BtaINT0102922 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8937781-8938341:+
Coord C1 exon
chr7:8937781-8937923
Coord A exon
chr7:8937924-8938002
Coord C2 exon
chr7:8938003-8938341
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CCATTTCTGGTTCCCGGCAGGCC
3' ss Score
9.43
Exon sequences
Seq C1 exon
GTGCCCACCAGGCTGGGTGGGTGAACGGTGTCAGCTGGAAGACCCCTGCCATTCTGGCCCCTGTGCTGGCCGTGGTGTCTGCCAGAGCTCGGTGGTGGCAGGGACTGCCCGGTTTACCTGCCGCTGTCCCCGGGGCTTCCGAG
Seq A exon
GTAAAGGAGGGTCTGGAAGGGAGCTGAAGGCAGGCAAGGGTGTGGTCGGCCTGGGCTCACCATTTCTGGTTCCCGGCAG
Seq C2 exon
GCCCCGACTGCTCCCTGCCAGACCCCTGCCTCAGCAGCCCCTGTGCCCATGGTGCCCGCTGCTCAGTGGGCTCCGATGGCCGCTACCTGTGCTCCTGCCCACCCGGCTACCAGGGCCGCAGCTGCCGGAGTGATGTAGATGAGTGCCGGATGGGCGGGCCCTGCCGCCATGGTGGCACCTGCCTCAACACGCCTGGCTCTTTCCGCTGCCAGTGCCCAGGTGGCTACACTGGGCCACTGTGTGAGAGCCCCGCGGTGCCCTGTGCTCCCTCCCCGTGCCGTAATGGGGGCACCTGCAGACAGAGTGGCGACCTCACCTATGACTGTGCCTGCCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:3
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(27.3=18.4),PF0000822=EGF=PU(91.4=65.3)
A:
NA
C2:
PF0000822=EGF=PD(5.7=1.8),PF0000822=EGF=WD(100=28.1),PF0764510=EGF_CA=WD(100=38.6),PF0000822=EGF=PU(81.2=22.8)
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:
GTTTACCTGCCGCTGTCCC
R:
ATCTACATCACTCCGGCAGCT
Band lengths:
172-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]