DreALTD0021064-3/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000069482 | traf1
Description
TNF receptor-associated factor 1 [Source:ZFIN;Acc:ZDB-GENE-071120-4]
Coordinates
chr8:12394067-12394970:-
Coord C1 exon
chr8:12394870-12394970
Coord A exon
chr8:12394392-12394869
Coord C2 exon
chr8:12394067-12394151
Length
478 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TAATAATGCTTTTATTTCAGAAA
3' ss Score
6.61
Exon sequences
Seq C1 exon
TGAACACTTCAGAGTGTAGGCGGAGTCGAGCAATAGTGAGCACTGCACTTCTCGTTTTGTTTTTCTAGTATGCTCTCTAGATTTCAAGACACAGCCACACT
Seq A exon
GTGTGTAAGCGCGTTTCTTCTACTTTCACTTATAACTCCACAAACTATCTTTCTATTTTTATTATTTTAAGCTTTTTTCAAAATATTATCAGCAAGATTAGACACAGCGTGGTTGATAAACACGCGGAAAAAGCGCAGTTTCCGGGTGTTTAAGGGGGAAACCCGTGGTGTTTTTCGACCGTGGGTATATCACCAAAAAGTCAAAAGCATATCAACATGTCATCATAACGTGCTGCTGGTACAGACTCTTCATCTTAACCCCTATAATGGCTTCTGGTTCAGCTTCAGACCCGTCGTTAAACGGTGTTTCGTCCACACCGGATGAGAACGAGTATCCGTCAGGTTTCCCTCAGAGCATCTGCGATGAGGTGCCGAAAGATAAATACTTGTGTAGCAACTGCAATAATGTTTTGAATAAAGCGCGTCAAACGGTGTGCGGTCACCGATACTGCCTCGCCTGCGTCAACTGGCTGGTCAG
Seq C2 exon
AAACAACAAGGACCTAGTGTGCACAAAATGTAAAGGAGAGGATTCCAATGTTGAGAGTGACACTAGCGTACTGACTCCTAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069482-0-0,1-0,2-0-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF152271=zf-C3HC4_4=PD(25.0=34.5)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTCAGAGTGTAGGCGGAG
R:
TTGGTTAGGAGTCAGTACGCT
Band lengths:
182-660
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]