BtaINT0102837 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:104004561-104005326:-
Coord C1 exon
chr11:104005216-104005326
Coord A exon
chr11:104004754-104005215
Coord C2 exon
chr11:104004561-104004753
Length
462 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCTGCTGGGACGCCCGCAGGGA
3' ss Score
4.04
Exon sequences
Seq C1 exon
GACCCAACTGCGAGATCAACCTGGATGACTGCGCAAGCAACCCTTGCGACTCCGGCACGTGTCTGGACAAGATTGACGGCTACGAGTGTGCCTGTGAGCCAGGCTACACAG
Seq A exon
GTGAGCCGCCCAGGATTCGGGGGCCTGCAGGGCTCTGCTCTCCCGCCTGCGTCGGGGCCTTGACTTGCAGATCAGGGTCTCAGGACTATGGGGGCCCAGCTCTCGGGCCAGCAGCCTTGGCGGCTGTCGGCAGAGGCTCTGGAAGGGCCGGGGGCGGGGGGTGGGTCTGGCTGACGCTGGGATGGACATCCTTGAACCTGGCATGCTGGGTGAGAAGCAGCCCGGCAGGCTCACAGTGGAGCCAGGCTCCCGGTGCACATGCTGCCCTCTGCCCCGAGCGTGTCCAGCGTGGGCCCTGGGTCCCGGGAGCAGAGCTTGTATCGGTGAGAGTCTGAACCTCGGGAGGGCCTGGGATGGAGCGGGGGGAGGGGGGTGCTCACGGAGAGGGAGACTGAGGCTCCGAGGGCGGGGAGCCCGACCCCTCTCCTGCTCCTGGTGTCTGAGCTGCTGGGACGCCCGCAG
Seq C2 exon
GGAGTATGTGTAACATCAACATTGACGAGTGTGCGGACAGCCCTTGCCACAACGGGGGCACCTGCGAGGATGGCATCAACGGCTTCACCTGTCGCTGCCCCGAGGGCTACCACGACCCCACCTGCCTGTCTGAGGTCAACGAGTGCAGCAGCAACCCCTGCATCCATGGGGCCTGCCGCGACAGCCTCAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:12
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=5.3),PF0000822=EGF=PU(93.1=71.1)
A:
NA
C2:
PF0000822=EGF=PD(3.4=1.5),PF0000822=EGF=WD(100=58.5),PF0000822=EGF=PU(53.3=24.6)
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:
GACCCAACTGCGAGATCAACC
R:
CAGGCCCCATGGATGCAG
Band lengths:
286-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development