TCONS_00005846 (transcript) - C. hemisphaerica

Overview
NameTCONS_00005846
Unique NameTCONS_00005846
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length326

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00005846 ID=TCONS_00005846|Name=TCONS_00005846|organism=Clytia hemisphaerica|type=transcript|length=326bp
tttttagaCTTAAATATCTAAATTATAAAAGATTATATTTTGATTGATCA
ACAATGGATGACGAAGCTGAAGTCTACAAACTATGGAGAATTCGTAAAAC
TATAATGCAGatgTGTCATGATCGTGGTTACTTGGTCACACAAGATGAAT
TGGACCAAACTGTTGATCAGTTTATTGAACAGTTTGGTAACCGCCCAAGt
GAAGGGAGACCATCAAGAGGAGATATGTCTGTACTTGTAGCGCATAATGA
TGATCCGACAGATTTGATGTTTGTATTTTTCCcagaagaagaaaaagttg
GAATCAAAACCATTAAACAGTATGTC
Run BLAST on NCBI

transcript from alignment at sc0000061:446657..450112+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00005846 ID=TCONS_00005846|Name=TCONS_00005846|organism=Clytia hemisphaerica|type=transcript|length=3456bp|location=Sequence derived from alignment at sc0000061:446657..450112+ (Clytia hemisphaerica)
tttttagaCTTAAATATCTAAATTATAAAAGATTATATTTTGATTGATCA
ACAATGGATGACGAAGCTGAAGTCTACAAACTATGGAGAATTCGTAAAAC
TATAATGCAGGTATCGtaaacttgttttcattttaaacatatcaatctat
tttcaaaatcatGATTATGGCATATTTAGCTTTGATTCTTTGACTTAAAA
TTGAATTGGTAATTTTATTGAAATCTCAATTCAtatattttcctttttga
tGTCATTTTTAAACAATCTCTAAAATTGTTTTCAATTGTACGAGGAGCTT
GTCACAAGAGTGGCCAATTTGATTACGTATGTGTTTGCCCAAAAAGGTTT
CACTGgataaaattgtgaaaaaaggTTTGGGTGAGTTGTCAAATATAGAA
GATTGGGTACGTATGTGTTTCTAAGAATTACAACACTTCTAgtgattttg
tttgttttcagatgTGTCATGATCGTGGTTACTTGGTCACACAAGATGAA
TTGGACCAAACTGTTGATCAGTTTATTGAACAGTTTGGTAACCGCCCAAG
GTACATAGTCAAAATTGTTTATGGCGTTGGTTCACTGGAAATATTCAGTA
ATCACCTGGGTGGGAAAAGCATTTCACACCTTGGAACTTGAATGATTTTC
CACCCGGGGGAATTTTTTGCACGTTTCAAGGTGTGAAATGTACTTTTTAC
ACCCAGCGACCTGCTCATAGTTTCTTGTTGTTTGTCTCAGTACATTCAGT
TTACTTCTTTACTTCAGCTTTCATGagaaaaaactggaaaaaaaagaaag
ttataGAATAAAACTATACGTGCTAGTGTACCACTTAATTGTTTAATTAC
CCCCCTAAAcacgatccaatccttttttgacaccttttacTATTGTATAT
ATGTGCgtaaaaaagactgggacggttttagggtggtaaacggacaaaaa
atgccagcgcagcaattggcagctacggtcgaaaGGTGTATTATCCTATC
ACttcattttataaaaattataatttaaatcacagaaaatcaactttAGC
TTTTGAGTCTTATActcgctttttcttttataagaagatactttataaga
atatttatgataaaattagcaaaaaagaaattaagaatatgctaagaata
ccacCATAATGGAAATTAGCTATTGAACCGTTGAAAGCCAATTCTAGATT
TTTTTCCCAGCAGTGCTAAAatgtttcacaaaaatgccaaattttagcTT
GAGGTAAGTATTGCATGCTAGATGTAGGCTTGGTTTGGATTCTAGCccaa
gaatactgtaagaatatttcaggatgattttccccaaacaGTTCAGAATA
CCCACGATGAAGGAAAAACAACATTCttcagtgttaaaagttcttccgtc
tcagacggatttccgtctcagagaagttttaaaaagcaaatttcGACTCA
AAActctgcataattcaccaaaatctCAAGATAatgtgctaatttgctgt
gtaaaatccattttccgtctcagacgaaagactttgctttgaccactgat
tcttataaaaatgcgtATAACCAAGGAAattgttttccaatttttttagt
GAAGGGAGACCATCAAGAGGAGATATGTCTGTACTTGTAGCGCATAATGA
TGATCCGACAGGTATTTTTGCTTCATTTAGCACCTATGAAATGNtctcga
gattttctcattagttttttgcgattttttgcacatagatgcacattagt
actgccgaaaaggtgtcgaaaaccgtttgtcgaaaaaattttttttcggt
ctgtagaaccggaaatgtgccggaaatcgtcgttttttNTAGATGGCAGT
ACATCCTTATAGCAAGGCGGTTTTggtgttttgataaaatgaatATTCAA
CACACTTTCTGTCCAGTCTACTAGATTCACCCAgcttattggacctaccc
cggtggaggtcctataaattaacccgtgttcgttagttcgttcgttagta
cgttagttaccaacttttctcgNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNtagcattgtttgatttccaaaaa
aatcatcctttgaatccggaactccttagaaatcgccggaacaggcgaaa
accggcgtaaaacggttttccttcattttttcgacttatactcgacagat
tttcatgatttttcgcacaatgatgtaaaatggcaatgcccaaaatgtga
cggagccgaGTCTGATTCCTTTAAAACGGAATTTTTATAAGTGTGGTTGA
TCCTAAAGCAATGAAGCGAGAAGTATAAATGAGTTTTAAAACCAGGACAA
AATTCCGGGCggaaataccggaaatatgccggaaatcacagTTTTTGGGT
ATTTCGGTCAGCATTTTAGAAACAGTATTAGAAACAGTAATGGTAAAGCT
TTTAGAcgtatttttatgattttcacaATAAACAAGGGTCAAATCCATGG
TAAAAGCCATTTTTCGATACGTAACTGTTCAAAAATTACCGGAAATAGCC
GAAAATGCtagtttattattattttttctaagagaagaaaatgtcacgtt
agagtgcgacggtttgagttttctggaaaccttatttattaagctgtgca
tttttctgtcTGATAGTggatagtggtttttataaagaaaagcgcttaat
agcttttttatttatttttcaaaaatctttttcaatagtgttgatagttt
ctctcaatagatatgctttcatNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNtttattttttgtattttgaccagttatgtct
tatgtgtttcattgtttcaatgttcactgattagtttgataaccaggtag
gtccataaaagtatcgcttgttaaCACTGAAACGAGTTAAAGAAATTGAA
TATAGTACCCTCATCAGAGCTAcgaaaggttgaaattttattagtttaaa
gatattctttgttatgatatagaaaggagacgcgcctctatgctgacaaa
gcataaAAAACAATGGGATTCCTNttaaagatattctttgttatgatata
gaaaggagacgcgcctctatgctgacaaagcataaAAAACAATGTGCTAG
CGCGGCGtggaagaaagaaaaagttgttctttcttttgcttaaaaaacgc
TGTATAAGCAGTTATAAACATATAATGAAATAGAAAGTTTGAGCATTAAT
GGTCTCTCCGCAACTCTTACAATATCCGTCTTTCTTTCCAGATTTGATGT
TTGTATTTTTCCcagaagaagaaaaagttgGAATCAAAACCATTAAACAG
TATGTC
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_003337XLOC_003337Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00005846-exon-sc0000061-1491911889:446657..446766TCONS_00005846-exon-sc0000061-1491911889:446657..446766Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1510915933:446657..446766TCONS_00005846-exon-sc0000061-1510915933:446657..446766Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1575043694:446657..446766TCONS_00005846-exon-sc0000061-1575043694:446657..446766Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1491911889:447118..447206TCONS_00005846-exon-sc0000061-1491911889:447118..447206Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1510915933:447118..447206TCONS_00005846-exon-sc0000061-1510915933:447118..447206Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1575043694:447118..447206TCONS_00005846-exon-sc0000061-1575043694:447118..447206Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1491911889:448256..448317TCONS_00005846-exon-sc0000061-1491911889:448256..448317Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1510915933:448256..448317TCONS_00005846-exon-sc0000061-1510915933:448256..448317Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1575043694:448256..448317TCONS_00005846-exon-sc0000061-1575043694:448256..448317Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1491911889:450048..450112TCONS_00005846-exon-sc0000061-1491911889:450048..450112Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1510915933:450048..450112TCONS_00005846-exon-sc0000061-1510915933:450048..450112Clytia hemisphaericaexon
TCONS_00005846-exon-sc0000061-1575043694:450048..450112TCONS_00005846-exon-sc0000061-1575043694:450048..450112Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000061supercontigsc0000061:446657..450112 +
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset | Show/Hide Values

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
36.6887	30.7507	142.475	143.084	89.1399	64.3003	104.084	105.106	78.9529	83.5538	74.6483	64.62	53.0357	45.8636	54.7513	56.9088	105.843	93.7879	24.1741	27.6574	55.7009	58.3417	51.1056	38.5606	56.3194	72.3448	31.1823	21.2983	33.6542	31.5452
Blast
[Close]
BLAST of TCONS_00005846 vs. Swiss-Prot (Human)
Match: RPAB1 (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Homo sapiens GN=POLR2E PE=1 SV=4)

HSP 1 Score: 155.606 bits (392), Expect = 4.910e-48
Identity = 70/90 (77.78%), Postives = 80/90 (88.89%), Query Frame = 3 
Query:   54 MDDEAEVYKLWRIRKTIMQMCHDRGYLVTQDELDQTVDQFIEQFGNRPSEGRPSRGDMSVLVAHNDDPTDLMFVFFPEEEKVGIKTIKQY 323
            MDDE E Y+LW+IRKTIMQ+CHDRGYLVTQDELDQT+++F  Q G++PSEGRP R D++VLVAHNDDPTD MFVFFPEE KVGIKTIK Y
Sbjct:    1 MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKVY 90
The following BLAST results are available for this feature:
BLAST of TCONS_00005846 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
RPAB14.910e-4877.78DNA-directed RNA polymerases I, II, and III subuni... [more]
back to top