TCONS_00052628 (transcript) - C. hemisphaerica

Overview
NameTCONS_00052628
Unique NameTCONS_00052628
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length496

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00052628 ID=TCONS_00052628|Name=TCONS_00052628|organism=Clytia hemisphaerica|type=transcript|length=496bp
AGAAAAATCAATATACTAATCAGAAATTAACTAATACTGTATACACTGAT
GGATAACCTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGACG
ATTTGAAATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAGCA
GAGCAGTGTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCTAA
GAGCGATAAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAATGACGT
TGTTTCAAGATAAAGGTCGTGAGCGGGAAATTTTGGACCGCTTAATTAAA
TGTGTGAATCACACAGACGGATGTTGTTGGACAAACGAGTTGCGAGAACT
GCAGAACCACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTACTATGA
CTGGTTGTGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACAACGAA
GAAGATTGTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAAG
Run BLAST on NCBI

protein sequence of TCONS_00052628-protein

>TCONS_00052628-protein ID=TCONS_00052628-protein|Name=TCONS_00052628-protein|organism=Clytia hemisphaerica|type=polypeptide|length=149bp
MDNLGGFDVEFVLEEKDDLKCSICLLVLREPMQAEQCGHRFCKGCVINLP
KSDKKGYICPIDRSKMTLFQDKGREREILDRLIKCVNHTDGCCWTNELRE
LQNHVKNCEYEELVCTMTGCGTKFQRRFFSKHNEEDCVCRMMSCPFCFE
Run BLAST on NCBI

transcript from alignment at scaffold_218:711986..713136+

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00052628 ID=TCONS_00052628|Name=TCONS_00052628|organism=Clytia hemisphaerica|type=transcript|length=1151bp|location=Sequence derived from alignment at scaffold_218:711986..713136+ (Clytia hemisphaerica)
AGAAAAATCAATATACTAATCAGAAATTAACTAATACTGTATACACTGAT
GGATAACCTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGACG
ATTTGAAATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAGCA
GAGCAGTGTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCTAA
GAGGTAGATAGTCTTCTCATTGGTTTCGCTAGTTTCCAGTGCCCTGTGTG
TAAGAAATTTCAGCTGTGCTCAGGAAATAGACGATGACCAGATCAATGTT
AATGGGGCTattcatttcaaattattttgactGCAATGACTGCCTCATTT
TGAAAGCATTACCGAGGTAATTAGATTCTACTTAGGCGAAAGGTCATTTA
ATTTCTTCTATAGGGACTAGTTTTGATTCTGCATCAACAACCTAATGCAT
TTCAATAGAGATATACTCaataaatttatatattttcacaTGTACGTTAT
ATATTTCAGCGATAAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAA
TGACGGTAAGTATCCGAATGATATACTAGGAAAAtacttttaatgatttt
taataatttttaatgatttcaattaattttttgtctAAATGATATGTCTG
ATTATTTTCCTAGTTGTTTCAAGATAAAGGTCGTGAGCGGGAAATTTTGG
ACCGCTTAATTAAATGTGTGAATCACACAGACGGATGTTGTTGGACAAAC
GAGTTGCGAGAACTGCAGGTGAAACATACATGTGTGATCTCGTCTTGAAT
TAtttgtgaaattttcttattattatAAATGAGATTTCATTGGAAGATTT
TTCCTAAGGCATGTATCAGTTAAATTAAAAGTCCATAATTTTTGACAGGA
TGAACGATGAAATTCGGAGTTATTTATGGTaaatcaaggaaaatgaagtc
tTTGTCTATTTTGTATTGGTGATAAGATGAGGCAAGCGTTGGTTCTTTTT
GCATCTTAGAACCACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTAC
TATGACTGGTTGTGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACA
ACGAAGAAGATTGTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAA
G

Coding sequence (CDS) from alignment at scaffold_218:711986..713136+

>TCONS_00052628 ID=TCONS_00052628|Name=TCONS_00052628|organism=Clytia hemisphaerica|type=CDS|length=1788bp|location=Sequence derived from alignment at scaffold_218:711986..713136+ (Clytia hemisphaerica)
ATGGATAACCTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGA
CGATTTGAAATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAG
CAGAGCAGTGTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCT
AAGAGCGATAAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAATGAC
GTTGTTTCAAGATAAAGGTCGTGAGCGGGAAATTTTGGACCGCTTAATTA
AATGTGTGAATCACACAGACGGATGTTGTTGGACAAACGAGTTGCGAGAA
CTGCAGAACCACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTACTAT
GACTGGTTGTGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACAACG
AAGAAGATTGTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAAATG
GATAACCTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGACGA
TTTGAAATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAGCAG
AGCAGTGTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCTAAG
AGCGATAAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAATGACGTT
GTTTCAAGATAAAGGTCGTGAGCGGGAAATTTTGGACCGCTTAATTAAAT
GTGTGAATCACACAGACGGATGTTGTTGGACAAACGAGTTGCGAGAACTG
CAGAACCACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTACTATGAC
TGGTTGTGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACAACGAAG
AAGATTGTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAAATGGAT
AACCTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGACGATTT
GAAATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAGCAGAGC
AGTGTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCTAAGAGC
GATAAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAATGACGTTGTT
TCAAGATAAAGGTCGTGAGCGGGAAATTTTGGACCGCTTAATTAAATGTG
TGAATCACACAGACGGATGTTGTTGGACAAACGAGTTGCGAGAACTGCAG
AACCACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTACTATGACTGG
TTGTGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACAACGAAGAAG
ATTGTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAAATGGATAAC
CTTGGTGGTTTTGACGTTGAGTTTGTTCTAGAGGAGAAAGACGATTTGAA
ATGTTCAATTTGTTTACTGGTGCTCAGAGAACCAATGCAAGCAGAGCAGT
GTGGACATCGATTTTGCAAAGGCTGTGTCATCAACTTACCTAAGAGCGAT
AAAAAGGGATATATTTGTCCGATCGATCGAAGCAAAATGACGTTGTTTCA
AGATAAAGGTCGTGAGCGGGAAATTTTGGACCGCTTAATTAAATGTGTGA
ATCACACAGACGGATGTTGTTGGACAAACGAGTTGCGAGAACTGCAGAAC
CACGTGAAAAATTGTGAATATGAGGAACTCGTTTGTACTATGACTGGTTG
TGGTACAAAATTTCAAAGGAGGTTCTTCTCAAAACACAACGAAGAAGATT
GTGTCTGCAGAATGATGTCTTGTCCTTTCTGCTTTGAA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_033262XLOC_033262Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00052628-exon-scaffold_218-1491911889:711986..712188TCONS_00052628-exon-scaffold_218-1491911889:711986..712188Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1510915933:711986..712188TCONS_00052628-exon-scaffold_218-1510915933:711986..712188Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1575043694:711986..712188TCONS_00052628-exon-scaffold_218-1575043694:711986..712188Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1491911889:712495..712540TCONS_00052628-exon-scaffold_218-1491911889:712495..712540Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1510915933:712495..712540TCONS_00052628-exon-scaffold_218-1510915933:712495..712540Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1575043694:712495..712540TCONS_00052628-exon-scaffold_218-1575043694:712495..712540Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1491911889:712649..712753TCONS_00052628-exon-scaffold_218-1491911889:712649..712753Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1510915933:712649..712753TCONS_00052628-exon-scaffold_218-1510915933:712649..712753Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1575043694:712649..712753TCONS_00052628-exon-scaffold_218-1575043694:712649..712753Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1491911889:712995..713136TCONS_00052628-exon-scaffold_218-1491911889:712995..713136Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1510915933:712995..713136TCONS_00052628-exon-scaffold_218-1510915933:712995..713136Clytia hemisphaericaexon
TCONS_00052628-exon-scaffold_218-1575043694:712995..713136TCONS_00052628-exon-scaffold_218-1575043694:712995..713136Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00052628-proteinTCONS_00052628-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_218supercontigscaffold_218:711986..713136 +
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
2.00817	1.40129	2.65272	5.71923	0	0.658654	0.721131	0.446358	0	0	0.125239	0.411637	0.445191	0.231168	0.461051	2.02271	0.46399	2.09253	0.262813	0	0.323603	0	4.3938	2.44598	4.61113	5.33026	0	0	1.11446	3.02788
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001841Znf_RING
IPR013083Znf_RING/FYVE/PHD
IPR017907Znf_RING_CS
IPR001293Znf_TRAF
IPR008974TRAF-like
Vocabulary: Molecular Function
TermDefinition
GO:0008270zinc ion binding
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
molecular_function GO:0008270 zinc ion binding
Blast
[Close]
BLAST of TCONS_00052628 vs. Swiss-Prot (Human)
Match: TRAF6 (TNF receptor-associated factor 6 OS=Homo sapiens GN=TRAF6 PE=1 SV=1)

HSP 1 Score: 93.9745 bits (232), Expect = 1.879e-22
Identity = 57/152 (37.50%), Postives = 83/152 (54.61%), Query Frame = 1 
Query:   43 TLMDNLGGFDVEFVLEEKDDLKCSICLLVLREPMQAEQCGHRFCKGCVINLPKSDKKGYICPIDRSKM---TLFQDKGREREILDRLIKCVNHTDGCCWTNELRELQNHVKNCEYEELVCTMTGCGTKFQRRFFSKHNEEDCVCRMMSCPFC 489
            + M+ + G+DVEF    +   +C ICL+ LRE +Q   CGHRFCK C+I   +    G+ CP+D   +    LF D   +REIL  ++KC N  +GC    ELR L++H  +CE+  + C    C   FQ+   + H  +DC  R +SC  C
Sbjct:   48 SFMEEIQGYDVEFDPPLESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRD--AGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPN--EGCLHKMELRHLEDHQAHCEFALMDCPQ--CQRPFQKFHINIHILKDCPRRQVSCDNC 192
The following BLAST results are available for this feature:
BLAST of TCONS_00052628 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
TRAF61.879e-2237.50TNF receptor-associated factor 6 OS=Homo sapiens G... [more]
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