TCONS_00009423 (transcript) - C. hemisphaerica

Overview
NameTCONS_00009423
Unique NameTCONS_00009423
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1766

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00009423 ID=TCONS_00009423|Name=TCONS_00009423|organism=Clytia hemisphaerica|type=transcript|length=1766bp
AGCATATTCAACATGATTTTAGCAACACTGAAACAGGCAGTTGGACTCAA
CTGAAGTAAAGAACGAATTATCTCAATTTAATGAAAGTGGAATATGATAC
ACAAGTTAAAACAACGATATTCATTTATTATCTTTAAAACGTCTATAGCC
TAGATTAAATTGATAGTAAAAAtgaattgtttttaaataaatataaaaat
tatcTAGCAGTCATCACCAATGACTTGAATCCTaataatgtcattttttc
tctgaaGCTCGTCTTCTCAATCTTTTGTAAAGAAGAACTGATCACCATTT
AGTACTAAAACTTTTGTAATTTAAAAATTCCAACAATCcataaaattgaa
ttattttgttGATGTATCTCTTGACCGATATGTTATTCCTCGACCTTTGA
GTTCTTTAATAACACTTGATGGTAGCTTCCCACTAACAGATACAGCATAA
CATCCAGGTCTAAGTTTATCGATTCTCTGCCATTTTGCCACCCAGCTCTC
ATCTGGTGACATCATCGATACTACACCATCAAAGTTTGAGCTTGTACAAC
TCATGGTTTGTTCTCTGTCTCCTTTTAAGTATAAAAACCTTTCACAATTA
TCACATCCATCTATCTCAAACTGTTCCAATGTTTTAACCATCGAACACAA
CAAGCAAGCCCTTAGATGACGCAAGTCCTTGGGTATACTACTGAaagcca
tttttctttttattgtttttgagcTTTGCATGAGAAATATAATACGTTAA
AAGTGTTTGTAGATAGAAAGATTGCGCAACTTACCTAGTCATTTGATCAA
ATGATTCAAATTGATTCAATTCAAATATGAAAGACACAGGCTTGAATTGA
AAAAGTGTTGATTTGCTGTCACCCAGCCCACAGCACAGCAATTCGAccaa
tttttgcatacaattcaatatggtggATGGAAAGACAAAAAAGTCTATAG
TTTGACAGCTTTAGCCTAAATGATCCCCAACAATCATTTAACTAGGAGAA
GAGCTCAGAGAATGATTTatgaacaaaaatcataaattgaACACATTGAA
CATCAAtccgaaccaatcgaactttaCAGGAAATTCTCAGTTCAACTTGA
CTTGGTAATCAATACTTATTGTTTGATTTTAAGTTTGATGGAGTTcgatt
attttgttaaaattgaacagttcgattgacatcccctgaaTTATAAAAGG
TTGTGGCTTCTTTGTGCGGGTGAGAGTAGATCTTGTATTTCTTTAATCTG
GAGTTTTCTGGAGTTTCTGAATCTTTATGATGTTTCTAAGTTGGACTTAG
TCAATTTCAGAGTTCaactttgatattttgaaatttgccaaagttgagtT
CCAGATGGGAATCTCCGAAGCTCCAAAGCTCCATACGCTACCACTAGACC
ACGAAACCTTGGCACAATTTGGAATTCAAAATCTACTTatagtgtgtatt
ttacagacctatACATACTTGGGTTAGCTCCAACCCTAGGGGTATCCCTA
CCAGGGCCTAGAGACCCCTATATTTACCTACCAATGCTATTCCCAGCCCT
ATTTCGACTTTCAAACTTccaccctgaccctaactgatctGAGGGATATG
TAATAGAGGGAAGCTGGATGAAGGAcaagaattccttagcggattgcttc
tttgtcttttctattgtaaactgttcataatagaaatccatctctgtacC
CTTGAGAATTCagttttcataagaaaaataaagcagacaaagtattcatg
cagtacgtctGCACAt
Run BLAST on NCBI

protein sequence of TCONS_00009423-protein

>TCONS_00009423-protein ID=TCONS_00009423-protein|Name=TCONS_00009423-protein|organism=Clytia hemisphaerica|type=polypeptide|length=126bp
MQSSKTIKRKMAFSSIPKDLRHLRACLLCSMVKTLEQFEIDGCDNCERFL
YLKGDREQTMSCTSSNFDGVVSMMSPDESWVAKWQRIDKLRPGCYAVSVS
GKLPSSVIKELKGRGITYRSRDTSTK
Run BLAST on NCBI

transcript from alignment at sc0000093:179095..180860

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00009423 ID=TCONS_00009423|Name=TCONS_00009423|organism=Clytia hemisphaerica|type=transcript|length=1766bp|location=Sequence derived from alignment at sc0000093:179095..180860 (Clytia hemisphaerica)
aTGTGCagacgtactgcatgaatactttgtctgctttatttttcttatga
aaactGAATTCTCAAGGgtacagagatggatttctattatgaacagttta
caatagaaaagacaaagaagcaatccgctaaggaattcttgTCCTTCATC
CAGCTTCCCTCTATTACATATCCCTCagatcagttagggtcagggtggAA
GTTTGAAAGTCGAAATAGGGCTGGGAATAGCATTGGTAGGTAAATATAGG
GGTCTCTAGGCCCTGGTAGGGATACCCCTAGGGTTGGAGCTAACCCAAGT
ATGTataggtctgtaaaatacacactatAAGTAGATTTTGAATTCCAAAT
TGTGCCAAGGTTTCGTGGTCTAGTGGTAGCGTATGGAGCTTTGGAGCTTC
GGAGATTCCCATCTGGAactcaactttggcaaatttcaaaatatcaaagt
tGAACTCTGAAATTGACTAAGTCCAACTTAGAAACATCATAAAGATTCAG
AAACTCCAGAAAACTCCAGATTAAAGAAATACAAGATCTACTCTCACCCG
CACAAAGAAGCCACAACCTTTTATAAttcaggggatgtcaatcgaactgt
tcaattttaacaaaataatcgAACTCCATCAAACTTAAAATCAAACAATA
AGTATTGATTACCAAGTCAAGTTGAACTGAGAATTTCCTGtaaagttcga
ttggttcggaTTGATGTTCAATGTGTtcaatttatgatttttgttcatAA
ATCATTCTCTGAGCTCTTCTCCTAGTTAAATGATTGTTGGGGATCATTTA
GGCTAAAGCTGTCAAACTATAGACTTTTTTGTCTTTCCATccaccatatt
gaattgtatgcaaaaattggTCGAATTGCTGTGCTGTGGGCTGGGTGACA
GCAAATCAACACTTTTTCAATTCAAGCCTGTGTCTTTCATATTTGAATTG
AATCAATTTGAATCATTTGATCAAATGACTAGGTAAGTTGCGCAATCTTT
CTATCTACAAACACTTTTAACGTATTATATTTCTCATGCAAAgctcaaaa
acaataaaaagaaaaatggcttTCAGTAGTATACCCAAGGACTTGCGTCA
TCTAAGGGCTTGCTTGTTGTGTTCGATGGTTAAAACATTGGAACAGTTTG
AGATAGATGGATGTGATAATTGTGAAAGGTTTTTATACTTAAAAGGAGAC
AGAGAACAAACCATGAGTTGTACAAGCTCAAACTTTGATGGTGTAGTATC
GATGATGTCACCAGATGAGAGCTGGGTGGCAAAATGGCAGAGAATCGATA
AACTTAGACCTGGATGTTATGCTGTATCTGTTAGTGGGAAGCTACCATCA
AGTGTTATTAAAGAACTCAAAGGTCGAGGAATAACATATCGGTCAAGAGA
TACATCaacaaaataattcaattttatgGATTGTTGGAATTTTTAAATTA
CAAAAGTTTTAGTACTAAATGGTGATCAGTTCTTCTTTACAAAAGATTGA
GAAGACGAGCttcagagaaaaaatgacattattAGGATTCAAGTCATTGG
TGATGACTGCTAgataatttttatatttatttaaaaacaattcaTTTTTA
CTATCAATTTAATCTAGGCTATAGACGTTTTAAAGATAATAAATGAATAT
CGTTGTTTTAACTTGTGTATCATATTCCACTTTCATTAAATTGAGATAAT
TCGTTCTTTACTTCAGTTGAGTCCAACTGCCTGTTTCAGTGTTGCTAAAA
TCATGTTGAATATGCT

Coding sequence (CDS) from alignment at sc0000093:179095..180860

>TCONS_00009423 ID=TCONS_00009423|Name=TCONS_00009423|organism=Clytia hemisphaerica|type=CDS|length=381bp|location=Sequence derived from alignment at sc0000093:179095..180860 (Clytia hemisphaerica)
ATGCAAAgctcaaaaacaataaaaagaaaaatggcttTCAGTAGTATACC
CAAGGACTTGCGTCATCTAAGGGCTTGCTTGTTGTGTTCGATGGTTAAAA
CATTGGAACAGTTTGAGATAGATGGATGTGATAATTGTGAAAGGTTTTTA
TACTTAAAAGGAGACAGAGAACAAACCATGAGTTGTACAAGCTCAAACTT
TGATGGTGTAGTATCGATGATGTCACCAGATGAGAGCTGGGTGGCAAAAT
GGCAGAGAATCGATAAACTTAGACCTGGATGTTATGCTGTATCTGTTAGT
GGGAAGCTACCATCAAGTGTTATTAAAGAACTCAAAGGTCGAGGAATAAC
ATATCGGTCAAGAGATACATCaacaaaataa
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_005280XLOC_005280Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00009423-proteinTCONS_00009423-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00009423-exon-sc0000093-1491911889:179095..180860TCONS_00009423-exon-sc0000093-1491911889:179095..180860Clytia hemisphaericaexon
TCONS_00009423-exon-sc0000093-1510915933:179095..180860TCONS_00009423-exon-sc0000093-1510915933:179095..180860Clytia hemisphaericaexon
TCONS_00009423-exon-sc0000093-1575043694:179095..180860TCONS_00009423-exon-sc0000093-1575043694:179095..180860Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000093supercontigsc0000093:179095..180860 .
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
30.5943	26.3672	32.7416	35.0678	15.9112	11.3783	10.5135	11.2273	10.1293	8.04542	5.37886	5.42028	3.47893	4.14341	6.19536	5.96732	9.25478	8.00647	2.54242	2.48427	7.19493	6.36166	18.4266	17.1993	5.57786	5.60367	8.30207	5.65052	9.88758	9.47702
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR022800Spt4/RpoE2_Znf
IPR009287Spt4
IPR029040RPABC4/Spt4
Vocabulary: Biological Process
TermDefinition
GO:0032786positive regulation of DNA-templated transcription, elongation
GO:0006355regulation of transcription, DNA-templated
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0008270zinc ion binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0032786 positive regulation of DNA-templated transcription, elongation
biological_process GO:0006355 regulation of transcription, DNA-templated
cellular_component GO:0005634 nucleus
molecular_function GO:0008270 zinc ion binding
Blast
[Close]
BLAST of TCONS_00009423 vs. Swiss-Prot (Human)
Match: SPT4H (Transcription elongation factor SPT4 OS=Homo sapiens GN=SUPT4H1 PE=1 SV=1)

HSP 1 Score: 177.563 bits (449), Expect = 2.151e-52
Identity = 72/116 (62.07%), Postives = 98/116 (84.48%), Query Frame = -1 
Query:  354 MAFSSIPKDLRHLRACLLCSMVKTLEQFEIDGCDNCERFLYLKGDREQTMSCTSSNFDGVVSMMSPDESWVAKWQRIDKLRPGCYAVSVSGKLPSSVIKELKGRGITYRSRDTSTK 701
            MA  ++PKDLRHLRACLLCS+VKT++QFE DGCDNC+ +L +KG+RE    CTSS+FDG+++MMSP++SWV+KWQR+   +PG YAVSV+G+LP  +++ELK RG+ Y+SRDT+ K
Sbjct:    1 MALETVPKDLRHLRACLLCSLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGIIAMMSPEDSWVSKWQRVSNFKPGVYAVSVTGRLPQGIVRELKSRGVAYKSRDTAIK 116
The following BLAST results are available for this feature:
BLAST of TCONS_00009423 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
SPT4H2.151e-5262.07Transcription elongation factor SPT4 OS=Homo sapie... [more]
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