TCONS_00058420 (transcript) - C. hemisphaerica

Overview
NameTCONS_00058420
Unique NameTCONS_00058420
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1120

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00058420 ID=TCONS_00058420|Name=TCONS_00058420|organism=Clytia hemisphaerica|type=transcript|length=1120bp
gaattttcttactTATTCTTTTCATTTATTCTATTTTCTTATTACATTAG
CCtaaggtaggtccattcagcatgtagcttgttttcaTTTAGTCCCATTT
TGGAATACCATTTATTTAATGCAATGCAGCCTTTATAATAATATTTCATC
TGAAGCCATTGGCATAGTATGACCCATTTGAATAGTTTGGGATCATTTAA
TCAATTTAATCTTAAACACCACATTACACTTTTGTAGGAAAAAAGTatag
aattaaaaaatgttttatcatATTTCCTTGGATCACGAAATTCTTTTGCA
TCCTCGTTACTTTGGACCAACTCTTTTGCAGACAgtgaaacaaaaacttt
ttacagAAGTTGAAGGGACATGCACAGGGAAATATGGCTTTGTTATTGCT
GTCACCACTATTGATAATATCGGAGCAGGTCACATTCAACCAGGCCGTGG
TTTTGTTGTTTACCCGGTCAAATATAAAGCTATTGTTTTCAGACCGTTCA
AAGGAGAAGTTTTAGAGGCAGTTGTTACGCAGGTAAATAAAGCAGGACTT
TTCACAGAAATTGGACCTTTGTCATGTTTCATTTCTCGACATTCCATCCC
ACCAGATATGGaatttgatccaaattcaaATCCACCATGCTACAAAACAA
AAGATGAAGAAGTTGTTATACAACAAGATGATGAGATCCGTCTCAAAATT
GTTGGTACCAGAGTCGACGCAAATGATATTTTTGCCATTGGAACTCTTAT
GGATGATTTCTTGGGATTGGTTAGTTAGTGATTAGATATGGTTGATGGGA
AACttttattcaaacttttttaaacttatTCTCTTCATTTTGTTATTGTA
AAGATAATTCTTATTTACtacttgattttttatttcctttccAGCCTGAT
TCAAATTACTTTGTTTCTAACCCTTCTTAAGTGAGACCAATTTAAtatgt
tgttctacgggcagatcgttagaaaaatatgggtcggtcggtcggtcggt
aaaataagaataaacttttcatttatcagggttcgtaaagtaccgaaaat
attttccaaaaaatttctggatcaaaaaatcacttttttatcttcgatta
agatcataataaaattttta
Run BLAST on NCBI

protein sequence of TCONS_00058420-protein

>TCONS_00058420-protein ID=TCONS_00058420-protein|Name=TCONS_00058420-protein|organism=Clytia hemisphaerica|type=polypeptide|length=172bp
MFYHISLDHEILLHPRYFGPTLLQTVKQKLFTEVEGTCTGKYGFVIAVTT
IDNIGAGHIQPGRGFVVYPVKYKAIVFRPFKGEVLEAVVTQVNKAGLFTE
IGPLSCFISRHSIPPDMEFDPNSNPPCYKTKDEEVVIQQDDEIRLKIVGT
RVDANDIFAIGTLMDDFLGLVS
Run BLAST on NCBI

transcript from alignment at scaffold_311:48122..49294+

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00058420 ID=TCONS_00058420|Name=TCONS_00058420|organism=Clytia hemisphaerica|type=transcript|length=1173bp|location=Sequence derived from alignment at scaffold_311:48122..49294+ (Clytia hemisphaerica)
gaattttcttactTATTCTTTTCATTTATTCTATTTTCTTATTACATTAG
CCtaaggtaggtccattcagcatgtagcttgttttcaTTTAGTCCCATTT
TGGAATACCATTTATTTAATGCAATGCAGCCTTTATAATAATATTTCATC
TGAAGCCATTGGCATAGTATGACCCATTTGAATAGTTTGGGATCATTTAA
TCAATTTAATCTTAAACACCACATTACACTTTTGTAGGAAAAAAGTatag
aattaaaaaatgttttatcatATTTCCTTGGATCACGAAATTCTTTTGCA
TCCTCGTTACTTTGGACCAACTCTTTTGCAGACAgtgaaacaaaaacttt
ttacagAAGTTGAAGGGACATGCACAGGGAAATATGGCTTTGTTATTGCT
GTCACCACTATTGATAATATCGGAGCAGGTNAAAATATGGCTTTGTTATT
GCTGTTACCACGATTGATAATATCGGAGCAGGTCACATTCAACCAGGCCG
TGGTTTTGTTGTTTACCCGGTCAAATATAAAGCTATTGTTTTCAGACCGT
TCAAAGGAGAAGTTTTAGAGGCAGTTGTTACGCAGGTAAATAAAGCAGGA
CTTTTCACAGAAATTGGACCTTTGTCATGTTTCATTTCTCGACATTCCAT
CCCACCAGATATGGaatttgatccaaattcaaATCCACCATGCTACAAAA
CAAAAGATGAAGAAGTTGTTATACAACAAGATGATGAGATCCGTCTCAAA
ATTGTTGGTACCAGAGTCGACGCAAATGATATTTTTGCCATTGGAACTCT
TATGGATGATTTCTTGGGATTGGTTAGTTAGTGATTAGATATGGTTGATG
GGAAACttttattcaaacttttttaaacttatTCTCTTCATTTTGTTATT
GTAAAGATAATTCTTATTTACtacttgattttttatttcctttccAGCCT
GATTCAAATTACTTTGTTTCTAACCCTTCTTAAGTGAGACCAATTTAAta
tgttgttctacgggcagatcgttagaaaaatatgggtcggtcggtcggtc
ggtaaaataagaataaacttttcatttatcagggttcgtaaagtaccgaa
aatattttccaaaaaatttctggatcaaaaaatcacttttttatcttcga
ttaagatcataataaaattttta

Coding sequence (CDS) from alignment at scaffold_311:48122..49294+

>TCONS_00058420 ID=TCONS_00058420|Name=TCONS_00058420|organism=Clytia hemisphaerica|type=CDS|length=1038bp|location=Sequence derived from alignment at scaffold_311:48122..49294+ (Clytia hemisphaerica)
atgttttatcatATTTCCTTGGATCACGAAATTCTTTTGCATCCTCGTTA
CTTTGGACCAACTCTTTTGCAGACAgtgaaacaaaaactttttacagAAG
TTGAAGGGACATGCACAGGGAAATATGGCTTTGTTATTGCTGTCACCACT
ATTGATAATATCGGAGCAGGTCACATTCAACCAGGCCGTGGTTTTGTTGT
TTACCCGGTCAAATATAAAGCTATTGTTTTCAGACCGTTCAAAGGAGAAG
TTTTAGAGGCAGTTGTTACGCAGGTAAATAAAGCAGGACTTTTCACAGAA
ATTGGACCTTTGTCATGTTTCATTTCTCGACATTCCATCCCACCAGATAT
GGaatttgatccaaattcaaATCCACCATGCTACAAAACAAAAGATGAAG
AAGTTGTTATACAACAAGATGATGAGATCCGTCTCAAAATTGTTGGTACC
AGAGTCGACGCAAATGATATTTTTGCCATTGGAACTCTTATGGATGATTT
CTTGGGATTGGTTAGTTAGatgttttatcatATTTCCTTGGATCACGAAA
TTCTTTTGCATCCTCGTTACTTTGGACCAACTCTTTTGCAGACAgtgaaa
caaaaactttttacagAAGTTGAAGGGACATGCACAGGGAAATATGGCTT
TGTTATTGCTGTCACCACTATTGATAATATCGGAGCAGGTCACATTCAAC
CAGGCCGTGGTTTTGTTGTTTACCCGGTCAAATATAAAGCTATTGTTTTC
AGACCGTTCAAAGGAGAAGTTTTAGAGGCAGTTGTTACGCAGGTAAATAA
AGCAGGACTTTTCACAGAAATTGGACCTTTGTCATGTTTCATTTCTCGAC
ATTCCATCCCACCAGATATGGaatttgatccaaattcaaATCCACCATGC
TACAAAACAAAAGATGAAGAAGTTGTTATACAACAAGATGATGAGATCCG
TCTCAAAATTGTTGGTACCAGAGTCGACGCAAATGATATTTTTGCCATTG
GAACTCTTATGGATGATTTCTTGGGATTGGTTAGTTAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_036808XLOC_036808Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058420-proteinTCONS_00058420-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058420-exon-scaffold_311-1491911889:48122..48549TCONS_00058420-exon-scaffold_311-1491911889:48122..48549Clytia hemisphaericaexon
TCONS_00058420-exon-scaffold_311-1510915933:48122..48549TCONS_00058420-exon-scaffold_311-1510915933:48122..48549Clytia hemisphaericaexon
TCONS_00058420-exon-scaffold_311-1575043694:48122..48549TCONS_00058420-exon-scaffold_311-1575043694:48122..48549Clytia hemisphaericaexon
TCONS_00058420-exon-scaffold_311-1491911889:48603..49294TCONS_00058420-exon-scaffold_311-1491911889:48603..49294Clytia hemisphaericaexon
TCONS_00058420-exon-scaffold_311-1510915933:48603..49294TCONS_00058420-exon-scaffold_311-1510915933:48603..49294Clytia hemisphaericaexon
TCONS_00058420-exon-scaffold_311-1575043694:48603..49294TCONS_00058420-exon-scaffold_311-1575043694:48603..49294Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_311supercontigscaffold_311:48122..49294 +
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
57.7111	59.7734	42.0434	43.9383	40.0186	31.4139	30.5883	33.642	29.6139	24.3083	18.5834	19.2447	12.4636	11.2701	16.2496	16.6623	25.8849	19.6569	5.21615	9.12828	16.605	17.2337	47.3877	37.9492	20.4794	22.9754	15.7807	13.5463	23.7647	27.3275
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR022967S1_dom
IPR005576RNA_pol_Rpb7_N
IPR003029S1_domain
IPR012340NA-bd_OB-fold
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: Molecular Function
TermDefinition
GO:0003899DNA-directed 5'-3' RNA polymerase activity
GO:0003676nucleic acid binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006351 transcription, DNA-templated
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
molecular_function GO:0003676 nucleic acid binding
Blast
[Close]
BLAST of TCONS_00058420 vs. Swiss-Prot (Human)
Match: RPB7 (DNA-directed RNA polymerase II subunit RPB7 OS=Homo sapiens GN=POLR2G PE=1 SV=1)

HSP 1 Score: 325.479 bits (833), Expect = 6.312e-111
Identity = 155/172 (90.12%), Postives = 165/172 (95.93%), Query Frame = 2 
Query:  260 MFYHISLDHEILLHPRYFGPTLLQTVKQKLFTEVEGTCTGKYGFVIAVTTIDNIGAGHIQPGRGFVVYPVKYKAIVFRPFKGEVLEAVVTQVNKAGLFTEIGPLSCFISRHSIPPDMEFDPNSNPPCYKTKDEEVVIQQDDEIRLKIVGTRVDANDIFAIGTLMDDFLGLVS 775
            MFYHISL+HEILLHPRYFGP LL TVKQKLFTEVEGTCTGKYGFVIAVTTIDNIGAG IQPGRGFV+YPVKYKAIVFRPFKGEV++AVVTQVNK GLFTEIGP+SCFISRHSIP +MEFDPNSNPPCYKT DE++VIQQDDEIRLKIVGTRVD NDIFAIG+LMDD+LGLVS
Sbjct:    1 MFYHISLEHEILLHPRYFGPNLLNTVKQKLFTEVEGTCTGKYGFVIAVTTIDNIGAGVIQPGRGFVLYPVKYKAIVFRPFKGEVVDAVVTQVNKVGLFTEIGPMSCFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLKIVGTRVDKNDIFAIGSLMDDYLGLVS 172
The following BLAST results are available for this feature:
BLAST of TCONS_00058420 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
RPB76.312e-11190.12DNA-directed RNA polymerase II subunit RPB7 OS=Hom... [more]
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