BtaINT0141808 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48885944-48886301:-
Coord C1 exon
chr22:48886157-48886301
Coord A exon
chr22:48886078-48886156
Coord C2 exon
chr22:48885944-48886077
Length
79 bp
Sequences
Splice sites
5' ss Seq
AGGGTGTGC
5' ss Score
3.55
3' ss Seq
TGCACCCCTCCCCTCTGCAGAGA
3' ss Score
10.22
Exon sequences
Seq C1 exon
AACACACGGCGCTGTGTGTGCCACGCCGGCTACGTGGGTGATGGACTGCAGTGTCTGCTGGAACCTGAGCCGCCCGTGGACCGCTGCCTGGACCGGCCGCCTCCCTGTCACGCAGACGCCGTGTGCACTGACCTTCACTTCCAGG
Seq A exon
GTGTGCTTCCCCGCCCCCTCCCCGCACCCTCACTTTACCGGGTGATGGCCCACTGACCATGCACCCCTCCCCTCTGCAG
Seq C2 exon
AGAAGCGAGCTGGTGTCTTTCACCTCCAGGCCCCCAGTGGCCCTTATGGCCTGAACTTCTCAGAGGCCGAGGCGGCTTGTGGGGCCCAGGGAGCTGTTCTTGCCTCTCTCCTTCAGCTCTCTGCTGCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:60
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:
PF129472=EGF_3=PD(44.7=34.7)
A:
NA
C2:
PF0019312=Xlink=PU(43.6=91.1)
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:
GGTGATGGACTGCAGTGTCTG
R:
CCTCGGCCTCTGAGAAGTTCA
Band lengths:
181-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]