BtaINT0102923 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8963106-8963823:+
Coord C1 exon
chr7:8963106-8963410
Coord A exon
chr7:8963411-8963675
Coord C2 exon
chr7:8963676-8963823
Length
265 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGCATCCCCATCTCCCTTAGATT
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATGGCTTCACCCCTCTAATGCTGGCCTCCTTCTGCGGGGGAGCCCTGGAGCCAATCCCAACTGAGGAGGACGAGGCAGAAGACACATCAGCCAGCATCATCTCAGACCTGATCTGCCAAGGGGCACAGCTTGGGGCTCGGACTGACCGCACTGGTGAGACGGCCCTGCACCTGGCTGCCCGCTATGCCCGGGCTGACGCGGCCAAGCGGCTGCTGGACGCTGGGGCAGACACCAATGCCCAGGACCACTCTGGCCGCACCCCCCTGCACACAGCTGTCACTGCCGATGCCCAGGGTGTCTTCCAG
Seq A exon
GTGAGATCGGCTTGCCTCTTGGGACTTCAGAGCTGGGACACACATCAGACAGACTTGGGTTTGAGCCCAGGTTTTGCCTGTCAGAGCTCATCTTTCTCATTTGTGAAATGGGGATATATGAGTGTAGAGTTACTGTCAAGTAGCTGCTCCCTGAACCCATTGGTTCCATGGGAGGCATTGGTTGGGGTCCTCAGAGGGCTTGGGAGTGCTTCTTCTTCCCTTGTTCTTGCCATGACTCCCCCTGCTGCATCCCCATCTCCCTTAG
Seq C2 exon
ATTCTTATCCGGAACCGCTCTACAGACCTGGATGCTCGCATGGCAGACGGCTCCACGGCACTGATCCTGGCAGCCCGCCTGGCGGTGGAGGGCATGGTGGAAGAGCTCATCGCCAGCCATGCTGATGTCAATGCTGTGGATGAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.353 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(83.7=75.5)
A:
NA
C2:
PF127962=Ank_2=PD(14.1=26.0),PF127962=Ank_2=PU(31.2=58.0)
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:
ATCCCAACTGAGGAGGACGAG
R:
ATGCGAGCATCCAGGTCTGTA
Band lengths:
293-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]