BtaINT0152139 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010497 | TRAF2
Description
TNF receptor-associated factor 2 [Source:HGNC Symbol;Acc:HGNC:12032]
Coordinates
chr11:106297140-106297850:-
Coord C1 exon
chr11:106297673-106297850
Coord A exon
chr11:106297289-106297672
Coord C2 exon
chr11:106297140-106297288
Length
384 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTC
5' ss Score
3.6
3' ss Seq
TCACGCCTGCCGCCCCGCAGCCT
3' ss Score
8.15
Exon sequences
Seq C1 exon
GTGCAGCAGCTGGAGAGGAGCATCGGCCTGAAGGACCTGGCCATGGCCGACCTGGAGCAGAAGGTCCTCGAGATGGAGGCGTCCACCTTTGACGGCGTGTTCATCTGGAAGATCTCGGACTTCTCCAGGAAGCGCCAGGAAGCCGTGGCCGGCCGCACGCCCGCCATCTTCTCCCCAG
Seq A exon
GTGCTCTTGGGGGCTTTCCCGCCCCTGCCCCGGGCTGAGGTCTGCCGCAGGCCTGCTCCCTGCTCCTCACCCCCCTCACTCTAACACGGCCGCCCCTGCTGCGTCCAGTGCTCAGCCCTCCGCTCCTCGTTGGACGGGAGGCTCGTCCAGACCGGGGGTGGCTGGCCTTGGCCCTCTGCCCAGAGCCCTGCGAGCTGCGCGTTGACCCAGCCTGAGCCTCCTGGCCGGCGGCAGAGCCAACATGGGCTCACGTTCAGGCCCCGTTTCTCAACGCTCTGTGTTTGTCTGTGTCGGTGGCTGACCCCTCCTCGAGCCCGGGCTGAGTGGCAGGCGCTGTGGGGGGAGCCGCACGGCCGGCCTGAGCTCACGCCTGCCGCCCCGCAG
Seq C2 exon
CCTTCTACACCAGCAGGTACGGCTACAAGATGTGCCTGCGCGCCTACCTCAACGGGGACGGCACGGGGCGCGGCACGCACCTGTCCCTCTTCTTCGTGCTAATGCGTGGCCCGCACGACGCCCTCCTGCGCTGGCCCTTCAACCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010497:ENSBTAT00000013869:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0091721=MATH=PU(15.6=36.7)
A:
NA
C2:
PF0091721=MATH=FE(34.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGCTGGAGAGGAGCATC
R:
CTGGTTGAAGGGCCAGCG
Band lengths:
320-704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development