TCONS_00006115 (transcript) - C. hemisphaerica

Overview
NameTCONS_00006115
Unique NameTCONS_00006115
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length800

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00006115 ID=TCONS_00006115|Name=TCONS_00006115|organism=Clytia hemisphaerica|type=transcript|length=800bp
AGTAAACTTCTTTCCACACTTTCTCCTATTCTTATATCACCACTATCTTC
TCTTTTTAATGACTGGTTAAATAATTCCATTTTTCCAGATACAttaaaaa
cagccaaaattaCAATGATTCCTAAAGTAAAAAACACCAAGAAAATTTCC
GACCACAGACCTATAAGCCTTTTACCTGCCATAggtaaactttttgaaaa
aatcttggcTAATAGAATTAATAGTTGGGCTGaggaaaataatattataa
ataAGGAACAATCTGGCTTCAGAAATAAAAGAAGTACTGTAGAtaacctt
tttcttttattaaatgACTTTCAAGAAGCAAAGATAAAAGGTGAAAGAAT
GCATGCTGTGTTTGTAGATTTCGAGAAAGCCTTTGATAAAATAAATCACT
CTCTTCTTCTATTTGAACTAAACTCTCTTGGAATCCCTAAATATCTTTTA
TATATCCTACATAGCTACTTAAAGGATAGGAAAGCATACATAAATTACTC
CCACTTTAAATCTGACACTTTTTCTTTGAAGGCAGGAGTACCACAAGGCT
CCTGCCTATCACCCattcttttttctctctttgtCAGTGACATACCTAAA
CCAgtaaataataaaattaaaatgtctcaattcgcaGACGACCTTGCTAC
TTGGGAAAGATACAAGAAAGCCTATGATTCTGAACTTGATGAATATGTTG
AGATCTTATTTGACTGGTTTAGCAAATGGGGCTTAGTGGTAAATATGGAC
aaaactaaacacataaattttggtACAAGTAAAATGTCAATCTGGGTCAG
Run BLAST on NCBI

protein sequence of TCONS_00006115-protein

>TCONS_00006115-protein ID=TCONS_00006115-protein|Name=TCONS_00006115-protein|organism=Clytia hemisphaerica|type=polypeptide|length=266bp
SKLLSTLSPILISPLSSLFNDWLNNSIFPDTLKTAKITMIPKVKNTKKIS
DHRPISLLPAIGKLFEKILANRINSWAEENNIINKEQSGFRNKRSTVDNL
FLLLNDFQEAKIKGERMHAVFVDFEKAFDKINHSLLLFELNSLGIPKYLL
YILHSYLKDRKAYINYSHFKSDTFSLKAGVPQGSCLSPILFSLFVSDIPK
PVNNKIKMSQFADDLATWERYKKAYDSELDEYVEILFDWFSKWGLVVNMD
KTKHINFGTSKMSIWV
Run BLAST on NCBI

transcript from alignment at sc0000062:728670..729469

Legend: exonthree_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00006115 ID=TCONS_00006115|Name=TCONS_00006115|organism=Clytia hemisphaerica|type=transcript|length=800bp|location=Sequence derived from alignment at sc0000062:728670..729469 (Clytia hemisphaerica)
CTGACCCAGATTGACATTTTACTTGTaccaaaatttatgtgtttagtttt
GTCCATATTTACCACTAAGCCCCATTTGCTAAACCAGTCAAATAAGATCT
CAACATATTCATCAAGTTCAGAATCATAGGCTTTCTTGTATCTTTCCCAA
GTAGCAAGGTCGTCtgcgaattgagacattttaattttattatttacTGG
TTTAGGTATGTCACTGacaaagagagaaaaaagaatGGGTGATAGGCAGG
AGCCTTGTGGTACTCCTGCCTTCAAAGAAAAAGTGTCAGATTTAAAGTGG
GAGTAATTTATGTATGCTTTCCTATCCTTTAAGTAGCTATGTAGGATATA
TAAAAGATATTTAGGGATTCCAAGAGAGTTTAGTTCAAATAGAAGAAGAG
AGTGATTTATTTTATCAAAGGCTTTCTCGAAATCTACAAACACAGCATGC
ATTCTTTCACCTTTTATCTTTGCTTCTTGAAAGTcatttaataaaagaaa
aaggttaTCTACAGTACTTCTTTTATTTCTGAAGCCAGATTGTTCCTtat
ttataatattattttcctCAGCCCAACTATTAATTCTATTAgccaagatt
ttttcaaaaagtttaccTATGGCAGGTAAAAGGCTTATAGGTCTGTGGTC
GGAAATTTTCTTGGTGTTTTTTACTTTAGGAATCATTGtaattttggctg
tttttaaTGTATCTGGAAAAATGGAATTATTTAACCAGTCATTAAAAAGA
GAAGATAGTGGTGATATAAGAATAGGAGAAAGTGTGGAAAGAAGTTTACT

Coding sequence (CDS) from alignment at sc0000062:728670..729469

>TCONS_00006115 ID=TCONS_00006115|Name=TCONS_00006115|organism=Clytia hemisphaerica|type=CDS|length=798bp|location=Sequence derived from alignment at sc0000062:728670..729469 (Clytia hemisphaerica)
GACCCAGATTGACATTTTACTTGTaccaaaatttatgtgtttagttttGT
CCATATTTACCACTAAGCCCCATTTGCTAAACCAGTCAAATAAGATCTCA
ACATATTCATCAAGTTCAGAATCATAGGCTTTCTTGTATCTTTCCCAAGT
AGCAAGGTCGTCtgcgaattgagacattttaattttattatttacTGGTT
TAGGTATGTCACTGacaaagagagaaaaaagaatGGGTGATAGGCAGGAG
CCTTGTGGTACTCCTGCCTTCAAAGAAAAAGTGTCAGATTTAAAGTGGGA
GTAATTTATGTATGCTTTCCTATCCTTTAAGTAGCTATGTAGGATATATA
AAAGATATTTAGGGATTCCAAGAGAGTTTAGTTCAAATAGAAGAAGAGAG
TGATTTATTTTATCAAAGGCTTTCTCGAAATCTACAAACACAGCATGCAT
TCTTTCACCTTTTATCTTTGCTTCTTGAAAGTcatttaataaaagaaaaa
ggttaTCTACAGTACTTCTTTTATTTCTGAAGCCAGATTGTTCCTtattt
ataatattattttcctCAGCCCAACTATTAATTCTATTAgccaagatttt
ttcaaaaagtttaccTATGGCAGGTAAAAGGCTTATAGGTCTGTGGTCGG
AAATTTTCTTGGTGTTTTTTACTTTAGGAATCATTGtaattttggctgtt
tttaaTGTATCTGGAAAAATGGAATTATTTAACCAGTCATTAAAAAGAGA
AGATAGTGGTGATATAAGAATAGGAGAAAGTGTGGAAAGAAGTTTACT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_003490XLOC_003490Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00006115-exon-sc0000062-1491911889:728670..729469TCONS_00006115-exon-sc0000062-1491911889:728670..729469Clytia hemisphaericaexon
TCONS_00006115-exon-sc0000062-1510915933:728670..729469TCONS_00006115-exon-sc0000062-1510915933:728670..729469Clytia hemisphaericaexon
TCONS_00006115-exon-sc0000062-1575043694:728670..729469TCONS_00006115-exon-sc0000062-1575043694:728670..729469Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00006115-proteinTCONS_00006115-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000062supercontigsc0000062:728670..729469 .
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
0.0906361	0.458551	0.468817	0.531977	0.697831	0.615435	0.38589	0.722532	0.338025	0.691435	0.121637	0.294352	0.439165	0.22579	0.545392	0.636679	1.04784	0.978596	0.977033	0.396057	0.654556	1.42198	0.275317	1.00121	0.659324	0.875467	1.33961	0.926503	1.08597	0.585168
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
[Close]
BLAST of TCONS_00006115 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 90.1225 bits (222), Expect = 6.990e-20
Identity = 66/207 (31.88%), Postives = 102/207 (49.28%), Query Frame = 1 
Query:   76 SIFPDTLKTAKITMIPKV-KNTKKISDHRPISLLPAIGKLFEKILANRINSWAEENNIINKEQSGFRNKRSTVDNLFLLLNDFQEAKIKGERMHAVF-VDFEKAFDKINHSLLLFELNSLGIPKYLLYILHSYLKDRKAYINYSHFKSDTFSLKAGVPQGSCLSPILFSLFVSDIPKPVNN------------KIKMSQFADDLATW 654
             I P++   A I +IPK  ++T K  + RPISL+    K+  KILANRI    ++  +I+ +Q GF        N+   +N  Q      ++ H +  +D EKAFDKI    +L  LN LGI    L I+ +      A I  +  K + F LK G  QG  LSP+LF++ +  + + +              ++K+S FADD+  +
Sbjct:  503 GILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKILANRIQQHIKK--LIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQLGKEEVKLSLFADDMIVY 707
The following BLAST results are available for this feature:
BLAST of TCONS_00006115 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
LORF26.990e-2031.88LINE-1 retrotransposable element ORF2 protein OS=H... [more]
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