BtaINT0132587 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010626 | SH3GLB2
Description
Bos taurus SH3-domain GRB2-like endophilin B2 (SH3GLB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076802]
Coordinates
chr11:99508075-99508819:-
Coord C1 exon
chr11:99508719-99508819
Coord A exon
chr11:99508316-99508718
Coord C2 exon
chr11:99508075-99508315
Length
403 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCA
5' ss Score
3.75
3' ss Seq
CCTACCACTCTCCTCTTCAGATT
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTGAACCACCTTCGCTGCCTGCACGAGTTCATCGAGTCTCAGACCACGTACTATGCCCAGTGCTACCGCCACATGCTGGACCTCCAGAAGCAGCTGGGCAG
Seq A exon
GTGCCAAACGAGGGACCCTGGCTCCCAGCTCCCCCGAACTCAGCAAGCCCCTGTTGACACCCAGGGTGGGGTGGAGGGCTGCTGACCGTGGTGGGGCGTCACCCCCACCTCTGGGCCTGGGCACCCCATGAAGAGGACAGTGAGGGGGATAGCTGGCCTCAGGGACCTTGGGTGCAGGTTCTGGGGTGGGTTGGGGGTGGGGTGGGGACGGCAGGGGCATCTCACTTCCACTTGTTTCCCTCTTCACGCTGCCAGCTCCCAGGGAGCCATGTAAGTAGCGAGGTGGTCTTGCCTCCATGGCCGTGGGCCTGACTGGTGTTTTGTGGGGCATGTGGGACCTCCCCCCAACAAGAGGGTGGCTCCCGGCTGCTGAGATGGGCCCCCCTACCACTCTCCTCTTCAG
Seq C2 exon
ATTCCCAGGCACCTTTGTGGGCACCGCCGAGCCCGCCTCCCCACCCCTCAGCAGTACCTCGCCCACCACCACCGCGGCCACGATGCCCATGGGGCCCTCCGTGGCCGACCTGGCCCCTCCGGGGGAGGCTGCTCTCCGCCTGGAGGAGGTGGCCCCACCTGCCAGCGGAACCCGGAAAGCCCGCGTTCTCTATGACTACGAGGCGGCCGACAGCAGCGAGCTGGCCCTGCTGGCCGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010626:ENSBTAT00000014049:9
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=0.509
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(12.0=100)
A:
NA
C2:
PF0311413=BAR=PD(0.1=0.0),PF146041=SH3_9=PU(35.3=22.2)
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:
GTGAACCACCTTCGCTGCC
R:
CGGCCGCCTCGTAGTCATAG
Band lengths:
310-713
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development