BtaINT0132405 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013857 | SH2D3A
Description
Bos taurus SH2 domain containing 3A (SH2D3A), mRNA. [Source:RefSeq mRNA;Acc:NM_001205669]
Coordinates
chr7:18958339-18958708:+
Coord C1 exon
chr7:18958339-18958513
Coord A exon
chr7:18958514-18958596
Coord C2 exon
chr7:18958597-18958708
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
GCTCACGTCTCTTCCTCCAGGTG
3' ss Score
10.82
Exon sequences
Seq C1 exon
GCTCGAGACGCTGGCGTTGGCGGGGGCGCTGGCAGTGCTGGGCTGCGCAGGGCCGCTGGAAGAACGCGCGGCCGCCCTGAGGGGCCTGGTGGAGCTGGCCGTGGCGCTGCGGCCAGGGGCGGTGGGGGACCTGCCCGGACTGGCCGCGGTGATGGGCGCCTTGCTCATGCCCCAG
Seq A exon
GTGCGTGGGAAGCAAGGGAGGAGGCCGGAGTGCAAGAGATGGGGAAGAGTGGAAGGAAGGAGGGCTCACGTCTCTTCCTCCAG
Seq C2 exon
GTGTCGCGTTTGGAACGCACGTGGCGCCACCTGCGAAGGAGCCACACGGAGGCTGCGCTGGCCTTTGAGCAGGAGCTGAAGCCGCTGATGCGATCGCTGAATGAGGGCGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013857:ENSBTAT00000018405:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(48.3=100)
A:
NA
C2:
PF0061714=RasGEF=FE(30.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGGGCCTGGTGGAG
R:
CTCCTGCTCAAAGGCCAGC
Band lengths:
174-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]