TCONS_00016170 (transcript) - C. hemisphaerica

Overview
NameTCONS_00016170
Unique NameTCONS_00016170
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length800

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00016170 ID=TCONS_00016170|Name=TCONS_00016170|organism=Clytia hemisphaerica|type=transcript|length=800bp
TAATTTTCCATCTATTcctagtttctttatttttcgtagGACAATTGAAT
GGTCTACTTtgtcaaaagcctttgaaaaatctaggtACACAACATCCGCA
TTAGCACCTTCGTCCAATATATTTAGTATCAGGTCATATTGTTCCAAAAG
CTGACTCAAACATGAACGCCAGCTTCTGAATCCATGTTGATTGGGATTGA
ACAGATTATTTTCATCCATGTGCTTTACAATATGTGCTCTgagtactttt
tcaaatatcttAATGACATGGTATGTTAGGGCTACTGGTCTATAATTTGA
TGCCAGTGATCTGCTACCTCCTTTGTGGATTGGTGTGATTGTGCATCTTT
TAACTTCGTCTGGGACAATCCCTTTGTCCAAACTTTGTCTCCAGAGGATA
CAAAGAGGAATAGAAAGTTCTTCTTTGcattgcttgagaaaggttgcaGG
GAAACCATCGGGACCTGGTGCTGCAGTTTGGGACAGATCGTTGATTGCTT
TTATTAAATCATCTTCTGTAACTTGTAGATCTGAAATGATATCTACGTTG
ACTTCATCATTTTCACTCTGTATTATATCGAATGGTTTTGGTGCACTGAA
GACGGAAACATATTGTCTTGACAGAATTTCAGCCATTTCTTTGCTTCGAT
CGTTGCGTCAATTCACCATTTGTGTTCAGCAGAGGGCCAATTTTCGTATT
Tatctttgctttctttctcgcataagcaaagaaatattttgagtttttct
ttatGGAATTGATTGCTATATTTTCAACATAACACTTGGAATCCCTAAAT
Run BLAST on NCBI

protein sequence of TCONS_00016170-protein

>TCONS_00016170-protein ID=TCONS_00016170-protein|Name=TCONS_00016170-protein|organism=Clytia hemisphaerica|type=polypeptide|length=212bp
MAEILSRQYVSVFSAPKPFDIIQSENDEVNVDIISDLQVTEDDLIKAIND
LSQTAAPGPDGFPATFLKQCKEELSIPLCILWRQSLDKGIVPDEVKRCTI
TPIHKGGSRSLASNYRPVALTYHVIKIFEKVLRAHIVKHMDENNLFNPNQ
HGFRSWRSCLSQLLEQYDLILNILDEGANADVVYLDFSKAFDKVDHSIVL
RKIKKLGIDGKL
Run BLAST on NCBI

transcript from alignment at sc0000226:40509..41308

Legend: exonfive_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00016170 ID=TCONS_00016170|Name=TCONS_00016170|organism=Clytia hemisphaerica|type=transcript|length=800bp|location=Sequence derived from alignment at sc0000226:40509..41308 (Clytia hemisphaerica)
ATTTAGGGATTCCAAGTGTTATGTTGAAAATATAGCAATCAATTCCataa
agaaaaactcaaaatatttctttgcttatgcgagaaagaaagcaaagatA
AATACGAAAATTGGCCCTCTGCTGAACACAAATGGTGAATTGACGCAACG
ATCGAAGCAAAGAAATGGCTGAAATTCTGTCAAGACAATATGTTTCCGTC
TTCAGTGCACCAAAACCATTCGATATAATACAGAGTGAAAATGATGAAGT
CAACGTAGATATCATTTCAGATCTACAAGTTACAGAAGATGATTTAATAA
AAGCAATCAACGATCTGTCCCAAACTGCAGCACCAGGTCCCGATGGTTTC
CCtgcaacctttctcaagcaatgCAAAGAAGAACTTTCTATTCCTCTTTG
TATCCTCTGGAGACAAAGTTTGGACAAAGGGATTGTCCCAGACGAAGTTA
AAAGATGCACAATCACACCAATCCACAAAGGAGGTAGCAGATCACTGGCA
TCAAATTATAGACCAGTAGCCCTAACATACCATGTCATTaagatatttga
aaaagtactcAGAGCACATATTGTAAAGCACATGGATGAAAATAATCTGT
TCAATCCCAATCAACATGGATTCAGAAGCTGGCGTTCATGTTTGAGTCAG
CTTTTGGAACAATATGACCTGATACTAAATATATTGGACGAAGGTGCTAA
TGCGGATGTTGTGTacctagatttttcaaaggcttttgacaAAGTAGACC
ATTCAATTGTCctacgaaaaataaagaaactaggAATAGATGGAAAATTA

Coding sequence (CDS) from alignment at sc0000226:40509..41308

>TCONS_00016170 ID=TCONS_00016170|Name=TCONS_00016170|organism=Clytia hemisphaerica|type=CDS|length=636bp|location=Sequence derived from alignment at sc0000226:40509..41308 (Clytia hemisphaerica)
ATGGCTGAAATTCTGTCAAGACAATATGTTTCCGTCTTCAGTGCACCAAA
ACCATTCGATATAATACAGAGTGAAAATGATGAAGTCAACGTAGATATCA
TTTCAGATCTACAAGTTACAGAAGATGATTTAATAAAAGCAATCAACGAT
CTGTCCCAAACTGCAGCACCAGGTCCCGATGGTTTCCCtgcaacctttct
caagcaatgCAAAGAAGAACTTTCTATTCCTCTTTGTATCCTCTGGAGAC
AAAGTTTGGACAAAGGGATTGTCCCAGACGAAGTTAAAAGATGCACAATC
ACACCAATCCACAAAGGAGGTAGCAGATCACTGGCATCAAATTATAGACC
AGTAGCCCTAACATACCATGTCATTaagatatttgaaaaagtactcAGAG
CACATATTGTAAAGCACATGGATGAAAATAATCTGTTCAATCCCAATCAA
CATGGATTCAGAAGCTGGCGTTCATGTTTGAGTCAGCTTTTGGAACAATA
TGACCTGATACTAAATATATTGGACGAAGGTGCTAATGCGGATGTTGTGT
acctagatttttcaaaggcttttgacaAAGTAGACCATTCAATTGTCcta
cgaaaaataaagaaactaggAATAGATGGAAAATTA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_009030XLOC_009030Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00016170-exon-sc0000226-1491911889:40509..41308TCONS_00016170-exon-sc0000226-1491911889:40509..41308Clytia hemisphaericaexon
TCONS_00016170-exon-sc0000226-1510915933:40509..41308TCONS_00016170-exon-sc0000226-1510915933:40509..41308Clytia hemisphaericaexon
TCONS_00016170-exon-sc0000226-1575043694:40509..41308TCONS_00016170-exon-sc0000226-1575043694:40509..41308Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00016170-proteinTCONS_00016170-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000226supercontigsc0000226:40509..41308 .
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
3.94473	1.62633	4.72902	3.60752	2.19548	3.61916	2.20109	4.58838	3.77302	3.2466	4.39525	4.46343	4.20901	5.23665	2.90775	2.74947	2.44058	4.48886	2.99354	3.47956	5.83147	4.1793	2.21261	2.8304	2.6105	2.79164	1.96159	1.99894	2.79096	1.6845
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
[Close]
BLAST of TCONS_00016170 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 83.1889 bits (204), Expect = 1.293e-17
Identity = 57/175 (32.57%), Postives = 94/175 (53.71%), Query Frame = -3 
Query:    7 VTEDDLIKAINDLSQTAAPGPDGFPATFLKQCKEELSIPLCILWRQSLDK-GIVPDEVKRCTITPIHKGGSRSL-ASNYRPVALTYHVIKIFEKVLRAHIVKHMDENNLFNPNQHGFRSWRSCLSQLLEQYDLILNI-LDEGANADVVYLDFSKAFDKVDHSIVLRKIKKLGIDG 522
            +T  +++  IN L    +PGPDGF A F ++ KEEL +P  +   QS++K GI+P+     +I  I K G  +    N+RP++L     KI  K+L   I +H+ +  L + +Q GF         + +  ++I +I   +  N  ++ +D  KAFDK+    +L+ + KLGIDG
Sbjct:  453 ITGSEIVAIINSLPTKKSPGPDGFTAEFYQRYKEEL-VPFLLKLFQSIEKEGILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKILANRIQQHIKK--LIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDG 624
The following BLAST results are available for this feature:
BLAST of TCONS_00016170 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
LORF21.293e-1732.57LINE-1 retrotransposable element ORF2 protein OS=H... [more]
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