BtaINT0102852 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103993283-103993740:-
Coord C1 exon
chr11:103993620-103993740
Coord A exon
chr11:103993432-103993619
Coord C2 exon
chr11:103993283-103993431
Length
188 bp
Sequences
Splice sites
5' ss Seq
CCTGTCCAG
5' ss Score
-20.42
3' ss Seq
GGGCTCTCCCCCTACCTCAGGTC
3' ss Score
7.09
Exon sequences
Seq C1 exon
AGGAGCCCCACTGCCGGCAGGGGAGCGCTCCGAGGAGTGTCGGTGTGAGCACCACGCATGCCCTGCTGGTGCTGGACAAGGCGAGCCCTCAGGGCCACTGTGCACCTCCAGGCTTGTTCCT
Seq A exon
GTCCAGACCCAGCTCTCCGCCTGCACAGGCTGCCCCCCTGGGGTTCTGGGAGCACCCTCTCTCCCCGCCCATCCATCAGGGTGACTCCACAGGAGCCAGAGCCTGTCCCTGGGGGCAGGCTGGCCGGGTGGGTGCCAGGAGGGGGCTGGCACCCAAGCCCCCTGACCTGGGCTCTCCCCCTACCTCAG
Seq C2 exon
GTCCATCGTCTACCTGGAGATCGACAACCGGCAGTGCGTCCAGTCATCCTCCCAGTGCTTCCAGAGCGCCACGGACGTGGCCGCCTTCTTGGGCGCGCTGGCCTCGCTGGGCAGCCTTAACATCCCCTACAAGATCGAGGCTGTGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF068168=NOD=PD(0.1=0.0),PF076847=NODP=PU(0.1=0.0)
A:
NA
C2:
PF076847=NODP=PU(83.3=98.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGAGTGTCGGTGTGAGCA
R:
GCACAGCCTCGATCTTGTAGG
Band lengths:
236-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development