exon-scaffold_44-1575043694:166825..169048TCONS_00065540-exon-scaffold_44-1575043694:166825..169048Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_44supercontigscaffold_44:166825..169048 .
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
0.40754	0.523645	0.922981	1.06826	0.940296	0.796355	1.47347	1.8268	3.63949	3.45652	4.2685	3.53057	0.833722	0.919093	1.20505	1.64059	1.34917	1.23241	0.773198	0.805557	1.32593	1.95331	0.345759	0.415761	1.1529	1.78286	1.77627	1.58723	0.825125	0.789103
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000276GPCR_Rhodpsn
IPR017452GPCR_Rhodpsn_7TM
Vocabulary: Biological Process
TermDefinition
GO:0007186G-protein coupled receptor signaling pathway
Vocabulary: Molecular Function
TermDefinition
GO:0004930G-protein coupled receptor activity
Vocabulary: Cellular Component
TermDefinition
GO:0016021integral component of membrane
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0007186 G-protein coupled receptor signaling pathway
cellular_component GO:0016021 integral component of membrane
molecular_function GO:0004930 G-protein coupled receptor activity
Blast
[Close]
BLAST of TCONS_00065540 vs. Swiss-Prot (Human)
Match: OPSD (Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1)

HSP 1 Score: 82.8037 bits (203), Expect = 6.324e-17
Identity = 82/318 (25.79%), Postives = 147/318 (46.23%), Query Frame = 1 
Query:  202 FMYLITPTSIILNIMVI-VTLRKGFKNEPTNVRFTLLNSLSISELFVSVVGFSLQTFFKTHD-------ACIVAGHVVACFSLVSLTHMVSLTVERFLAVKYPFKSEDWLISRKVI-VAFLVPTWLYGFVWGSLFNMIGWGAIIYESKETHRCSIDFISTDPI--RKSYVYCLLVFCYIIPIITTISFFLIIKRELHKMRQFIADNLGEDSKISKDTVKEEKRFSILVAVMLVCFLISWTPYAISVFY-WKIKGNIKDTVFFDMCAYFGKTSSLWNPIIYFFVYKKFRTAFLRWCPFTRNWVQRIEPTHEQKATGHSQ 1119
            +M+L+      +N + + VT++   K   T + + LLN L++++LF+ + GF+   +   H         C + G        ++L  +V L +ER++ V  P  +  +  +  ++ VAF   TW+      +   + GW   I E  +   C ID+ +  P    +S+V  + V  + IP+I  I FF       +    F         + S  T K EK  + +V +M++ FLI W PYA   FY +  +G+    +F  + A+F K+++++NP+IY  + K+FR   L      +N +   E +     T  SQ
Sbjct:   43 YMFLLIVLGFPINFLTLYVTVQH--KKLRTPLNYILLN-LAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAF---TWVMALAC-AAPPLAGWSRYIPEGLQC-SCGIDYYTLKPEVNNESFVIYMFVVHFTIPMI--IIFFC------YGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQ 344
The following BLAST results are available for this feature:
BLAST of TCONS_00065540 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
OPSD6.324e-1725.79Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1[more]
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