TCONS_00054444 (transcript) - C. hemisphaerica

Overview
NameTCONS_00054444
Unique NameTCONS_00054444
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1196

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00054444 ID=TCONS_00054444|Name=TCONS_00054444|organism=Clytia hemisphaerica|type=transcript|length=1196bp
CACtctattttgaacatttttcttgtttctttctctaattttaggtaaaa
aactaTATAATCTTCAAATGGACCATGATGCCTTCTTATGGTTTGTGATA
ATTCCTTTTACGGTTTATCTTATACAAAAGTGGTGTAAGAAAGACAATGA
ATTAAATATATCTGAAAATAGACTGGATAATAAATTGGTCATTGTCACTG
GGGCAAATTCAGGAATTGGTTATGAAGTTGCACTTGATTGTGCAAAAAGA
GGAGCCAGTGTCATTCTAGCTTGTAGAAATGAAACACTTGCCCTAGAAGC
TCAAAGGAGAATTATTGAAATGACTGGAAATAGAGCTATCAAATTCAAAA
CTCTTGATTTGGCATCTTTCCAATCTATACACAGTTTTGTTGGTGAGGTT
TCAAAAGAAGAAGAATCAATTTATTGTTTAGTCAATAATGCTGGTTTATT
TTGGGTACCTTACATGGAAACTAAAGATGGTATTGAATCAAACTTCGGTG
TCAATCACCTTGGTCATTTCCTGCTGACAATGCTTTTACTACCCTTATTA
ACCAAAGAGAAAAGTCGTGTGGTATTTGTCGGCTCATTGATGTATATGTT
TGGTAAAATCCATTTCAACGATCTTAATTTTGTAAAACGCGGTTATGATT
TTGTTGCAGCTTATGCGGATAGCAAATTAGCAAACATTTTAACAACTCGC
TTATTAGCCAAGAAACTTAAACAGACAAGCATCAAGTTTTATTGTGCTGA
TCCTGGTATAGTTGCGACAAATATTGGTAAAGGATCCATCTTGATGGGTT
CTTTCTTATACAATTACATTCTGAAACCTATTCTTCAGTTCTTTGTATTC
AGAACTGCGAAAGAAGGTGCTCAAGCTGTCATATATTGTGTTTGCTCAGA
GGAAATCGTGCATGATAGTGGACACTTTTATACTATATCAGGCAGGGAAA
AACCATGGGCTGCCGGTAGAGATGATAAAGCTGCTGAAATATTATTCAAC
AAAAGCATGGAGCTTTGTAAATTAAGCTTTGCATCATTCTCAAATTTCAT
AGAGTAATATACATTTGGatgttataaaaaaattgttgaaatgttATTAT
AATGTGAAATCTTATAACTTAAATTTACACAGAGCTTTCATACAGTaatc
aaaagttcaaaatctttctaaaaatcatttttttgagAAGAAAAAG
Run BLAST on NCBI

protein sequence of TCONS_00054444-protein

>TCONS_00054444-protein ID=TCONS_00054444-protein|Name=TCONS_00054444-protein|organism=Clytia hemisphaerica|type=polypeptide|length=329bp
MDHDAFLWFVIIPFTVYLIQKWCKKDNELNISENRLDNKLVIVTGANSGI
GYEVALDCAKRGASVILACRNETLALEAQRRIIEMTGNRAIKFKTLDLAS
FQSIHSFVGEVSKEEESIYCLVNNAGLFWVPYMETKDGIESNFGVNHLGH
FLLTMLLLPLLTKEKSRVVFVGSLMYMFGKIHFNDLNFVKRGYDFVAAYA
DSKLANILTTRLLAKKLKQTSIKFYCADPGIVATNIGKGSILMGSFLYNY
ILKPILQFFVFRTAKEGAQAVIYCVCSEEIVHDSGHFYTISGREKPWAAG
RDDKAAEILFNKSMELCKLSFASFSNFIE
Run BLAST on NCBI

transcript from alignment at scaffold_242:58820..60015

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00054444 ID=TCONS_00054444|Name=TCONS_00054444|organism=Clytia hemisphaerica|type=transcript|length=1196bp|location=Sequence derived from alignment at scaffold_242:58820..60015 (Clytia hemisphaerica)
CTTTTTCTTctcaaaaaaatgatttttagaaagattttgaacttttgatt
ACTGTATGAAAGCTCTGTGTAAATTTAAGTTATAAGATTTCACATTATAA
TaacatttcaacaatttttttataacatCCAAATGTATATTACTCTATGA
AATTTGAGAATGATGCAAAGCTTAATTTACAAAGCTCCATGCTTTTGTTG
AATAATATTTCAGCAGCTTTATCATCTCTACCGGCAGCCCATGGTTTTTC
CCTGCCTGATATAGTATAAAAGTGTCCACTATCATGCACGATTTCCTCTG
AGCAAACACAATATATGACAGCTTGAGCACCTTCTTTCGCAGTTCTGAAT
ACAAAGAACTGAAGAATAGGTTTCAGAATGTAATTGTATAAGAAAGAACC
CATCAAGATGGATCCTTTACCAATATTTGTCGCAACTATACCAGGATCAG
CACAATAAAACTTGATGCTTGTCTGTTTAAGTTTCTTGGCTAATAAGCGA
GTTGTTAAAATGTTTGCTAATTTGCTATCCGCATAAGCTGCAACAAAATC
ATAACCGCGTTTTACAAAATTAAGATCGTTGAAATGGATTTTACCAAACA
TATACATCAATGAGCCGACAAATACCACACGACTTTTCTCTTTGGTTAAT
AAGGGTAGTAAAAGCATTGTCAGCAGGAAATGACCAAGGTGATTGACACC
GAAGTTTGATTCAATACCATCTTTAGTTTCCATGTAAGGTACCCAAAATA
AACCAGCATTATTGACTAAACAATAAATTGATTCTTCTTCTTTTGAAACC
TCACCAACAAAACTGTGTATAGATTGGAAAGATGCCAAATCAAGAGTTTT
GAATTTGATAGCTCTATTTCCAGTCATTTCAATAATTCTCCTTTGAGCTT
CTAGGGCAAGTGTTTCATTTCTACAAGCTAGAATGACACTGGCTCCTCTT
TTTGCACAATCAAGTGCAACTTCATAACCAATTCCTGAATTTGCCCCAGT
GACAATGACCAATTTATTATCCAGTCTATTTTCAGATATATTTAATTCAT
TGTCTTTCTTACACCACTTTTGTATAAGATAAACCGTAAAAGGAATTATC
ACAAACCATAAGAAGGCATCATGGTCCATTTGAAGATTATAtagtttttt
acctaaaattagagaaagaaacaagaaaaatgttcaaaatagaGTG

Coding sequence (CDS) from alignment at scaffold_242:58820..60015

>TCONS_00054444 ID=TCONS_00054444|Name=TCONS_00054444|organism=Clytia hemisphaerica|type=CDS|length=990bp|location=Sequence derived from alignment at scaffold_242:58820..60015 (Clytia hemisphaerica)
TTACTCTATGAAATTTGAGAATGATGCAAAGCTTAATTTACAAAGCTCCA
TGCTTTTGTTGAATAATATTTCAGCAGCTTTATCATCTCTACCGGCAGCC
CATGGTTTTTCCCTGCCTGATATAGTATAAAAGTGTCCACTATCATGCAC
GATTTCCTCTGAGCAAACACAATATATGACAGCTTGAGCACCTTCTTTCG
CAGTTCTGAATACAAAGAACTGAAGAATAGGTTTCAGAATGTAATTGTAT
AAGAAAGAACCCATCAAGATGGATCCTTTACCAATATTTGTCGCAACTAT
ACCAGGATCAGCACAATAAAACTTGATGCTTGTCTGTTTAAGTTTCTTGG
CTAATAAGCGAGTTGTTAAAATGTTTGCTAATTTGCTATCCGCATAAGCT
GCAACAAAATCATAACCGCGTTTTACAAAATTAAGATCGTTGAAATGGAT
TTTACCAAACATATACATCAATGAGCCGACAAATACCACACGACTTTTCT
CTTTGGTTAATAAGGGTAGTAAAAGCATTGTCAGCAGGAAATGACCAAGG
TGATTGACACCGAAGTTTGATTCAATACCATCTTTAGTTTCCATGTAAGG
TACCCAAAATAAACCAGCATTATTGACTAAACAATAAATTGATTCTTCTT
CTTTTGAAACCTCACCAACAAAACTGTGTATAGATTGGAAAGATGCCAAA
TCAAGAGTTTTGAATTTGATAGCTCTATTTCCAGTCATTTCAATAATTCT
CCTTTGAGCTTCTAGGGCAAGTGTTTCATTTCTACAAGCTAGAATGACAC
TGGCTCCTCTTTTTGCACAATCAAGTGCAACTTCATAACCAATTCCTGAA
TTTGCCCCAGTGACAATGACCAATTTATTATCCAGTCTATTTTCAGATAT
ATTTAATTCATTGTCTTTCTTACACCACTTTTGTATAAGATAAACCGTAA
AAGGAATTATCACAAACCATAAGAAGGCATCATGGTCCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_034308XLOC_034308Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054444-proteinTCONS_00054444-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054444-exon-scaffold_242-1491911889:58820..60015TCONS_00054444-exon-scaffold_242-1491911889:58820..60015Clytia hemisphaericaexon
TCONS_00054444-exon-scaffold_242-1510915933:58820..60015TCONS_00054444-exon-scaffold_242-1510915933:58820..60015Clytia hemisphaericaexon
TCONS_00054444-exon-scaffold_242-1575043694:58820..60015TCONS_00054444-exon-scaffold_242-1575043694:58820..60015Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_242supercontigscaffold_242:58820..60015 .
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
1.65347	1.61239	0.773277	0.398174	2.85996	2.29828	2.07959	1.99015	1.99915	2.10108	3.75096	1.8912	2.51012	1.83716	2.44929	2.08087	1.96982	1.38288	3.3243	4.11839	1.8767	2.28847	1.68977	2.73526	1.42793	2.68655	0.492878	0.263006	1.51605	1.05685
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR002347SDR_fam
IPR016040NAD(P)-bd_dom
Blast
[Close]
BLAST of TCONS_00054444 vs. Swiss-Prot (Human)
Match: RDH13 (Retinol dehydrogenase 13 OS=Homo sapiens GN=RDH13 PE=1 SV=2)

HSP 1 Score: 171.785 bits (434), Expect = 3.839e-49
Identity = 107/293 (36.52%), Postives = 164/293 (55.97%), Query Frame = 2 
Query:  161 SENRLDNKLVIVTGANSGIGYEVALDCAKRGASVILACRNETLALEAQRRIIEMTGNRAIKFKTLDLASFQSIHSFVGEVSKEEESIYCLVNNAGLFWVPYMETKDGIESNFGVNHXXX-XXXXXXXXXXXTKEKSRVVFVGSLMYMFGKIHFNDLNFVKRGYDFVAAYADSKLANILTTRLLAKKLKQTSIKFYCADPGIVATNIGKGSILMGSFLYNYILKPILQFFVFRTAKEGAQAVIYCVCSEEIVHDSGHFYTISGREKPWAAGRDDKAAEILFNKSMELCKLSFAS 1036
            S+  +  K VIVTGAN+GIG + AL+ A+RG ++ILACR+      A + I   T N  +  + LDLAS +SI  F  ++ +EEE +  L+NNAG+   P+  T+DG E  FGVNHLGH  L  +LL  L     SR++ + SL ++ G I F+DLN+  R Y+  AAY  SKLA +L T+ L+++L+ + +      PG+  T +G+ + + GS   +  L PI    V ++ +  AQ   Y   +EE+   SG ++    ++ P     D++ A  L+ +S  L  L   S
Sbjct:   32 SKATIPGKTVIVTGANTGIGKQTALELARRGGNIILACRDMEKCEAAAKDIRGETLNHHVNARHLDLASLKSIREFAAKIIEEEERVDILINNAGVMRCPHWTTEDGFEMQFGVNHLGHFLLTNLLLDKLKASAPSRIINLSSLAHVAGHIDFDDLNWQTRKYNTKAAYCQSKLAIVLFTKELSRRLQGSGVTVNALHPGVARTELGRHTGIHGSTFSSTTLGPIFWLLV-KSPELAAQPSTYLAVAEELADVSGKYFDGLKQKAPAPEAEDEEVARRLWAESARLVGLEAPS 323
The following BLAST results are available for this feature:
BLAST of TCONS_00054444 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
RDH133.839e-4936.52Retinol dehydrogenase 13 OS=Homo sapiens GN=RDH13 ... [more]
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