TCONS_00001270 (transcript) - C. hemisphaerica

Overview
NameTCONS_00001270
Unique NameTCONS_00001270
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1447

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=transcript|length=1447bp
CGTTCACTTCGCAAGAAAAATAAGACGTCATGCCAAAAGGCATATGACTC
TTACATCAATGACTCAATAATGAATGACAACCCCAAAAAGTTTTACAAAT
TCATTAAAAGTAAACGCCAAGACAGTGTTGGTGTACCAACTTTGAAAGTA
AACAATAAAGTGATTATTGACGACCAAATGAAGGCTGAAGTATTAAACAG
CCAGTATTGTAGTGTTTTCTCCAACCCAGATGGTAAAACTCCACCCATAC
CTAACAGAGTTGTCAATCAAATGAGTGACTTTACAGTATCATCTGATGGG
ATTAAGAAACTCATCAAATCCCTCAGGCCACATAAAGCAACCGGCCCAGA
TACCATTAAAGCCAGATTCCTCATCGAGTTTGCAGATGAAATATCTCCTG
CCCTGAAACTTATCTTTGAAGCTTCTCTAAAACAATCTGAACTCCCGACA
GCTTGGAAACATTCCCTCATTGTCCCAGCATACAAAGGGAATGGGAAATG
TCGAAGTAATCCTGAAAGCTACAGGCCAATATCACTTACTTCCATCGTTT
GTAAATTGCTAGAACACATACTTTACAGTAAAGTAATGTCGCACCTAACC
GAAAACAAAGTATTGTCAGAGTTGCAAGTTGGTTTCAGAGAAAAAAGATC
CTGTGAATCTCAACTTTTGTTAACAGTAAATGACTTTGCGAAAGCTTTGA
ACAATGGTGATCAAGTTGATTCCATCCTACTCGATTTCAGCAAAGCTTTC
GACAAGGTTGACCATTCAAAGCTTTGCCACAAACTTGAGCACTATGGAGT
CAGAGGTAGTCACCTATCTTGGATAAAATCATTCCTTAGGAATCGAACGC
AACAAGTTGTGGTCAATGGTAAAACATCAAAGTATGCTGAAGTCAAGTCA
GGAGTCCCGCAAGGAACAGTATTGGGTCCTTTATTATTCCTTGTATACAT
CAATGACCTTTACGTTTATTTTCGGATGATGCCTATCTGTACCGAACGAT
ATCTTCTCTTGAAGACAAAATAACGTTACAAAATGACCTAAATAACCTCC
AAATATGGGAAGACTTATGGNTATTTGCGGATGATGCCTATCTGTACCGA
ACGATATCTTCTCTTGAAGACAAAATAACGTTACAAAATGACCTAAATAA
CCTCCAAATATGGGAAGACTTATGGAGCATGGAGTTTCACCCAGGTAAAT
GTAAACTATTGCGCATAACTAATAAAACAAAACCGTTTCTCGCTAACTAC
AACATTCACaatgagattcttgaatgtgtCGACAATGCCAAATATCTTGG
TGTCATTATGAACAAACGCTTGAAATGGAATACACACATTGATATGGTTT
GCAAAAAAGGTACACAAACACGAAATTTTCTACAGCGAAATCTGACAGGA
TGCACCAAAGCCACCAAAGCAAAAGCCTACAAGACGTACATAAACCC
Run BLAST on NCBI

protein sequence of TCONS_00001270-protein

>TCONS_00001270-protein ID=TCONS_00001270-protein|Name=TCONS_00001270-protein|organism=Clytia hemisphaerica|type=polypeptide|length=340bp
RSLRKKNKTSCQKAYDSYINDSIMNDNPKKFYKFIKSKRQDSVGVPTLKV
NNKVIIDDQMKAEVLNSQYCSVFSNPDGKTPPIPNRVVNQMSDFTVSSDG
IKKLIKSLRPHKATGPDTIKARFLIEFADEISPALKLIFEASLKQSELPT
AWKHSLIVPAYKGNGKCRSNPESYRPISLTSIVCKLLEHILYSKVMSHLT
ENKVLSELQVGFREKRSCESQLLLTVNDFAKALNNGDQVDSILLDFSKAF
DKVDHSKLCHKLEHYGVRGSHLSWIKSFLRNRTQQVVVNGKTSKYAEVKS
GVPQGTVLGPLLFLVYINDLYVYFRMMPICTERYLLLKTK
Run BLAST on NCBI

transcript from alignment at sc0000007:5189..6635

Legend: exonthree_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=transcript|length=1447bp|location=Sequence derived from alignment at sc0000007:5189..6635 (Clytia hemisphaerica)
GGGTTTATGTACGTCTTGTAGGCTTTTGCTTTGGTGGCTTTGGTGCATCC TGTCAGATTTCGCTGTAGAAAATTTCGTGTTTGTGTACCTTTTTTGCAAA CCATATCAATGTGTGTATTCCATTTCAAGCGTTTGTTCATAATGACACCA AGATATTTGGCATTGTCGacacattcaagaatctcattGTGAATGTTGTA GTTAGCGAGAAACGGTTTTGTTTTATTAGTTATGCGCAATAGTTTACATT TACCTGGGTGAAACTCCATGCTCCATAAGTCTTCCCATATTTGGAGGTTA TTTAGGTCATTTTGTAACGTTATTTTGTCTTCAAGAGAAGATATCGTTCG GTACAGATAGGCATCATCCGCAAATANCCATAAGTCTTCCCATATTTGGA GGTTATTTAGGTCATTTTGTAACGTTATTTTGTCTTCAAGAGAAGATATC GTTCGGTACAGATAGGCATCATCCGAAAATAAACGTAAAGGTCATTGATG TATACAAGGAATAATAAAGGACCCAATACTGTTCCTTGCGGGACTCCTGA CTTGACTTCAGCATACTTTGATGTTTTACCATTGACCACAACTTGTTGCG TTCGATTCCTAAGGAATGATTTTATCCAAGATAGGTGACTACCTCTGACT CCATAGTGCTCAAGTTTGTGGCAAAGCTTTGAATGGTCAACCTTGTCGAA AGCTTTGCTGAAATCGAGTAGGATGGAATCAACTTGATCACCATTGTTCA AAGCTTTCGCAAAGTCATTTACTGTTAACAAAAGTTGAGATTCACAGGAT CTTTTTTCTCTGAAACCAACTTGCAACTCTGACAATACTTTGTTTTCGGT TAGGTGCGACATTACTTTACTGTAAAGTATGTGTTCTAGCAATTTACAAA CGATGGAAGTAAGTGATATTGGCCTGTAGCTTTCAGGATTACTTCGACAT TTCCCATTCCCTTTGTATGCTGGGACAATGAGGGAATGTTTCCAAGCTGT CGGGAGTTCAGATTGTTTTAGAGAAGCTTCAAAGATAAGTTTCAGGGCAG GAGATATTTCATCTGCAAACTCGATGAGGAATCTGGCTTTAATGGTATCT GGGCCGGTTGCTTTATGTGGCCTGAGGGATTTGATGAGTTTCTTAATCCC ATCAGATGATACTGTAAAGTCACTCATTTGATTGACAACTCTGTTAGGTA TGGGTGGAGTTTTACCATCTGGGTTGGAGAAAACACTACAATACTGGCTG TTTAATACTTCAGCCTTCATTTGGTCGTCAATAATCACTTTATTGTTTAC TTTCAAAGTTGGTACACCAACACTGTCTTGGCGTTTACTTTTAATGAATT TGTAAAACTTTTTGGGGTTGTCATTCATTATTGAGTCATTGATGTAAGAG TCATATGCCTTTTGGCATGACGTCTTATTTTTCTTGCGAAGTGAACG

Coding sequence (CDS) from alignment at sc0000007:5189..6635

>TCONS_00001270 ID=TCONS_00001270|Name=TCONS_00001270|organism=Clytia hemisphaerica|type=CDS|length=1023bp|location=Sequence derived from alignment at sc0000007:5189..6635 (Clytia hemisphaerica)
TTATTTTGTCTTCAAGAGAAGATATCGTTCGGTACAGATAGGCATCATCC
GAAAATAAACGTAAAGGTCATTGATGTATACAAGGAATAATAAAGGACCC
AATACTGTTCCTTGCGGGACTCCTGACTTGACTTCAGCATACTTTGATGT
TTTACCATTGACCACAACTTGTTGCGTTCGATTCCTAAGGAATGATTTTA
TCCAAGATAGGTGACTACCTCTGACTCCATAGTGCTCAAGTTTGTGGCAA
AGCTTTGAATGGTCAACCTTGTCGAAAGCTTTGCTGAAATCGAGTAGGAT
GGAATCAACTTGATCACCATTGTTCAAAGCTTTCGCAAAGTCATTTACTG
TTAACAAAAGTTGAGATTCACAGGATCTTTTTTCTCTGAAACCAACTTGC
AACTCTGACAATACTTTGTTTTCGGTTAGGTGCGACATTACTTTACTGTA
AAGTATGTGTTCTAGCAATTTACAAACGATGGAAGTAAGTGATATTGGCC
TGTAGCTTTCAGGATTACTTCGACATTTCCCATTCCCTTTGTATGCTGGG
ACAATGAGGGAATGTTTCCAAGCTGTCGGGAGTTCAGATTGTTTTAGAGA
AGCTTCAAAGATAAGTTTCAGGGCAGGAGATATTTCATCTGCAAACTCGA
TGAGGAATCTGGCTTTAATGGTATCTGGGCCGGTTGCTTTATGTGGCCTG
AGGGATTTGATGAGTTTCTTAATCCCATCAGATGATACTGTAAAGTCACT
CATTTGATTGACAACTCTGTTAGGTATGGGTGGAGTTTTACCATCTGGGT
TGGAGAAAACACTACAATACTGGCTGTTTAATACTTCAGCCTTCATTTGG
TCGTCAATAATCACTTTATTGTTTACTTTCAAAGTTGGTACACCAACACT
GTCTTGGCGTTTACTTTTAATGAATTTGTAAAACTTTTTGGGGTTGTCAT
TCATTATTGAGTCATTGATGTAAGAGTCATATGCCTTTTGGCATGACGTC
TTATTTTTCTTGCGAAGTGAACG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_000674XLOC_000674Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00001270-exon-sc0000007-1491911889:5189..6635TCONS_00001270-exon-sc0000007-1491911889:5189..6635Clytia hemisphaericaexon
TCONS_00001270-exon-sc0000007-1510915933:5189..6635TCONS_00001270-exon-sc0000007-1510915933:5189..6635Clytia hemisphaericaexon
TCONS_00001270-exon-sc0000007-1575043694:5189..6635TCONS_00001270-exon-sc0000007-1575043694:5189..6635Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00001270-proteinTCONS_00001270-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000007supercontigsc0000007:5189..6635 .
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
1.56838 1.21655 2.56272 2.14331 0.61244 0.693605 0.494524 0.513045 0.48867 0.559377 0.364069 0.846835 1.03183 0.877001 0.966497 1.35582 0.993302 1.12871 1.08628 1.4431 1.32756 1.17368 0.772237 1.00169 0.870026 1.14901 1.60475 1.1609 1.25638 1.05869
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
BLAST of TCONS_00001270 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 91.2781 bits (225), Expect = 3.356e-19
Identity = 63/219 (28.77%), Postives = 109/219 (49.77%), Query Frame = 1
Query:  286 VSSDGIKKLIKSLRPHKATGPDTIKARFLIEFADEISPALKLIFEASLKQSELPTAWKHSLIVPAYKGNGKCRSNPESYRPISLTSIVCKLLEHILYSKVMSHLTENKVLSELQVGFREKRSCESQLLLTVNDFAKALNNGDQVDSIL-LDFSKAFDKVDHSKLCHKLEHYGVRGSHLSWIKSFLRNRTQQVVVNGKTSKYAEVKSGVPQGTVLGPLLF 939
            ++   I  +I SL   K+ GPD   A F   + +E+ P L  +F++  K+  LP ++  + I+   K  G+  +  E++RPISL +I  K+L  IL +++  H+   K++   QVGF         +  ++N         D+   I+ +D  KAFDK+    +   L   G+ G +L  I++     T  +++NG+  +   +K+G  QG  L PLLF
Sbjct:  453 ITGSEIVAIINSLPTKKSPGPDGFTAEFYQRYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKP-GRDTTKKENFRPISLMNIDAKILNKILANRIQQHI--KKLIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLF 668          
The following BLAST results are available for this feature:
BLAST of TCONS_00001270 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
LORF23.356e-1928.77LINE-1 retrotransposable element ORF2 protein OS=H... [more]
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