TCONS_00039523 (transcript) - C. hemisphaerica

Overview
NameTCONS_00039523
Unique NameTCONS_00039523
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length629

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00039523 ID=TCONS_00039523|Name=TCONS_00039523|organism=Clytia hemisphaerica|type=transcript|length=629bp
GCAGTAAAAAACAAGACGGCCAGAGTGAACATACCTTTAAAGCTTGATTC
GTAAAGTCAGTTGATTAAAGTGATAGCCGAAAATTTTATTACAAAAAATG
TAATATTCAAAGAATGGCTGCTTACAACCCCATCCAATTTGGTTATGACG
TCACTTTCATTGGAGAAGACGAAAAAACATCAGCCCTTAATCCCGGTCAA
AAGGAGTTTGCAGGAGGGATAAATAAAGATGATATCACATGTGCAATATG
TCATTTGATTTTGAGGGAGCCTGTACAAGCTGTGAAATGCGGACATCGTT
TTTGTACAAAATGCATCGGACAATTTCATCAAACCAAtCCAGAAAAATGT
CCAATGGATTGGCAGACCATTCAGGTTTTTCCAGATATTGGTAAGAAGAG
AGAGATTTTGAATTTACAAATTCGTTGTCAAAATCACGAAGAAGGGTGCG
TTTGGCAAAATGAGATCAGAGAACTAGAGAACCATTTGAAGAATTGTGGA
TACCAGAAAGTACCTTGCGAATTGAAATGTGGTGAAAATGTTTTGCAGAA
AAATATGCCAAAACATTTGGTCGTAGAATGTCGAATGATTTTACGTTGCG
CGTTCAAAGACTATGGATGTACCTTTAAG
Run BLAST on NCBI

transcript from alignment at sc0002135:17364..20730+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00039523 ID=TCONS_00039523|Name=TCONS_00039523|organism=Clytia hemisphaerica|type=transcript|length=3367bp|location=Sequence derived from alignment at sc0002135:17364..20730+ (Clytia hemisphaerica)
GCAGTAAAAAACAAGACGGCCAGAGTGAACATACCTTTAAAGCTTGATTC
GTAAAGTCAGTTGATTAAAGTGATAGCCGAAAATTTTATTACAAAAAATG
TAATATTCAAAGAATGGCTGCTTACAACCCCATCCAATTTGGTTATGACG
TCACTTTCATTGGAGAAGACGAAAAAACATCAGCCCTTAATCCCGGTCAA
AAGGAGTTTGCAGGAGGGATAAATAAAGATGATATCACATGTGCAATATG
TCATTTGATTTTGAGGGAGCCTGTACAAGCTGTGAAATGCGGACATCGTT
TTTGTACAAAATGCATCGGACAATTTCATCAAACCAAGTGAGTCATTATT
TTTTTACCAGGGAAAACCACTTTTTCGGGACCGATATTTTAAATTCGTCA
CTTTACTTCAACCAAATTTACAATTCAGTCACTTCAGCCCGACTTCATTG
TTCTGTACTAGNAGAAAATCTTGTTACAAGAAATGTAATAATTAAAGAAT
GGCTACTTACAACCCCATCCACGTTGGTTATGACGTCACTTTTGTTGGAG
AAGACGAAAAAACATCAGCCCTTAATGCCGGTCAAAAGGAGTTTGCAGGA
GGGATAAATAAAGATGATATCACATGTGCAATATgtcatttgattttgag
agagcCTGTACAAGCAGTGAAATGCGGACATCGTTTTTGTACAAAATGTA
TTGGAGAATTTCATCAAACCAAGTGAGTCATTATTTTCTACCAGGGAAAA
CCACTTTTTCAAGACCGatatttcaaattcgtcactttacTTCAACCAAA
TTTACAATTCAGTCACTTCAACCCTACTTGTCCTACTTGTCCTATACTAG
CCCGAAAATAAGTCtcgtaattcgacgtttaaacaAGGAActtaaattta
taatttattaaGTTCCTTGGCTTAAAGCAATCATTTTAGTTAATTCATgg
tatgcaccactgcaatgacttcacgaaattatacacccctgtgtcaaaga
cccggtggacccccccaccccggtggaaaataggccaaaaaatcgtcccc
ggttgAAAAAATgtcctacaatttcaaccccactgcgaaattgctctatg
attttatcccattgaaaactgaatgtaaaaattgcactgagacaggggtg
tagtatgcaacttttctgtttttacacccctgtctcgcagccccggtgga
actttatcaaaaagtgGGATCAAATTTTATATCCAAATCCCaaataaaat
tatattgttcccgagcttaaaatatccagtggggatggttttggacagca
attttttgcattgaatttcgaattgggatgaaatcaaagtcaattacACA
GTGCGGCTGAAATTGTAAGTTATTttgtccaccggggacgaaattttagc
caaagTTTTCTGTGGGGATGGTGTCCCAgctggtctgtgacacaggggtg
tgttttttttccacccaatacgtcactttttctattgtggaaaatttgaa
aagttctcagaagactctcaagtggtgcatatcataattAAAAACATATG
GATTGAATTTTCGACTAAAATAACATTTGTATAAAATTTCGGGTAAAAGT
TTCGGTCGGGGATAAATAAATCGTTTAAATATTTCGACGAGAATAAATTT
CATCACCCtatcaaaattttcgtcacttttcccccaATAAGGTTGATAAA
ATAATAGAACGCAGCTGAATCTCATTTAAGTCACGTAGAAAGAAACCTGG
AACCAAAATTTGCATATTAGTGATTAAGAAACTAGTGTctcaattttttg
ttcattttttttagtCCAGAAAAATGTCCAATGGATTGGCAGACCATTCA
GGTAGggttaaaatataaaatatttctataaaAGCTACTTAGTGTATCAG
TGTTGCAACTAGGTTTTGTGAATATGGACGGAAACCTTAGGATTGGATGg
tcatttgaaccaaaaaccCTTTTACTGGCAAGACAGAAATGATATATTTG
TATCTCAACTAGACGGATATCCGTCTACAGACGGAAAAGTTGCCACACTG
GTGTATAtatcaatttaatttttcaaaaggcaAGAAACGAATATTCAACC
TTTCTTTGGCAAGCAAAAGTGATGCCTTGAACCtgacattttctttattt
tcacgtTTAACGTTTTGTGAATTCTGGCGGTAAATGTTACTTCCAATCTA
GCGTTTGTATGAAAATACGCGGACACCGATACTTATCATACATAAAAGAT
TCGACTACATACTTCGACTATACCTTATCGTATGTCTTTTTCAGGTTTTT
CCAGATATTGGTAAGAAGAGAGAGATTTTGAATTTACAAATTCGTTGTCA
AAATCACGAAGAAGGGTGCGTTTGGCAAAATGAGATCAGAGAACTAGAGG
TGAGGAATCCTGGATTTTTTgcctttcaaactttcaaaaaagtcgcCACA
AAAATGCCACAACATTATCTAAACGCcataaattttgtgaaattgaaaat
tctaaaaaatcgaatttttgttGCCGTGAGTGTTACACTGGAAACTATTG
TATTGTATAAAAGAGCTGTGAATGTTTCCAAGTACTTATTAAGTTTAGCA
GTTGAATTCCAagtatacgttttttataagaacatccaaaacttttgaag
ccttcggatgttcttaactttttgagttttaaacctaaaaaccTAACCTT
CTTATTCTCAgcattttgaaagtatttttatccattttcctaagaaatcg
ggtgttttagattttacgaagccttaaaatgttcttgtttttaatatttt
ggccttatgttcttatacagtttgttcttataaaagatgtgtACATTCCT
TCATCGACTGCCCTTTCcctttcattttctaaaaccATAAAAGTAATATT
CAGCGTTTAACCGGCCGATAGAGAAGTTGATTTTTCgtgataaaatcttt
tttcatatAGAACCATTTGAAGAATTGTGGATACCAGAAAGTACCTTGCG
AATTGAAATGTGGTGAAAATGTTTTGCAGAAAAATGTAAGTCTTTGATCT
AATTTTCTGTAGTATTATCCAACACAGTATTTATTGTGATTTCTTAGGCT
TCAAAAAACAGATTCTTTGACTTATTCCATGTTTTATATCTCACATCTCA
TATTAACAGAAATAAttcatttttcactttgaacggtgaaaaagaatgcg
gctattatatattttgatttttcccgacatgtttcggactcggtaattat
atttctataatttttttattaataattGAATGTTTACTTTAGATGCCAAA
ACATTTGGTCGTAGAATGTCGAATGATTTTACGTTGCGCGTTCAAAGACT
ATGGATGTACCTTTAAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_023873XLOC_023873Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00039523-exon-sc0002135-1491911889:17364..17700TCONS_00039523-exon-sc0002135-1491911889:17364..17700Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1510915933:17364..17700TCONS_00039523-exon-sc0002135-1510915933:17364..17700Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1575043694:17364..17700TCONS_00039523-exon-sc0002135-1575043694:17364..17700Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1491911889:19178..19214TCONS_00039523-exon-sc0002135-1491911889:19178..19214Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1510915933:19178..19214TCONS_00039523-exon-sc0002135-1510915933:19178..19214Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1575043694:19178..19214TCONS_00039523-exon-sc0002135-1575043694:19178..19214Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1491911889:19658..19762TCONS_00039523-exon-sc0002135-1491911889:19658..19762Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1510915933:19658..19762TCONS_00039523-exon-sc0002135-1510915933:19658..19762Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1575043694:19658..19762TCONS_00039523-exon-sc0002135-1575043694:19658..19762Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1491911889:20324..20398TCONS_00039523-exon-sc0002135-1491911889:20324..20398Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1510915933:20324..20398TCONS_00039523-exon-sc0002135-1510915933:20324..20398Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1575043694:20324..20398TCONS_00039523-exon-sc0002135-1575043694:20324..20398Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1491911889:20656..20730TCONS_00039523-exon-sc0002135-1491911889:20656..20730Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1510915933:20656..20730TCONS_00039523-exon-sc0002135-1510915933:20656..20730Clytia hemisphaericaexon
TCONS_00039523-exon-sc0002135-1575043694:20656..20730TCONS_00039523-exon-sc0002135-1575043694:20656..20730Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0002135supercontigsc0002135:17364..20730 +
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
0.237723	0.117339	0	0.298075	0	0	1.56206	1.75486	3.79166	1.40685	1.02813	1.457	36.6435	21.8151	2.75032	4.67972	1.09196	1.42533	47.2632	71.9111	2.64032	1.31824	0.608707	0.605105	13.5592	9.84393	0	0.316887	1.524	1.11177
Blast
[Close]
BLAST of TCONS_00039523 vs. Swiss-Prot (Human)
Match: TRAF4 (TNF receptor-associated factor 4 OS=Homo sapiens GN=TRAF4 PE=1 SV=1)

HSP 1 Score: 97.4413 bits (241), Expect = 1.979e-23
Identity = 50/139 (35.97%), Postives = 76/139 (54.68%), Query Frame = 3 
Query:  225 KDDITCAICHLILREPVQAVKCGHRFCTKCIGQFHQTNPEKCPMDWQTI---QVFPDIGKKREILNLQIRCQNHEEGCVWQNEIRELENHLKNCGYQKVPCELKCGENVLQKNMPKHLVVEC-RMILRCAFKDYGCTFK 629
            K  + C +C   +REPVQ   CGHRFC  C+ +F      KCP D   +   +++PD   + ++L L IRC + EEGC W   +R L+ HL  C +  +PC  +C   + ++++P HL  +C +  L+C F   GC F 
Sbjct:   13 KRRLLCPLCGKPMREPVQVSTCGHRFCDTCLQEFLSEGVFKCPEDQLPLDYAKIYPDPELEVQVLGLPIRCIHSEEGCRWSGPLRHLQGHLNTCSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEF--CGCDFS 149
The following BLAST results are available for this feature:
BLAST of TCONS_00039523 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
TRAF41.979e-2335.97TNF receptor-associated factor 4 OS=Homo sapiens G... [more]
back to top