BtaINT0141768 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48897253-48897607:-
Coord C1 exon
chr22:48897514-48897607
Coord A exon
chr22:48897412-48897513
Coord C2 exon
chr22:48897253-48897411
Length
102 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
TTTATCCATGGTTCTCACAGGCT
3' ss Score
7.21
Exon sequences
Seq C1 exon
GTGTCTCTGTCTGGATGGCTTTGAGGGTGACGGCTTCTCCTGCACACCCAGCGACCCCTGCTCCCGCCCAGACCGCGGCGGGTGCTCGGAGAAC
Seq A exon
GTGAGCCTGGCCCCTGCCCTGAAGGCCTGACCCATGGGCTAGAGGCGGGACTCCCTCGTCCCCAGCCTGCCACCCTGAGTCCTTTATCCATGGTTCTCACAG
Seq C2 exon
GCTGAGTGTGTCCCTGGGGTCCGGGGCGCCCACCACTGCATGTGCCACAAAGGCTGGAGTGGGGACGGTCGTGTCTGCGTGGCTGTTGACGAGTGTGAGTTGGACTTGCGAGGCGGCTGCCATGCTGATGCCCTCTGCAGCTATGTGGGACCCGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:24
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(40.0=43.8),PF0000822=EGF=PU(31.4=34.4)
A:
NA
C2:
PF0000822=EGF=PD(62.9=41.5),PF129472=EGF_3=PU(52.8=35.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCTCTGTCTGGATGGCTT
R:
TCCCACATAGCTGCAGAGGG
Band lengths:
244-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]