BtaINT0102874 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007909 | NOTCH2
Description
notch 2 [Source:HGNC Symbol;Acc:HGNC:7882]
Coordinates
chr3:23452162-23452859:+
Coord C1 exon
chr3:23452162-23452281
Coord A exon
chr3:23452282-23452706
Coord C2 exon
chr3:23452707-23452859
Length
425 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CATTGCCCCTTTGTTTCCAGGTC
3' ss Score
10.87
Exon sequences
Seq C1 exon
GCAAGAACTGTCAGACCGTATTGGCTCCCTGTTCCCCAAACCCTTGTGAGAATGCTGGTGTTTGCAAAGAGGCACCAAATTTTGAGAGTTACTCCTGCCTGTGTGCTCCTGGCTGGCAAG
Seq A exon
GTAACAGAGTCAGAATGTAGAAACTAAGAGCGTTTAACAGAGTGATCTGGTTATTTGATGACATGGAGGATCTATCTTTTGAGGCTTGCCCTTTTTTATCAAGAACACAGGCCTTGTGTAAAAGCTGAAGCTGCTAACTGGAATGTTTTAGAAAGACTTTCCATTTTACGTGTCTTTGCCGCCCCCTGGTGGCTAGAAGACTCCAACCAGAGTCTGAAACTATGATGTTCTATGTAGAATTTTAGCATCTGGGCGGCAGCTTGTTGGGGGCACAGAAACCTGAAGGGACTTCCCAAAGCAGGAGACCAAACAGAATATATTTGCAGTAGCCCCACCAACCCCAGCTAAAGCTCAGCCCCCACATAAATTTCTGTGTGGGAATCGATTTCCAAAGACTGGACCGTTCATTGCCCCTTTGTTTCCAG
Seq C2 exon
GTCAGCGGTGTACCATCGACATTGATGAGTGTGTCTCCAAGCCCTGCATGAACCACGGTCTCTGCCATAACACCCAGGGCAGCTACATGTGTGAATGTCCTCCAGGCTTCAGTGGCATGGACTGTGAGGAGGACATTGATGACTGCCTTGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007909:ENSBTAT00000010400:16
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(6.5=4.9),PF0000822=EGF=PU(90.9=73.2)
A:
NA
C2:
PF0000822=EGF=PD(6.1=3.8),PF0000822=EGF=WD(100=57.7),PF0000822=EGF=PU(9.7=5.8)
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:
AGAACTGTCAGACCGTATTGGC
R:
TGGCAAGGCAGTCATCAATGT
Band lengths:
270-695
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]