BtaINT0102848 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103996041-103996577:-
Coord C1 exon
chr11:103996445-103996577
Coord A exon
chr11:103996299-103996444
Coord C2 exon
chr11:103996041-103996298
Length
146 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGC
5' ss Score
7.26
3' ss Seq
TGATGGTGCCCGGCTTGCAGGCG
3' ss Score
6
Exon sequences
Seq C1 exon
TGTGTGGCCGGCTACCACGGGGTGAACTGCTCCGAGGAGGTGAACGAGTGCCTGTCCCAGCCCTGCCGGAACGGAGGCACCTGCATCGACCTCACCAACACCTACAAGTGTTCCTGCCCCCGCGGCACACAGG
Seq A exon
GTAGGCTTGGCCACACCTGGGGAGGGCGTCGGGGGCTGGTCGCCAGCGTCCACCTCCTGGACGTCTGACCCCCGGCCGGGGCACACCTGTGGGAGGCATGGGGCTCGAGAGCGGCCACGTGGGGTCTGATGGTGCCCGGCTTGCAG
Seq C2 exon
GCGTGCACTGCGAGATCAACGTGGACGACTGCAACCCCCCCATCGACCCCGTGTCCCGGGGCCCCAAGTGCTTCAACAACGGCACCTGCGTGGACCAGGTGGGCGGCTACAGCTGCAGCTGCCCGCCCGGCTTCGTGGGTGAGCGCTGCGAGGGGGATGTCAACGAGTGCCTGTCCAACCCCTGCGACGCCCGTGGCACCCAGAACTGCGTGCAGCACGTCAACGCCTTCCACTGCGAGTGCCGCGCCGGCCACACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:22
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:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(90.3=62.2)
A:
NA
C2:
PF0000822=EGF=PD(6.5=2.3),PF0000822=EGF=WD(100=44.8),PF0000822=EGF=PU(90.9=34.5)
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:
CACCTACAAGTGTTCCTGCCC
R:
TGCTGCACGCAGTTCTGG
Band lengths:
252-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development