BtaINT0141761 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48899393-48900024:-
Coord C1 exon
chr22:48899866-48900024
Coord A exon
chr22:48899456-48899865
Coord C2 exon
chr22:48899393-48899455
Length
410 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CCTCCCCCGGCCCTGCCCAGGGC
3' ss Score
6.64
Exon sequences
Seq C1 exon
GGGCGCATCCTGCTGGGACCTGAGGGGGTCCCCCTGCGGAGAGTAGATGTGCTGGCTGCCAACGGCGTGATCCACATGCTGGAGGGCGTCCTGCTGCCCCCGACCATCCTGCCCATCCTGCCCAAGCTCTGCAACGAGGAGCAGCACGCGGTCGTGGCG
Seq A exon
GTGAGTGCCGCTCGTGTGGGGGCCATCTTCCGGGGAGAAGAGGCGCCTCTGTCTAGTCCTCTAGAGAGTGGGTGGCTCTGGGGCTCGGACGTAGGCCCCACAGTTTGGCTTGGATGTCCCCCACCCAGCTCTCAGCAGTCCTCCTGACAGGCCCTTGGCCATCACTCATGCCTTTCCACCCTGTTCCCAGCCTCCCCGCCCAGGCCTCGGCTGCTGTCACACGAGCTCTCTCACCACGAGGCCTTCACCCTCTTCCCTCTGCCTGGAACGCCCCCTCCCCGCCTCCCCGGCCCCCTCCTGTGGTGACTCTTCTCCTATCTCAGGTCTTGGCTCAGTGCCACCATCTTAGGGTTTGCTAAATAAATAAACCATGACTAAGCCTTCTCCTCTCCTCCCCCGGCCCTGCCCAG
Seq C2 exon
GGCTCCTGTGTGGACTGCCAAGCCCTGAACACCAGCACGTGCCCCCCCAACAGCGTGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:18
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:
PF0246917=Fasciclin=PD(25.2=60.4)
A:
NA
C2:
NO
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:
CTGCTGGGACCTGAGGGG
R:
GCTTCACGCTGTTGGGGG
Band lengths:
211-621
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]