BtaINT0152132 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010497 | TRAF2
Description
TNF receptor-associated factor 2 [Source:HGNC Symbol;Acc:HGNC:12032]
Coordinates
chr11:106305453-106306095:-
Coord C1 exon
chr11:106305880-106306095
Coord A exon
chr11:106305532-106305879
Coord C2 exon
chr11:106305453-106305531
Length
348 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
AGGGCCGCTCCCCCCTCCAGCTC
3' ss Score
7.41
Exon sequences
Seq C1 exon
GGCGTGGGCTTGGTGGGCTGCGGCGCTCATGGCTGCAGCCAGCGTGACCCCTCCCGGCTCCCTGGACCTACTGCAGCCCGGCTTCTCCAAGACTCTCCTGGGGACCAAGCTAGAGGACAAGTACCTGTGCTCGGCCTGCAAGAACGTGCTGCGCAGACCCTTCCAGGCTCAGTGTGGCCATCGCTACTGCTCCTTCTGCCTGAGCAGCATCCTGAG
Seq A exon
GTGGGCCCGTGGTGGGGGCGAGGCGGTCGTCTCCTCGGGCCAGTCTTCCCGCTCCTCCGTGTCTTTAGTGGGAACCGCACAGTCTGACAGAGCCGCAGGCTCACAGCCCTTTTGCGCCGGGCGCCCGCGTCCCCGAGGGGCTGGGAGGCGGGGGCGGTGGCTGGTCCTCAGGACAGTGGTCCCCGGTCCCCGTGTCCGTCTGTGGGGTGCGCTGGCACACACTGCCCTGTGCCTGCTGGCCGCCCTACTTGGTGGCCGTGAAAGCGCCAAGGCCATGGGGTGGGTCTGGTGGCTGGCAGGGGCTGCTCGCCATCGGCAGCAGGCTCACAGGGCCGCTCCCCCCTCCAG
Seq C2 exon
CTCCGGGCCCCAGAGCTGCGCCGCCTGCGTGCACGAGGGCATTTACGAGGAGGGCGTCTCAATCCTGGAGAGCAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010497:ENSBTAT00000013869:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PU(74.4=40.3)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(23.1=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCAGCGTGACCCCTC
R:
AGCTGCTCTCCAGGATTGAGA
Band lengths:
258-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development