BtaINT0102939 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025424 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr23:26985538-26986126:+
Coord C1 exon
chr23:26985538-26985625
Coord A exon
chr23:26985626-26985972
Coord C2 exon
chr23:26985973-26986126
Length
347 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CACTCCCTCCTAACCTTCAGACG
3' ss Score
6.75
Exon sequences
Seq C1 exon
CCCCTGTAGGAACATGGCAACCTGCCAAGACAGCCCTCAGGGTCCCCGCTGCCTCTGTCCCCCTGGCTACACAGGAGGCAGCTGTCAG
Seq A exon
GTGAGGGGCCGGGAGCCAGGTGTGCAGAGAAAGGAGGGGGCGGGAAAGCTCCAGTTAGAGGGCCTAGGGCATTGACAGGGGGCAGCACGGAAGCTTGGGAGAGGTGAAAGGAGGTTTGGGAGTCTAGGAGTTGAGCTTGATGTCTGTATGGCTCGCTGAAAGGATTTTTGATCCCAGCAACTCTTCTGGGATGCACATATCCAAGGAAATCAGGGAGGGTGACCTGGTCCCAGACCATTCAGGAGAGAGTTTTGGGGGGAAGGGATTTTGAGGAGCTGGCAGAGGACCATCTCTGGGCCTGGGAACCTGATGCTCCTTCCCGCCTCACACTCCCTCCTAACCTTCAG
Seq C2 exon
ACGCTGATGGACTTATGCGCCCAGAAGCCCTGCCCACAAAATTCCCACTGCCTCCAGACTGGGCCCTCCTTCCAGTGCCTGTGCCTCCAGGGATGGACTGGGCCTCTCTGCAACCTGCCGCTGTCCTCCTGCCAGAAGGTTGCTCTGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025424:ENSBTAT00000050083:16
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(87.1=90.0)
A:
NA
C2:
PF0000822=EGF=WD(100=59.6)
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:
CCCCTGTAGGAACATGGCAAC
R:
GCTCAGAGCAACCTTCTGGC
Band lengths:
238-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]