BtaINT0152138 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010497 | TRAF2
Description
TNF receptor-associated factor 2 [Source:HGNC Symbol;Acc:HGNC:12032]
Coordinates
chr11:106297673-106298598:-
Coord C1 exon
chr11:106298272-106298598
Coord A exon
chr11:106297851-106298271
Coord C2 exon
chr11:106297673-106297850
Length
421 bp
Sequences
Splice sites
5' ss Seq
AAGGTCCGT
5' ss Score
6.16
3' ss Seq
CTCACAGCCCTGCACCCCAGGTG
3' ss Score
4.99
Exon sequences
Seq C1 exon
GTGGAGAGCGAGCAGCAGCCGGAGCACGAGGCGCAGCGGCTCCAGGAGCACCTGGCCCTGCTGCTGGGCGTCCTGCTGGAGGCTGGGCGGCCCCCGGGGGACAGCCGCCTGCTCCTCAGGCCAGGCGAGGGCGCCTTGGAGGCCGGCACACCCTCCAGGGTGGCGGAGCTGCTGCAGAGGTGCGAGGCCCTGGAGCGGAAGACAGCCACCTTCGAGAACATCGTCTGTGTGCTGAACCGGGAGGTGGAGCGGGTGGCCGTGACGGCTGAGGCCTGCGGCCGGCAGCACCGGCTGGACCAAGACAGGATCGAGGCCCTGAGCAACAAG
Seq A exon
GTCCGTGCTGAGGGCAGGGCGTGTGCCCACAGTGCCCAGGCCTCCTCAGACAGGGGCCAGGGGCCGCGGGGTGTCCGAGCCAGGGATGGAGGGTGGCGCTTGGGTGTCCGGCAGGCTCCCTGCTCCACCAGGGCCTGAGCAGAGCTCCTCTGAGCCCCTCCTCCGACGGGGGCAGAGGTGGCCACGGGGGGTGTGCTTGCTGCTTGTGTGGACCCACGCGCGTTTCCTCCTGGGGTGGGGGTCTCAGGGGCATGGAGCCCACCTGCGAGCAGCTGAGCCAGGAAGGCTAAGGCGCTGGGCGAGGGGCATCCTCCTGGAGATGGGGACAGGCACGGAGGTCTGTCACAAGCTCGTGTGTGCTGGACGCAAGTTGGTCTCTGAAGGCCTGGTGGAGGCCCGTCCTCACAGCCCTGCACCCCAG
Seq C2 exon
GTGCAGCAGCTGGAGAGGAGCATCGGCCTGAAGGACCTGGCCATGGCCGACCTGGAGCAGAAGGTCCTCGAGATGGAGGCGTCCACCTTTGACGGCGTGTTCATCTGGAAGATCTCGGACTTCTCCAGGAAGCGCCAGGAAGCCGTGGCCGGCCGCACGCCCGCCATCTTCTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010497:ENSBTAT00000013869:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PD(13.8=7.3)
A:
NA
C2:
PF0091721=MATH=PU(15.6=36.7)
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:
CTCCTCAGGCCAGGCGAG
R:
GGAGAAGTCCGAGATCTTCCAGA
Band lengths:
342-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development