BtaINT0102942 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025424 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr23:26991199-26991809:+
Coord C1 exon
chr23:26991199-26991451
Coord A exon
chr23:26991452-26991696
Coord C2 exon
chr23:26991697-26991809
Length
245 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTTATCCCACCCCTCCGCAGGCC
3' ss Score
11.06
Exon sequences
Seq C1 exon
TGTGCACCCGGCTACAGTGGACAGAACTGCTCAGAGGAACCGGACGCATGTCAATCCCAGCCCTGTCACAACCAGGGGACCTGTATCTCCAAACCCGGAGGCTTCCACTGTGCCTGCCCGCCAGGCTTTGTGGGGCTGCGCTGTGAGGGGGACGTGGATGAGTGTCTGGACCGGCCCTGTCACCCCACAGGCACTGCAGCCTGCCACTCTCTGGCCAATGCCTTCTACTGCCAGTGTCTGCCTGGACACACAG
Seq A exon
GTGAGGCCTGAGATAGGGGCGTACGCATCTCTAGCCATAGCTGAACTGACCATGGAAGCCCAGACAAGCCCCACCCACAAGGTAGCCTAATCATCTGGCCCATTCCCTTGCCTCAGACCCCAGCCTAGAGAACATGCACCACCATCCCTGCACCTGTGCAGCTAGTGATGGGCTGACTCCCAGGAATGAGCTGGGAAGGAGGCAGCAACTGAAGGAGTGTCATGTTTTATCCCACCCCTCCGCAG
Seq C2 exon
GCCAGTGGTGTGAAGTGGAGCTAGACCCCTGCCAGAGCCAGCCCTGTGCCCACAGCGGGTCATGTGAGGCCACAGCAGGGCCACCCCCAGGATTCACCTGCCACTGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025424:ENSBTAT00000050083:19
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(24.2=9.4),PF0000822=EGF=WD(100=36.5)
A:
NA
C2:
PF0000822=EGF=PU(79.4=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTCAATCCCAGCCCTGTC
R:
AGGTGAATCCTGGGGGTGG
Band lengths:
306-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]