TCONS_00002547 (transcript) - C. hemisphaerica

Overview
NameTCONS_00002547
Unique NameTCONS_00002547
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length2248

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00002547 ID=TCONS_00002547|Name=TCONS_00002547|organism=Clytia hemisphaerica|type=transcript|length=2248bp
cgctttGGGAAAAATTTCCACCAGGGTCGTGAGACAGGTGGTTATAGTGG
TCAATTACTTTGAAAGCCCGACAatcgaaaacaaaaattttggatattct
atTCCTAAAGGTgacatttttgacaaaataatgaaaaattcgtattgaaa
tgcaaaaataattcATACGAATAAAATTAACTGATAATATTTGTATCAGT
TACTATAAGATAAGACAAAACATAATATAAATTCTCataaataaaattct
taatTCGATAGAGTATGAAAAAGATAATGCTATAGtataatttctaaaaa
ataatttctgcgaaaaataaaatattttagtgGCTACTTTGTACAAAATT
GCTCTAATCTAATGATAAAATTATTCGCCGGCTTTGGGTTTAGGTATTTA
AAAAAGCGAATTTGAAAACAGTCCTTTCATCATATATTATAGTACGAAAA
CATCATGGGAAAAGAGTCGACGGAAAATGACAAAAGTTTCAGCGATCGAA
CGCAAAATTATGGCCAAAAAGTTTGCACAAATGTTTGTACACTTTCTACG
TAGAATAACTTCCCTCCAATGTTAATTGGGGAAAAATAACTAATTAGGAC
TTTGAACCCAGTTGACCAAGCATTCTCCTTGGCGACTAATACTTTTCCCA
GTTATATGGATCTGAAGAGTATGGCATGGATTTGTGTCGCTCCTTATTTG
AAATGAAGCTAAAATAGAGGTTCTATCTTCAAAACGTTGGGAGTGAGTTT
GGATTTTGTAATATTTGTGAGCCCCTTGGTTCTCTGTCCTTTTTGGAAAA
TGAAATAACCTTATTTAAGTTGATGAAATGCTACTGTTATTAGTTGCATT
TGCTCTTGGGAAACGTTCATGGGTGACTTGTTCTAACCAGCGTTCCAGGG
TCCAACGGTGGTGCTCAGGAAACCAATTACTAGCGTACGCGGTAGCCAAT
AGCATGTGCACATCTTCAGCATAACCTGCATAATTATGATAGTAAGTAAA
CGAACGTTTTATAGCCATGAATATTCGGTTGCGGTCAACGCACGGTGGTT
TTGAAAGCAAGTATTTGGAAATTAAACAGGAAAGTTGTGATATACTACTT
GGCGAATATCCATAACTGTAGTCTGGGTCGAAATCAGGAGTCAGTGAATT
ACCAGTCCACGTGGTAGCTTGGTCTCTGAGCTCACTTAACTCCATCTCTA
ATTCACCTACTAACTGTTTAGATTGAGTCAACTCTTTCTTTGCTTCGTGT
AGCTCGAGTTCTAAAACGGCAACTTTGCGAGATAATATGTCGATCGTTAG
GTCCTCCTTACGCTTAACAGAGCTGACCTCTTTCACCATGGCAACACAAG
ACAAACAATGCGTTGCTAAATCGCAGTGACGTACAGTCAGTTTGCAGGCT
ACACATTCAACGTTCCTGAATTCACAGTCTATCGTGTGTTGGTTGAGCCC
GTCTAGCTTGACAACAATATTACATCCATTATCCTTATGATCACACCAGA
CGGGCAGCGCGTTTATAATACTACGGATGTTTATATTCGGTATGATTTCG
TATTTAGAGGTGTATGACCGACAGACTGGGCACGAGTCAGTCTCTGGTTT
GGTCAGCCACGTGGATAAGCATGCATGGCAGAACGAATGTCCACATAAAG
TAATCACAGAGTCTTTCATTATACCAGCGCATATATTACAGACCAGATTC
TGGTCAACTGTTGCTACAAACTTCTCGACGCTGTAACCCATCTCCTTATT
TAGTTTgctaaaaatgcaaaaagaagaaatattttaaagtttttacaCAC
GTGACGCTATCTGGTCAGTGTAATACGGTTATCCATGtaaagaaatttga
aagattCTCAGACCATAGCCTGAGAAAGAGTAAATGTTTTTACTATTCAG
GTTTCTACAAGTTGACATTTTTCGTATCCAAAGAATATTTAGCATCCTTC
TTTAACTAAAACAAAATCTTACAAGAACCAGCTAAGCGATTAACCGGTTT
AGCCTTTTGAATGGCTCTTAaaagaaaactaatttgaacCTAGGTTAAAT
AGATTGAATTTTCAACTAGAAAAAACTTGTTTAAAAAAGCTTAATAAGCT
AACCAAAAAATTCCTTTGCTTCTTCCAAAATTTATCaactatttcaattt
ttcttacatctattttcaatgaattatatatttttaccgTAACCATAGTT
TTTATACACACAAAATAAAAAGCCCCTCTTTCTTAAAACCTTCCCCAA
Run BLAST on NCBI

protein sequence of TCONS_00002547-protein

>TCONS_00002547-protein ID=TCONS_00002547-protein|Name=TCONS_00002547-protein|organism=Clytia hemisphaerica|type=polypeptide|length=308bp
MGYSVEKFVATVDQNLVCNICAGIMKDSVITLCGHSFCHACLSTWLTKPE
TDSCPVCRSYTSKYEIIPNINIRSIINALPVWCDHKDNGCNIVVKLDGLN
QHTIDCEFRNVECVACKLTVRHCDLATHCLSCVAMVKEVSSVKRKEDLTI
DILSRKVAVLELELHEAKKELTQSKQLVGELEMELSELRDQATTWTGNSL
TPDFDPDYSYGYSPSSISQLSCLISKYLLSKPPCVDRNRIFMAIKRSFTY
YHNYAGYAEDVHMLLATAYASNWFPEHHRWTLERWLEQVTHERFPRANAT
NNSSISST
Run BLAST on NCBI

transcript from alignment at sc0000020:197913..200160

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00002547 ID=TCONS_00002547|Name=TCONS_00002547|organism=Clytia hemisphaerica|type=transcript|length=2248bp|location=Sequence derived from alignment at sc0000020:197913..200160 (Clytia hemisphaerica)
TTGGGGAAGGTTTTAAGAAAGAGGGGCTTTTTATTTTGTGTGTATAAAAA
CTATGGTTAcggtaaaaatatataattcattgaaaatagatgtaagaaaa
attgaaatagttGATAAATTTTGGAAGAAGCAAAGGAATTTTTTGGTTAG
CTTATTAAGCTTTTTTAAACAAGTTTTTTCTAGTTGAAAATTCAATCTAT
TTAACCTAGgttcaaattagttttctttTAAGAGCCATTCAAAAGGCTAA
ACCGGTTAATCGCTTAGCTGGTTCTTGTAAGATTTTGTTTTAGTTAAAGA
AGGATGCTAAATATTCTTTGGATACGAAAAATGTCAACTTGTAGAAACCT
GAATAGTAAAAACATTTACTCTTTCTCAGGCTATGGTCTGAGaatctttc
aaatttctttaCATGGATAACCGTATTACACTGACCAGATAGCGTCACGT
GtgtaaaaactttaaaatatttcttctttttgcatttttagcAAACTAAA
TAAGGAGATGGGTTACAGCGTCGAGAAGTTTGTAGCAACAGTTGACCAGA
ATCTGGTCTGTAATATATGCGCTGGTATAATGAAAGACTCTGTGATTACT
TTATGTGGACATTCGTTCTGCCATGCATGCTTATCCACGTGGCTGACCAA
ACCAGAGACTGACTCGTGCCCAGTCTGTCGGTCATACACCTCTAAATACG
AAATCATACCGAATATAAACATCCGTAGTATTATAAACGCGCTGCCCGTC
TGGTGTGATCATAAGGATAATGGATGTAATATTGTTGTCAAGCTAGACGG
GCTCAACCAACACACGATAGACTGTGAATTCAGGAACGTTGAATGTGTAG
CCTGCAAACTGACTGTACGTCACTGCGATTTAGCAACGCATTGTTTGTCT
TGTGTTGCCATGGTGAAAGAGGTCAGCTCTGTTAAGCGTAAGGAGGACCT
AACGATCGACATATTATCTCGCAAAGTTGCCGTTTTAGAACTCGAGCTAC
ACGAAGCAAAGAAAGAGTTGACTCAATCTAAACAGTTAGTAGGTGAATTA
GAGATGGAGTTAAGTGAGCTCAGAGACCAAGCTACCACGTGGACTGGTAA
TTCACTGACTCCTGATTTCGACCCAGACTACAGTTATGGATATTCGCCAA
GTAGTATATCACAACTTTCCTGTTTAATTTCCAAATACTTGCTTTCAAAA
CCACCGTGCGTTGACCGCAACCGAATATTCATGGCTATAAAACGTTCGTT
TACTTACTATCATAATTATGCAGGTTATGCTGAAGATGTGCACATGCTAT
TGGCTACCGCGTACGCTAGTAATTGGTTTCCTGAGCACCACCGTTGGACC
CTGGAACGCTGGTTAGAACAAGTCACCCATGAACGTTTCCCAAGAGCAAA
TGCAACTAATAACAGTAGCATTTCATCAACTTAAATAAGGTTATTTCATT
TTCCAAAAAGGACAGAGAACCAAGGGGCTCACAAATATTACAAAATCCAA
ACTCACTCCCAACGTTTTGAAGATAGAACCTCTATTTTAGCTTCATTTCA
AATAAGGAGCGACACAAATCCATGCCATACTCTTCAGATCCATATAACTG
GGAAAAGTATTAGTCGCCAAGGAGAATGCTTGGTCAACTGGGTTCAAAGT
CCTAATTAGTTATTTTTCCCCAATTAACATTGGAGGGAAGTTATTCTACG
TAGAAAGTGTACAAACATTTGTGCAAACTTTTTGGCCATAATTTTGCGTT
CGATCGCTGAAACTTTTGTCATTTTCCGTCGACTCTTTTCCCATGATGTT
TTCGTACTATAATATATGATGAAAGGACTGTTTTCAAATTCGCTTTTTTA
AATACCTAAACCCAAAGCCGGCGAATAATTTTATCATTAGATTAGAGCAA
TTTTGTACAAAGTAGCcactaaaatattttatttttcgcagaaattattt
tttagaaattataCTATAGCATTATCTTTTTCATACTCTATCGAattaag
aattttatttatGAGAATTTATATTATGTTTTGTCTTATCTTATAGTAAC
TGATACAAATATTATCAGTTAATTTTATTCGTATgaattatttttgcatt
tcaatacgaatttttcattattttgtcaaaaatgtcACCTTTAGGAatag
aatatccaaaatttttgttttcgatTGTCGGGCTTTCAAAGTAATTGACC
ACTATAACCACCTGTCTCACGACCCTGGTGGAAATTTTTCCCaaagcg

Coding sequence (CDS) from alignment at sc0000020:197913..200160

>TCONS_00002547 ID=TCONS_00002547|Name=TCONS_00002547|organism=Clytia hemisphaerica|type=CDS|length=927bp|location=Sequence derived from alignment at sc0000020:197913..200160 (Clytia hemisphaerica)
ATGGGTTACAGCGTCGAGAAGTTTGTAGCAACAGTTGACCAGAATCTGGT
CTGTAATATATGCGCTGGTATAATGAAAGACTCTGTGATTACTTTATGTG
GACATTCGTTCTGCCATGCATGCTTATCCACGTGGCTGACCAAACCAGAG
ACTGACTCGTGCCCAGTCTGTCGGTCATACACCTCTAAATACGAAATCAT
ACCGAATATAAACATCCGTAGTATTATAAACGCGCTGCCCGTCTGGTGTG
ATCATAAGGATAATGGATGTAATATTGTTGTCAAGCTAGACGGGCTCAAC
CAACACACGATAGACTGTGAATTCAGGAACGTTGAATGTGTAGCCTGCAA
ACTGACTGTACGTCACTGCGATTTAGCAACGCATTGTTTGTCTTGTGTTG
CCATGGTGAAAGAGGTCAGCTCTGTTAAGCGTAAGGAGGACCTAACGATC
GACATATTATCTCGCAAAGTTGCCGTTTTAGAACTCGAGCTACACGAAGC
AAAGAAAGAGTTGACTCAATCTAAACAGTTAGTAGGTGAATTAGAGATGG
AGTTAAGTGAGCTCAGAGACCAAGCTACCACGTGGACTGGTAATTCACTG
ACTCCTGATTTCGACCCAGACTACAGTTATGGATATTCGCCAAGTAGTAT
ATCACAACTTTCCTGTTTAATTTCCAAATACTTGCTTTCAAAACCACCGT
GCGTTGACCGCAACCGAATATTCATGGCTATAAAACGTTCGTTTACTTAC
TATCATAATTATGCAGGTTATGCTGAAGATGTGCACATGCTATTGGCTAC
CGCGTACGCTAGTAATTGGTTTCCTGAGCACCACCGTTGGACCCTGGAAC
GCTGGTTAGAACAAGTCACCCATGAACGTTTCCCAAGAGCAAATGCAACT
AATAACAGTAGCATTTCATCAACTTAA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_001366XLOC_001366Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00002547-proteinTCONS_00002547-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00002547-exon-sc0000020-1491911889:197913..200160TCONS_00002547-exon-sc0000020-1491911889:197913..200160Clytia hemisphaericaexon
TCONS_00002547-exon-sc0000020-1510915933:197913..200160TCONS_00002547-exon-sc0000020-1510915933:197913..200160Clytia hemisphaericaexon
TCONS_00002547-exon-sc0000020-1575043694:197913..200160TCONS_00002547-exon-sc0000020-1575043694:197913..200160Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000020supercontigsc0000020:197913..200160 .
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
0.0869979	0.0678693	0.0985035	0.0385481	2.81572	2.55877	3.1989	2.74346	1.62751	1.1805	1.72755	1.01975	3.63358	3.05246	0.276642	0.201453	8.21587	5.66309	3.97667	3.73549	5.98895	6.69579	1.97505	2.82944	4.5582	4.85169	0.524882	0.840252	0.193122	0.0590282
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001841Znf_RING
IPR013083Znf_RING/FYVE/PHD
IPR017907Znf_RING_CS
IPR008974TRAF-like
Vocabulary: Molecular Function
TermDefinition
GO:0005515protein binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0005515 protein binding
Blast
[Close]
BLAST of TCONS_00002547 vs. Swiss-Prot (Human)
Match: RNF41 (E3 ubiquitin-protein ligase NRDP1 OS=Homo sapiens GN=RNF41 PE=1 SV=2)

HSP 1 Score: 80.1073 bits (196), Expect = 3.364e-16
Identity = 51/145 (35.17%), Postives = 83/145 (57.24%), Query Frame = -1 
Query: 1325 MGYSVEKFVATVDQNLVCNICAGIMKDSVITL-CGHSFCHACLSTWLTKPETDSCPVCRS-YTSKYEXXXXXXXXXXXNALPVWCDHKDNGCNIVVKLDGLNQHTIDCEF---RNVEC-VACKLTVRHCDLATHCLSCVAMVKEV 1741
            MGY V +F   VD++L+C IC+G++++ V    C H+FC+AC++ W ++ +T  CPV RS  T  +       +R++++ L + CD+   GC+ VV+LD L  H  DCE    R V C   C L +   +L  H  +C+  ++ V
Sbjct:    1 MGYDVTRFQGDVDEDLICPICSGVLEEPVQAPHCEHAFCNACITQWFSQQQT--CPVDRSVVTVAHLRPVPRIMRNMLSKLQIACDNAVFGCSAVVRLDNLMSHLSDCEHNPKRPVTCEQGCGLEMPKDELPNH--NCIKHLRSV 141
The following BLAST results are available for this feature:
BLAST of TCONS_00002547 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
RNF413.364e-1635.17E3 ubiquitin-protein ligase NRDP1 OS=Homo sapiens ... [more]
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