TCONS_00054967 (transcript) - C. hemisphaerica

Overview
NameTCONS_00054967
Unique NameTCONS_00054967
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length2586

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00054967 ID=TCONS_00054967|Name=TCONS_00054967|organism=Clytia hemisphaerica|type=transcript|length=2586bp
GTAATACTGCTTACTGTATATACTTTAGAATCCAGAATTTTTTTCCGATG
CAAATAAATCTGAATTAGAAAGGCTGAAGGGCAAATggaatatttgaaat
tttcgttTGGAAAGGTGGGGAAGGTGGGGAAAAGgttgaattttgttctg
ttaacaaaaaattttcatttgataaCTTGTGCTTGAGATTTGATTGAAAC
ATTGAAAACCGTCCGGAATTAAAGGCAAGTGTACGCTAACTGTTCAAGTC
CGTTTGGTTTAGAGATGCAAACTAccaatgtctaaacttttcaatatatc
tccagaaccaACAGACTTTTTGCAAGTCTGTAAAAAAGTTCAAACTCCTA
AATAGTTTTActaccgtgagatcaggtaacttgcattattggaggctaac
atgcatagccctcaaatgaatgaccaatcaaagcagcaaaatttcaaaac
aaatgaaagctccgctcgcagctctactctaccatttttgttttgattta
actttgtattttaatgaccagccaggtcattcatttgagggctatgcatg
ctagcctccactgatgcaagttaccaagTTATCATGGtatatgttctgtg
aaaaaatcataaccattaGTGAAATGTTCGTTCATCTAAGATTGCAGATa
taaatttgcaaagaaaaacaaacctttacagtagcacaaaaaatgctttg
ttaaacactttttccaacgaaaaataaataacttttatagTTCACACggt
atttttttcatccaatcagattgcatGATTTCACTTTTACTTTTTCTAGT
CCAATACAACATGGGATTCGAGTAATGTGAGGAAACGGGATTTGAGTCAC
GTAGCATCTCTAAATCAATTTTGCATTTCCCGTTTTTATCCTATGCAAAT
AAGTGATCTTTCAAAACATTGCATCATCATATATCAATGGAAAGCTTAGA
ATCTCTACTTTCTTATCTATATTTTGACAGCTGATAATAATGCTAGTGGG
AGAAATTTTACTTAGAAGATAACAAGTCAAAAATATGACCATACACGCCA
CATCAGGCACCCGGTGAAATAACAGGGAAAACCCTATTGAAGGGGAATTT
TGGGGAGATgaactttttccaaattttccatAAATAAAATTTATGACACA
GTGGGACCAGATTAGGTCGCTTTTCAGAAATTTAACACAGTTTAGGCCAT
TTTGAAGgtttgagaaaaattgaaaatttaaatttttggttTTCCCTACC
TAGCCAAAGTGGCTATTTTTTTACCCTAATCCTAGATCTTCTGCTTTGGT
AACCTACCTTAGTACGTGCCAAGACGATTTcagttgaaaatgttttttaa
aaaacacaaaaaaaacaaagaagaaataTGGTGAAATTCtacgaaatttg
ccatttttagcatttttgggGGTTCAGATTCtgacaaaaatcttaaatta
gAATAATGAGTTAGCTGAACGGATCCACCTGAAACCATATACTTTTCTGA
AACTGCATAGTTTGAATTGAGAAACtaagaaatgataaaaattttctCGG
ATCCTTTCAGATTTTTTTACTTAGACTTATAAGACTGCCGAGTAGGTTCA
GGAAACAGTTTATGTAAAACACTTATTACCAACTAGAGCATTTTATTATG
TCCCATTTCTAAAGATCtgctgatttcaaattttatcatagcaaagtttt
aaaataatttctaaATAATAAACATTTAGAACTTTTGCTGCTTGATATTG
ATAGATGAACTTTCATGTTACAAAACCTTTGTGGTTAAACTCTTGACAGT
CAGTATGCTGCTTTTTTGCCCAACCTGTGCTAATGTTTTGGTTGTGGAAG
AAGGTTCTGGTGGTATGTCGTCATTCAGGTTTGCCTGTAAGACATGTCCA
TTCATCTACAACATCACCAAGAAGATTTCTGACAAGAAGTATCCAAAGTT
GAAAGAAGTTGATGATGTTCTTGGAGGTGAAGAAGCTTGGAAAAATGTGG
ATGCAACACAAGaaaaatgcccaaaatgtgaacATATGATGGCATACTTT
ATGCAAATTCAAACCAGATCTGCTGATGAACCGATGACAACCTTTTACAA
ATGCTGCTCATGCGGTCATCGTTGGAAAGAATGATCAAATATAGgctttt
ttattgaatttggaGAGTATTTTTTTGAGACGTTGGAATCAAGCGGTTTC
TCGTACTTTATAAGCCTGTAAAGAAATAATTTACAGAACATCATCATCTC
TTTGGAAGAAGATACAAACAAACAATACTTAACGGCATTTGATGCACAGC
TAATACTTGTTATTATTAAAAACGAAAATATAGATGGACTTCAGACTTCT
ACAACTCCATTAATTTTATAACGTCATTCAAAAGACATGTTTTGTTTATT
ATCTTATAGATTGCACTTTTTATAGATTTGTAAAACATTATAATTTTTAC
CATTATGTTTTCTAAGAAAAAATGCCTTTAATGATCTTGTAGGCCTCTCT
CTGCTCATAGAATTTACTCTTCTAGCCAAATTTGGGATCAAGAGGGCCTT
TTTCTTTTAAACCTCTCTATAATAACTAATTCTGAA
Run BLAST on NCBI

protein sequence of TCONS_00054967-protein

>TCONS_00054967-protein ID=TCONS_00054967-protein|Name=TCONS_00054967-protein|organism=Clytia hemisphaerica|type=polypeptide|length=109bp
MLLFCPTCANVLVVEEGSGGMSSFRFACKTCPFIYNITKKISDKKYPKLK
EVDDVLGGEEAWKNVDATQEKCPKCEHMMAYFMQIQTRSADEPMTTFYKC
CSCGHRWKE
Run BLAST on NCBI

transcript from alignment at scaffold_247:149226..152373-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00054967 ID=TCONS_00054967|Name=TCONS_00054967|organism=Clytia hemisphaerica|type=transcript|length=3148bp|location=Sequence derived from alignment at scaffold_247:149226..152373- (Clytia hemisphaerica)
GTAATACTGCTTACTGTATATACTTTAGAATCCAGAATTTTTTTCCGATG
CAAATAAATCTGAATTAGAAAGGCTGAAGGGCAAATGGAATATTTGAAAT
TTTCGTTTGGAAAGGTGGGGAAGGTGGGGAAAAGGTTGAATTTTGTTCTG
TTAACAAAAAATTTTCATTTGATAACTTGTGCTTGAGATTTGATTGAAAC
ATTGAAAACCGTCCGGAATTAAAGGCAAGTGTACGCTAACTGTTCAAGTC
CGTTTGGTTTAGAGATGCAAACTACCAATGTCTAAACTTTTCAATATATC
TCCAGAACCAACAGACTTTTTGCAAGTCTGTAAAAAAGTTCAAACTCCTA
AATAGTTTTACTACCGTGAGATCAGGTAACTTGCATTATTGGAGGCTAAC
ATGCATAGCCCTCAAATGAATGACCAATCAAAGCAGCAAAATTTCAAAAC
AAATGAAAGCTCCGCTCGCAGCTCTACTCTACCATTTTTGTTTTGATTTA
ACTTTGTATTTTAATGACCAGCCAGGTCATTCATTTGAGGGCTATGCATG
CTAGCCTCCACTGATGCAAGTTACCAAGTTATCATGGTATATGTTCTGTG
AAAAAATCATAACCATTAGTGAAATGTTCGTTCATCTAAGATTGCAGATA
TAAATTTGCAAAGAAAAACAAACCTTTACAGTAGCACAAAAAATGCTTTG
TTAAACACTTTTTCCAACGAAAAATAAATAACTTTTATAGTTCACACGGT
ATTTTTTTCATCCAATCAGATTGCATGATTTCACTTTTACTTTTTCTAGT
CCAATACAACATGGGATTCGAGTAATGTGAGGAAACGGGATTTGAGTCAC
GTAGCATCTCTAAATCAATTTTGCATTTCCCGTTTTTATCCTATGCAAAT
AAGTGATCTTTCAAAACATTGCATCATCATATATCAATGGAAAGCTTAGA
ATCTCTACTTTCTTATCTATATTTTGACAGCTGATAATAATGCTAGTGGG
AGAAATTTTACTTAGAAGATAACAAGTCAAAAATATGACCATACACGCCA
CATCAGGCACCCGGTGAAATAACAGGGAAAACCCTATTGAAGGGGAATTT
TGGGGAGATGAACTTTTTCCAAATTTTCCATAAATAAAATTTATGACACA
GTGGGACCAGATTAGGTCGCTTTTCAGAAATTTAACACAGTTTAGGCCAT
TTTGAAGGTTTGAGAAAAATTGAAAATTTAAATTTTTGGTTTTCCCTACC
TAGCCAAAGTGGCTATTTTTTTACCCTAATCCTAGATCTTCTGCTTTGGT
AACCTACCTTAGTACGTGCCAAGACGATTTCAGTTGAAAATGTTTTTTAA
AAAACACAAAAAAAACAAAGAAGAAATATGGTGAAATTCTACGAAATTTG
CCATTTTTAGCATTTTTGGGGGTTCAGATTCTGACAAAAATCTTAAATTA
GAATAATGAGTTAGCTGAACGGATCCACCTGAAACCATATACTTTTCTGA
AACTGCATAGTTTGAATTGAGAAACTAAGAAATGATAAAAATTTTCTCGG
ATCCTTTCAGATTTTTTTACTTAGACTTATAAGACTGCCGAGTAGGTTCA
GGAAACAGTTTATGTAAAACACTTATTACCAACTAGAGCATTTTATTATG
TCCCATTTCTAAAGATCTGCTGATTTCAAATTTTATCATAGCAAAGTTTT
AAAATAATTTCTAAATAATAAACATTTAGAACTTTTGCTGCTTGATATTG
ATAGATGAACTTTCATGTTACAAAACCTTTGTGGTTAAACTCTTGACAGT
CAGTATGCTGCTTTTTTGCCCAACCTGTGCTAATGTTTTGGTTGTGGAAG
AAGGTTCTGGTGGTATGTCGTCATTCAGGTTTGCCTGTAAGACATGTCCA
TTCATCTACAACATCACCAAGAAGGTAACTTTGCTGGTTTTGAATGTTTA
AAAACGATAATGTTAAAAAGATAAAGATGTATCTTGAAAAGCAGAAAGAA
AAAAAGAGTAGCTGTAGAAGAACATCTTAATAATAACAGTTCAATTATTA
TTACCAAATTACTTGATTTTCAAAAAAATTTTAAGATCACCTCACAGTAG
GAATTTAATATACTTTGATTGAACAAAGAAGTTCAGTAAGGAAAGTAATT
TTAAAGATTTTCAACTATGGAAGTTCTTTTACGCTTTTGTCACGATATAC
ACTGTTGAATGGTGACCTTTTTGGAAAAATCAAATCATCTCTTTCATAGA
AAATATTCGTGTTTCAATTTTCATCAAATATTGATTTTAAATACTAGATT
TCTGACAAGAAGTATCCAAAGTTGAAAGAAGTTGATGATGTTCTTGGAGG
TGAAGAAGCTTGGAAAAATGTGGATGCAACACAAGGTGAAGATCCTTCAT
TTTAAGAACGTTTTTATCATTCAAATTAAAACATTTGATACCTTTAAAAT
CGAATTAGAGAGAGTAAAATTTATCATTTTCTAAACACAGCTTTCAAGTT
AGGGATTCTATTATATGATATTTTAGCAATCAGATTTTCAACCCTTGACT
TGACCTTGACTATTCTCCTTACAGAAAAATGCCCAAAATGTGAACATATG
ATGGCATACTTTATGCAAATTCAAACCAGATCTGCTGATGAACCGATGAC
AACCTTTTACAAATGCTGCTCATGCGGTCATCGTTGGAAAGAATGATCAA
ATATAGGCTTTTTTATTGAATTTGGAGAGTATTTTTTTGAGACGTTGGAA
TCAAGCGGTTTCTCGTACTTTATAAGCCTGTAAAGAAATAATTTACAGAA
CATCATCATCTCTTTGGAAGAAGATACAAACAAACAATACTTAACGGCAT
TTGATGCACAGCTAATACTTGTTATTATTAAAAACGAAAATATAGATGGA
CTTCAGACTTCTACAACTCCATTAATTTTATAACGTCATTCAAAAGACAT
GTTTTGTTTATTATCTTATAGATTGCACTTTTTATAGATTTGTAAAACAT
TATAATTTTTACCATTATGTTTTCTAAGAAAAAATGCCTTTAATGATCTT
GTAGGCCTCTCTCTGCTCATAGAATTTACTCTTCTAGCCAAATTTGGGAT
CAAGAGGGCCTTTTTCTTTTAAACCTCTCTATAATAACTAATTCTGAA

Coding sequence (CDS) from alignment at scaffold_247:149226..152373-

>TCONS_00054967 ID=TCONS_00054967|Name=TCONS_00054967|organism=Clytia hemisphaerica|type=CDS|length=990bp|location=Sequence derived from alignment at scaffold_247:149226..152373- (Clytia hemisphaerica)
AAAAATGCCCAAAATGTGAACATATGATGGCATACTTTATGCAAATTCAA
ACCAGATCTGCTGATGAACCGATGACAACCTTTTACAAATGCTGCTCATG
CGGTCATCGTTGGAAAGAATGAATTTCTGACAAGAAGTATCCAAAGTTGA
AAGAAGTTGATGATGTTCTTGGAGGTGAAGAAGCTTGGAAAAATGTGGAT
GCAACACAAGATGCTGCTTTTTTGCCCAACCTGTGCTAATGTTTTGGTTG
TGGAAGAAGGTTCTGGTGGTATGTCGTCATTCAGGTTTGCCTGTAAGACA
TGTCCATTCATCTACAACATCACCAAGAAGAAAAATGCCCAAAATGTGAA
CATATGATGGCATACTTTATGCAAATTCAAACCAGATCTGCTGATGAACC
GATGACAACCTTTTACAAATGCTGCTCATGCGGTCATCGTTGGAAAGAAT
GAATTTCTGACAAGAAGTATCCAAAGTTGAAAGAAGTTGATGATGTTCTT
GGAGGTGAAGAAGCTTGGAAAAATGTGGATGCAACACAAGATGCTGCTTT
TTTGCCCAACCTGTGCTAATGTTTTGGTTGTGGAAGAAGGTTCTGGTGGT
ATGTCGTCATTCAGGTTTGCCTGTAAGACATGTCCATTCATCTACAACAT
CACCAAGAAGAAAAATGCCCAAAATGTGAACATATGATGGCATACTTTAT
GCAAATTCAAACCAGATCTGCTGATGAACCGATGACAACCTTTTACAAAT
GCTGCTCATGCGGTCATCGTTGGAAAGAATGAATTTCTGACAAGAAGTAT
CCAAAGTTGAAAGAAGTTGATGATGTTCTTGGAGGTGAAGAAGCTTGGAA
AAATGTGGATGCAACACAAGATGCTGCTTTTTTGCCCAACCTGTGCTAAT
GTTTTGGTTGTGGAAGAAGGTTCTGGTGGTATGTCGTCATTCAGGTTTGC
CTGTAAGACATGTCCATTCATCTACAACATCACCAAGAAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_034636XLOC_034636Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054967-proteinTCONS_00054967-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054967-exon-scaffold_247-1575043694:150450..152373TCONS_00054967-exon-scaffold_247-1575043694:150450..152373Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1575043694:149989..150076TCONS_00054967-exon-scaffold_247-1575043694:149989..150076Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1575043694:149226..149799TCONS_00054967-exon-scaffold_247-1575043694:149226..149799Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1510915933:150450..152373TCONS_00054967-exon-scaffold_247-1510915933:150450..152373Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1510915933:149989..150076TCONS_00054967-exon-scaffold_247-1510915933:149989..150076Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1510915933:149226..149799TCONS_00054967-exon-scaffold_247-1510915933:149226..149799Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1491911889:150450..152373TCONS_00054967-exon-scaffold_247-1491911889:150450..152373Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1491911889:149989..150076TCONS_00054967-exon-scaffold_247-1491911889:149989..150076Clytia hemisphaericaexon
TCONS_00054967-exon-scaffold_247-1491911889:149226..149799TCONS_00054967-exon-scaffold_247-1491911889:149226..149799Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_247supercontigscaffold_247:149226..152373 -
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
27.1671	25.2132	9.2514	6.31468	6.74606	4.66127	6.04388	6.63636	8.18603	6.64728	7.86515	6.60205	5.65901	5.96712	5.04099	4.78993	7.53928	6.69418	4.7684	5.49517	7.70911	7.53664	23.7394	20.4568	4.40183	4.44716	7.55613	6.97243	11.012	14.5552
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001222Znf_TFIIS
IPR001529DNA-dir_RNA_pol_M/15kDasu
IPR012164Rpa12/Rpb9/Rpc10/TFS
IPR034014Zn_ribbon_RPC11_C
Vocabulary: Molecular Function
TermDefinition
GO:0003676nucleic acid binding
GO:0008270zinc ion binding
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
GO:0006379mRNA cleavage
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006379 mRNA cleavage
biological_process GO:0006351 transcription, DNA-templated
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding
Blast
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BLAST of TCONS_00054967 vs. Swiss-Prot (Human)
Match: RPC10 (DNA-directed RNA polymerase III subunit RPC10 OS=Homo sapiens GN=POLR3K PE=1 SV=2)

HSP 1 Score: 169.859 bits (429), Expect = 7.809e-49
Identity = 76/111 (68.47%), Postives = 92/111 (82.88%), Query Frame = 2 
Query: 1805 MLLFCPTCANVLVVEEGSGGMSSFRFACKTCPFIYNITKKISDKKYPKLKEVDDVLGGEEAWKNVDATQEKCPKCEHMMAYFMQIQTRSADEPMTTFYKCCS--CGHRWKE 2131
            MLLFCP C N L+VEEG       RF+C TCP+++NIT+K++++KYPKLKEVDDVLGG  AW+NVD+T E CPKCEH  AYFMQ+QTRSADEPMTTFYKCC+  CGHRW++
Sbjct:    1 MLLFCPGCGNGLIVEEGQ---RCHRFSCNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWENVDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD 108
The following BLAST results are available for this feature:
BLAST of TCONS_00054967 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
RPC107.809e-4968.47DNA-directed RNA polymerase III subunit RPC10 OS=H... [more]
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