TCONS_00043726 (transcript) - C. hemisphaerica

Overview
NameTCONS_00043726
Unique NameTCONS_00043726
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length940

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00043726 ID=TCONS_00043726|Name=TCONS_00043726|organism=Clytia hemisphaerica|type=transcript|length=940bp
TTTTAGATATTAGACATTTCTTGTTAATAAAAAACAGTTATGGAAGAACT
TGAGGCTCTGACTGGGAGAATTTACTTGCCAGGAGATGTGATTATCACAA
TGGATAAACTTGCACTCATTTCAGATGgtaatatcaaatttggccCTGGT
ATTCGCCCTGATGGAAAAGAGGTATTAGCTTATAAGGCAGGTGTTTTTCG
AGTGAAGGAAAAACCATTTAGTGTTTGGATTGATACAAATCAAAAGAGAT
ATGTAGCTGGTAGAAATGATACGGTGATTGGTATGATTATTTCTCGTGGT
GGAGAAAGCTATAAAGTTGACATTGGTACAAGCCAACCAGCCAATTTAAT
AAATACAGACTTTGAAGGGGCTACAAAGAGGCACAAACCAAACTTAAAAA
TGAATGACATTGTTTTCGCTAAACTTACAATTGCAAATAAAGATATGGAG
CCTGAGATAACATGTAAAGAGGAGAATGTGAAACAAAGTCCTTTAGGAGA
ACTCAAAGAAGGTTACATGTTCAATGTTTCATTGGGACTTTGTCGACAAC
TGTTAAAAATGCCTGAAAGTAAGGTTTTAAGCCTTCTtgggaaacatttc
aaatttgagATAGCAGTAGGCATGAATGGGCGAGTTTGGATCAATTCAAA
AGGGATTATTGACACTATTGCTATAGCGAATGCAATTGTGAGTTCAGAGT
TCATGGACGATGAGCAAATATCATTTATGGTGAAACAATTAGTTGATAGT
ATTGCAGGGTTTGACCAAAATGATGATTAGtgattatatttttcaagtat
TATTGTAACTTTTATACTTAAATCCTGAAGAAATCAATGCCTTAAAGTTG
CAGGTATTTTTCTTCTCGCATTCTTGTTTGCATTTATTGAAAGTATGATT
CTTTGAGATACGTTAAGTTTTTTTGAACGGTCAAAGTGTT
Run BLAST on NCBI

protein sequence of TCONS_00043726-protein

>TCONS_00043726-protein ID=TCONS_00043726-protein|Name=TCONS_00043726-protein|organism=Clytia hemisphaerica|type=polypeptide|length=246bp
MEELEALTGRIYLPGDVIITMDKLALISDGNIKFGPGIRPDGKEVLAYKA
GVFRVKEKPFSVWIDTNQKRYVAGRNDTVIGMIISRGGESYKVDIGTSQP
ANLINTDFEGATKRHKPNLKMNDIVFAKLTIANKDMEPEITCKEENVKQS
PLGELKEGYMFNVSLGLCRQLLKMPESKVLSLLGKHFKFEIAVGMNGRVW
INSKGIIDTIAIANAIVSSEFMDDEQISFMVKQLVDSIAGFDQNDD
Run BLAST on NCBI

transcript from alignment at sc0004511:3794..4733

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00043726 ID=TCONS_00043726|Name=TCONS_00043726|organism=Clytia hemisphaerica|type=transcript|length=940bp|location=Sequence derived from alignment at sc0004511:3794..4733 (Clytia hemisphaerica)
AACACTTTGACCGTTCAAAAAAACTTAACGTATCTCAAAGAATCATACTT
TCAATAAATGCAAACAAGAATGCGAGAAGAAAAATACCTGCAACTTTAAG
GCATTGATTTCTTCAGGATTTAAGTATAAAAGTTACAATAatacttgaaa
aatataatcaCTAATCATCATTTTGGTCAAACCCTGCAATACTATCAACT
AATTGTTTCACCATAAATGATATTTGCTCATCGTCCATGAACTCTGAACT
CACAATTGCATTCGCTATAGCAATAGTGTCAATAATCCCTTTTGAATTGA
TCCAAACTCGCCCATTCATGCCTACTGCTATctcaaatttgaaatgtttc
ccaAGAAGGCTTAAAACCTTACTTTCAGGCATTTTTAACAGTTGTCGACA
AAGTCCCAATGAAACATTGAACATGTAACCTTCTTTGAGTTCTCCTAAAG
GACTTTGTTTCACATTCTCCTCTTTACATGTTATCTCAGGCTCCATATCT
TTATTTGCAATTGTAAGTTTAGCGAAAACAATGTCATTCATTTTTAAGTT
TGGTTTGTGCCTCTTTGTAGCCCCTTCAAAGTCTGTATTTATTAAATTGG
CTGGTTGGCTTGTACCAATGTCAACTTTATAGCTTTCTCCACCACGAGAA
ATAATCATACCAATCACCGTATCATTTCTACCAGCTACATATCTCTTTTG
ATTTGTATCAATCCAAACACTAAATGGTTTTTCCTTCACTCGAAAAACAC
CTGCCTTATAAGCTAATACCTCTTTTCCATCAGGGCGAATACCAGggcca
aatttgatattacCATCTGAAATGAGTGCAAGTTTATCCATTGTGATAAT
CACATCTCCTGGCAAGTAAATTCTCCCAGTCAGAGCCTCAAGTTCTTCCA
TAACTGTTTTTTATTAACAAGAAATGTCTAATATCTAAAA

Coding sequence (CDS) from alignment at sc0004511:3794..4733

>TCONS_00043726 ID=TCONS_00043726|Name=TCONS_00043726|organism=Clytia hemisphaerica|type=CDS|length=741bp|location=Sequence derived from alignment at sc0004511:3794..4733 (Clytia hemisphaerica)
CTAATCATCATTTTGGTCAAACCCTGCAATACTATCAACTAATTGTTTCA
CCATAAATGATATTTGCTCATCGTCCATGAACTCTGAACTCACAATTGCA
TTCGCTATAGCAATAGTGTCAATAATCCCTTTTGAATTGATCCAAACTCG
CCCATTCATGCCTACTGCTATctcaaatttgaaatgtttcccaAGAAGGC
TTAAAACCTTACTTTCAGGCATTTTTAACAGTTGTCGACAAAGTCCCAAT
GAAACATTGAACATGTAACCTTCTTTGAGTTCTCCTAAAGGACTTTGTTT
CACATTCTCCTCTTTACATGTTATCTCAGGCTCCATATCTTTATTTGCAA
TTGTAAGTTTAGCGAAAACAATGTCATTCATTTTTAAGTTTGGTTTGTGC
CTCTTTGTAGCCCCTTCAAAGTCTGTATTTATTAAATTGGCTGGTTGGCT
TGTACCAATGTCAACTTTATAGCTTTCTCCACCACGAGAAATAATCATAC
CAATCACCGTATCATTTCTACCAGCTACATATCTCTTTTGATTTGTATCA
ATCCAAACACTAAATGGTTTTTCCTTCACTCGAAAAACACCTGCCTTATA
AGCTAATACCTCTTTTCCATCAGGGCGAATACCAGggccaaatttgatat
tacCATCTGAAATGAGTGCAAGTTTATCCATTGTGATAATCACATCTCCT
GGCAAGTAAATTCTCCCAGTCAGAGCCTCAAGTTCTTCCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_027409XLOC_027409Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00043726-proteinTCONS_00043726-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00043726-exon-sc0004511-1491911889:3794..4733TCONS_00043726-exon-sc0004511-1491911889:3794..4733Clytia hemisphaericaexon
TCONS_00043726-exon-sc0004511-1510915933:3794..4733TCONS_00043726-exon-sc0004511-1510915933:3794..4733Clytia hemisphaericaexon
TCONS_00043726-exon-sc0004511-1575043694:3794..4733TCONS_00043726-exon-sc0004511-1575043694:3794..4733Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0004511supercontigsc0004511:3794..4733 .
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
101.968	92.5252	34.9493	26.0207	41.1024	30.5143	41.7436	44.7462	42.7793	37.0315	30.3874	23.8219	25.1445	24.4703	31.9406	31.0535	37.4174	37.6421	8.35788	9.93363	32.6126	32.0663	99.5528	86.3594	22.9275	22.648	25.8209	22.5851	58.1775	64.1582
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR004088KH_dom_type_1
IPR012340NA-bd_OB-fold
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003723 RNA binding
Blast
[Close]
BLAST of TCONS_00043726 vs. Swiss-Prot (Human)
Match: EXOS3 (Exosome complex component RRP40 OS=Homo sapiens GN=EXOSC3 PE=1 SV=3)

HSP 1 Score: 167.548 bits (423), Expect = 4.812e-49
Identity = 83/210 (39.52%), Postives = 135/210 (64.29%), Query Frame = 1 
Query:  142 GPGIRPDGKEVLAYKAGVFRVKEKPFS------VWIDTNQKRYVAGRNDTVIGMIISRGGESYKVDIGTSQPANLINTDFEGATKRHKPNLKMNDIVFAKLTIANKDMEPEITCKEENVKQSPLGEL-KEGYMFNVSLGLCRQLLKMPESKVLSLLGKHFKFEIAVGMNGRVWINSKGIIDTIAIANAIVSSEFMDDEQISFMVKQLVDS 750
            GPG+R  G  +L  K G  R KE P S       W+D+ QKRYV  + D VIG++ ++ G+ +KVD+G S+PA+L    FEGATKR++PN+++ D+++ +  +ANKDMEPE+ C +   + + +G + ++G +F V+LGL R+LL  P+ +++  +GK +  EI  GMNGR+W+ +K I  T+ +AN + + E M  +Q   +  +L +S
Sbjct:   68 GPGLRRCGDRLLVTKCGRLRHKE-PGSGSGGGVYWVDSQQKRYVPVKGDHVIGIVTAKSGDIFKVDVGGSEPASLSYLSFEGATKRNRPNVQVGDLIYGQFVVANKDMEPEMVCIDSCGRANGMGVIGQDGLLFKVTLGLIRKLLA-PDCEIIQEVGKLYPLEIVFGMNGRIWVKAKTIQQTLILANILEACEHMTSDQRKQIFSRLAES 275
The following BLAST results are available for this feature:
BLAST of TCONS_00043726 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
EXOS34.812e-4939.52Exosome complex component RRP40 OS=Homo sapiens GN... [more]
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