TCONS_00049501 (transcript) - C. hemisphaerica

Overview
NameTCONS_00049501
Unique NameTCONS_00049501
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length2130

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00049501 ID=TCONS_00049501|Name=TCONS_00049501|organism=Clytia hemisphaerica|type=transcript|length=2130bp
GTCAAATTCTGCAACAGTGTTAAGTTTTGGTGGTTTACAGTGCTAAAACT
ACCATATACAATTATCATTGAACCCTCCTGAGAAAGATGCCTTACGCTAG
TCaaccaaaagtcaaaatatcagAACTGAgtgatgaaaatatcaaattca
cACTTGAGGATACTGATTTGTCCATGGCAAATGGTTTGAGAAGGATCTTC
ATTTCAGAAGTCCCAACTATTGCAATTGATTGggttcaaattgaaaataa
tacttCAGTACTACATGATGAATTTATAGCCCATCGTGTTGGTTTGATTC
CTTTAACATGTGATGAATCAGTCGAGGGGATGAGCTACTCCAGAGATTGC
ACATGTATTGATTTTTGCCCTGAGTGTTCTGTAGAATTCACTCTTGAGGT
CAAATGCACTGAAGATACAACAAGACGTATAACAAGCCGTGATTTGATAT
CAGCTAACCCAAAAATTGTTCCAGTTACTTCTCAAAACAAAGATGATGAT
AGTGACATGCAGGAAAATAAcgatattattattttgaagCTTCGAAAAGG
TCAAGAACTGAAATTACGTGCTTATGCCAAAAAAGGGTTTGGTAAAGAGC
ATGCCAAATGGAATCCAACAGCTGGAGTGGCTTTTGAGTATGATCCTGAT
AATGTGATGAGACATACAACATATCCAAGACCAGAGGAATGGCCTAAAAG
TGAATATTCACAACTTGACGAGGATCAAACACAAGGTGATTTTGATGTTG
GTGCTAAACCAAACAAGTTCTTTTTCAATGTCGAAACATCTGGGTCACTG
AGACCTGAAAGAATTATCTTGTCTGGACTttctgttttgaaaaagaaact
gaGTGACTTGCAAACACAACACAGTCATGAAATTGCAGCTGATGTTTTAG
CCATTTGATGTCTTGTTTTTAgtttaccaaaaatcaaaattgcatGGATT
TAAATAAACAATAGAGTGCTATTGTGGCTTTGATTTTGCAATACGTTTAT
TCANAGAAGTCCCAACTATTGCAATTGATTGggttcaaattgaaaataat
acttCAGTACTACATGATGAATTTATAGCCCATCGTGTTGGTTTGATTCC
TTTAACATGTGATGAATCAGTCGAAGGGATGAGCTACTCCAGAGATTGCA
CATGTATTGATTTTTGCCCTGAGTGTTCTGTAGAATTCACTCTTGAGGTC
AAATGCACTGAAGATACAACAAGACGTATAACAAGCCGTGATTTGATATC
AGCTAACCCAAAAATTGTTCCAGTTACTTCTCAAAACAAAGATGATGATA
GTGACATGCAGGAAAATAACGATatcattattttgaaacttcGAAAAGGT
CAAGAACTGAAATTACGTGCTTATGCAAAAAAAGGGTTTGGTAAAGAGCA
TGCCAAATGGAATCCAACAGCTGGAGTGGCTTTTGAGTACGATCCTGATA
ATGTGATGAGACATACAACATATCCAAGACCAGAGGAATGGCCTAAAAGT
GAATATTCACAACTTGACGAGGATCAAACACAAGGTGATTTTGATGTTGG
TGCTAAACCAAACAAGTTCTTTTTCAATGTCGAAACATCTGGGTCACTGA
GACCTGAAAGAATTATCTTGTCTGGACTttctgttttgaaaaagaaactg
aGTGACTTGCAAACACAACACAGTCATGAAATTGCAGCTGATGTTTTAGC
CATTTGATGTCTTGTTTTTAgtttaccaaaaatcaaaattgcatGGATTT
AAATAAACAATAGAGTGCTATTGTGGCTTTGATTTTGCAATACGTTTATT
CAATATTCTTAGATCTACAATATACGTGGGACTTTTTTCACTCAACCCAA
TTCAAAATTGCTTGGATATGAATAAACAATAGAGTATGTACTATAATGTG
ACTTTGATTTTGCAATAGGCTTATTCAGTATTCTCAGATACAGAATATAC
AAGGGACATATCCACCATTGGTGTCATTGctgtttttattattattattt
tatttaaccACACTTTAGATTATACTTAAGAAGATACAACATTttttaat
tgataaaaaaattgattttgttacGAGTCATGGATACCCTAaagttttat
tcaaaaaaataccttttttgtcacttttat
Run BLAST on NCBI

transcript from alignment at scaffold_16:99308..101880-

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00049501 ID=TCONS_00049501|Name=TCONS_00049501|organism=Clytia hemisphaerica|type=transcript|length=2573bp|location=Sequence derived from alignment at scaffold_16:99308..101880- (Clytia hemisphaerica)
GTCAAATTCTGCAACAGTGTTAAGTTTTGGTGGTTTACAGTGGTAAGTTG
GGACAGAAATATTGTAGACAATATGCATTCCCTATCATATCAGAGGGGAT
GTGTGCAGCCTACAGTAAGGCTGCTTTTTTTCAACCTGATTTTGCTTGTG
TTTTGAAAAAAATTGGTTTACATTGCAACAATCAATCTTAATTGGGAATG
TTGCAATTTTACCAACCCAGGTACACACGATAATAACAGAGAACAGGTTT
TCAAAAGTATTCAACTACAGGACGTAAGTCTGGTTTTTGGTAAAATAGCT
ATTCAAAACTGCCAACCCTATTCATTTCAAATGTTTCAAAAACAGTTCTT
GAATTTTTTTGAATTTAGATTTCTGTAAACTATCTGCTTTTGTGAAGCTC
AGAGGGTTTTTGGGTTTATCTTAATTTGGTTTCTGGAAAAACTCTTTTAG
CCTAGAACCTTGACCATTTTGACATTATGTTTCAGCTAAAACTACCATAT
ACAATTATCATTGAACCCTCCTGAGAAAGATGCCTTACGCTAGTCAACCA
AAAGTCAAAATATCAGAACTGAGTGATGAAAATATCAAATTCACACTTGA
GGATACTGATTTGTCCATGGCAAATGGTTTGAGAAGGATCTTCATTTCAG
AAGTCCCAACTATTGCAATTGATTGGGTTCAAATTGAAAATAATACTTCA
GTACTACATGATGAATTTATAGCCCATCGTGTTGGTTTGATTCCTTTAAC
ATGTGATGAATCAGTCGAGGGGATGAGCTACTCCAGAGATTGCACATGTA
TTGATTTTTGCCCTGAGTGTTCTGTAGAATTCACTCTTGAGGTCAAATGC
ACTGAAGATACAACAAGACGTATAACAAGCCGTGATTTGATATCAGCTAA
CCCAAAAATTGTTCCAGTTACTTCTCAAAACAAAGATGATGATAGTGACA
TGCAGGAAAATAACGATATTATTATTTTGAAGCTTCGAAAAGGTCAAGAA
CTGAAATTACGTGCTTATGCCAAAAAAGGGTTTGGTAAAGAGCATGCCAA
ATGGAATCCAACAGCTGGAGTGGCTTTTGAGTATGATCCTGATAATGTGA
TGAGACATACAACATATCCAAGACCAGAGGAATGGCCTAAAAGTGAATAT
TCACAACTTGACGAGGATCAAACACAAGGTGATTTTGATGTTGGTGCTAA
ACCAAACAAGTTCTTTTTCAATGTCGAAACATCTGGGTCACTGAGACCTG
AAAGAATTATCTTGTCTGGACTTTCTGTTTTGAAAAAGAAACTGAGTGAC
TTGCAAACACAACACAGTCATGAAATTGCAGCTGATGTTTTAGCCATTTG
ATGTCTTGTTTTTAGTTTACCAAAAATCAAAATTGCATGGATTTAAATAA
ACAATAGAGTGCTATTGTGGCTTTGATTTTGCAATACGTTTATTCANAGA
AGTCCCAACTATTGCAATTGATTGGGTTCAAATTGAAAATAATACTTCAG
TACTACATGATGAATTTATAGCCCATCGTGTTGGTTTGATTCCTTTAACA
TGTGATGAATCAGTCGAAGGGATGAGCTACTCCAGAGATTGCACATGTAT
TGATTTTTGCCCTGAGTGTTCTGTAGAATTCACTCTTGAGGTCAAATGCA
CTGAAGATACAACAAGACGTATAACAAGCCGTGATTTGATATCAGCTAAC
CCAAAAATTGTTCCAGTTACTTCTCAAAACAAAGATGATGATAGTGACAT
GCAGGAAAATAACGATATCATTATTTTGAAACTTCGAAAAGGTCAAGAAC
TGAAATTACGTGCTTATGCAAAAAAAGGGTTTGGTAAAGAGCATGCCAAA
TGGAATCCAACAGCTGGAGTGGCTTTTGAGTACGATCCTGATAATGTGAT
GAGACATACAACATATCCAAGACCAGAGGAATGGCCTAAAAGTGAATATT
CACAACTTGACGAGGATCAAACACAAGGTGATTTTGATGTTGGTGCTAAA
CCAAACAAGTTCTTTTTCAATGTCGAAACATCTGGGTCACTGAGACCTGA
AAGAATTATCTTGTCTGGACTTTCTGTTTTGAAAAAGAAACTGAGTGACT
TGCAAACACAACACAGTCATGAAATTGCAGCTGATGTTTTAGCCATTTGA
TGTCTTGTTTTTAGTTTACCAAAAATCAAAATTGCATGGATTTAAATAAA
CAATAGAGTGCTATTGTGGCTTTGATTTTGCAATACGTTTATTCAATATT
CTTAGATCTACAATATACGTGGGACTTTTTTCACTCAACCCAATTCAAAA
TTGCTTGGATATGAATAAACAATAGAGTATGTACTATAATGTGACTTTGA
TTTTGCAATAGGCTTATTCAGTATTCTCAGATACAGAATATACAAGGGAC
ATATCCACCATTGGTGTCATTGCTGTTTTTATTATTATTATTTTATTTAA
CCACACTTTAGATTATACTTAAGAAGATACAACATTTTTTAATTGATAAA
AAAATTGATTTTGTTACGAGTCATGGATACCCTAAAGTTTTATTCAAAAA
AATACCTTTTTTGTCACTTTTAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_031401XLOC_031401Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00049501-exon-scaffold_16-1575043694:101839..101880TCONS_00049501-exon-scaffold_16-1575043694:101839..101880Clytia hemisphaericaexon
TCONS_00049501-exon-scaffold_16-1575043694:99308..101395TCONS_00049501-exon-scaffold_16-1575043694:99308..101395Clytia hemisphaericaexon
TCONS_00049501-exon-scaffold_16-1510915933:101839..101880TCONS_00049501-exon-scaffold_16-1510915933:101839..101880Clytia hemisphaericaexon
TCONS_00049501-exon-scaffold_16-1510915933:99308..101395TCONS_00049501-exon-scaffold_16-1510915933:99308..101395Clytia hemisphaericaexon
TCONS_00049501-exon-scaffold_16-1491911889:101839..101880TCONS_00049501-exon-scaffold_16-1491911889:101839..101880Clytia hemisphaericaexon
TCONS_00049501-exon-scaffold_16-1491911889:99308..101395TCONS_00049501-exon-scaffold_16-1491911889:99308..101395Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_16supercontigscaffold_16:99308..101880 -
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
17.9575	20.8439	51.6005	50.0152	21.9745	14.5462	12.855	13.0082	5.36861	4.33326	4.01963	1.3413	0.169962	0	0	0	0.111005	0.152536	0.0512627	0.299167	0.450131	3.08336e-09	4.19453	6.65765	1.22517	1.47687	0.0994912	0	0	0
Blast
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BLAST of TCONS_00049501 vs. Swiss-Prot (Human)
Match: RPB3 (DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens GN=POLR2C PE=1 SV=2)

HSP 1 Score: 403.29 bits (1035), Expect = 3.096e-135
Identity = 194/274 (70.80%), Postives = 240/274 (87.59%), Query Frame = 3 
Query:   87 MPYASQPKVKISELSDENIKFTLEDTDLSMANGLRRIFISEVPTIAIDWVQIENNTSVLHDEFIAHRVGLIPLTCDESVEGMSYSRDCTCIDFCPECSVEFTLEVKCTEDTTRRITSRDLISANPKIVPVTSQNKDDD-SDMQENNDIIILKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNVMRHTTYPRPEEWPKSEYSQLDEDQTQGDFDVGAKPNKFFFNVETSGSLRPERIIXXXXXXXXXXXXXXQTQHSHEIAADVLAI 905
            MPYA+QP V+I+EL+DEN+KF +E+TDL++AN +RR+FI+EVP IAIDWVQI+ N+SVLHDEFIAHR+GLIPL  D+ V+ + YSRDCTC +FCPECSVEFTL+V+C ED TR +TSRDLIS +P+++PVTS+N+D+D +D  E +DI+I+KLRKGQEL+LRAYAKKGFGKEHAKWNPTAGVAFEYDPDN +RHT YP+PEEWPKSEYS+LDED++Q  +D   KP +F++NVE+ GSLRPE I+LS LS LKKKLSDLQTQ SHEI +DVL I
Sbjct:    1 MPYANQPTVRITELTDENVKFIIENTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHDEFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHEIQSDVLTI 274

HSP 2 Score: 343.584 bits (880), Expect = 4.359e-112
Identity = 171/239 (71.55%), Postives = 206/239 (86.19%), Query Frame = 1 
Query:  994 RLF-XEVPTIAIDWVQIENNTSVLHDEFIAHRVGLIPLTCDESVEGMSYSRDCTCIDFCPECSVEFTLEVKCTEDTTRRITSRDLISANPKIVPVTSQNKDDD-SDMQENNDIIILKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNVMRHTTYPRPEEWPKSEYSQLDEDQTQGDFDVGAKPNKFFFNVETSGSLRPERIIXXXXXXXXXXXXXXQTQHSHEIAADVLAI 1704
            R+F  EVP IAIDWVQI+ N+SVLHDEFIAHR+GLIPL  D+ V+ + YSRDCTC +FCPECSVEFTL+V+C ED TR +TSRDLIS +P+++PVTS+N+D+D +D  E +DI+I+KLRKGQEL+LRAYAKKGFGKEHAKWNPTAGVAFEYDPDN +RHT YP+PEEWPKSEYS+LDED++Q  +D   KP +F++NVE+ GSLRPE I+LS LS LKKKLSDLQTQ SHEI +DVL I
Sbjct:   36 RVFIAEVPIIAIDWVQIDANSSVLHDEFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHEIQSDVLTI 274
The following BLAST results are available for this feature:
BLAST of TCONS_00049501 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
RPB33.096e-13570.80DNA-directed RNA polymerase II subunit RPB3 OS=Hom... [more]
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