BtaINT0102855 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:104010796-104011963:-
Coord C1 exon
chr11:104011701-104011963
Coord A exon
chr11:104011135-104011700
Coord C2 exon
chr11:104010796-104011134
Length
566 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCACCCCCTGCCCCCCCAGGGA
3' ss Score
10.55
Exon sequences
Seq C1 exon
CTGCGGCGGGGCCTTCGCGGGCCAGCAATGCCAGGCCCCCAACCCCTGCCTCAGCGCCCCCTGCAAGAACGGCGGGACGTGCCACACGACGGAGCGAGAAGGCCTGGTGGACTATGTCTGCGGCTGCCGCCTGGGCTTCTCGGGGCCACTGTGCCTGACGCCCCGCGACCACGCTTGCCTCGCCAGCCCCTGCCTCAACGGTGGCACCTGTGATCTGCTCACGCTCACTGAGTACAAGTGCCTGTGCACCCCGGGCTGGTCAG
Seq A exon
GTGAGGACCCCGGAGGGGCGGGGATGGGCTGGCCTTCCCCCAGCCGCCCACACAGCCGATGCCGGGCCCCCGTCCGCGTGCCGTGGACGGTCCTGGACTGGGCTCGGCTGTGGGGGTCAGCGATCCAGAAATTGCCCAGAGTCCCCACTCTGGGGTCCCCATGCCGCTTTCCAGCCTTGGAGGTGTCAGTTTCCGGCTCGAGGGCACCCCCCGGCCTCATGCCGCAGCCTCTGTAAGAAAAGGGGAGACTCCCCGCAATCCCTGCAGGAGCCGTGGTGTTACCGCCGGCTCAGGAGGGACGCAGTCTGGGTCAGCTCCCCAGGGGCCCTGGCCTACTGTGCGTCCCACAGTGGTCACTTAGCCCCTGAGCGGTTGGGGTCCCCGGGCGGTGAGGAGCTCATGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCCCCAGCTCACAGGAACCAGGGAGGCCGGCTAACCACCCCCCCACCCCCTGCCCCCCCAG
Seq C2 exon
GGAAGACGTGCCAGCAGGCCGACCCCTGCGCCTCCAACCCCTGTGCCAACGGTGGCCAGTGCCTGCCCTTTGAGGCGTCGTATATCTGCCACTGCCCGCCCGGCTTCCACGGCCCCACGTGCAGGCAGGACGTCAACGAGTGCAGCCAGAGCCCCGGGCTCTGCCACCACGGCGGCACCTGCCTCAACGAGGTCGGCTCCTACCGCTGCGTCTGCCGCCCCACCCACACCGGCCCCCACTGCGAGCTGCCCTACGTGCCCTGCAGTCCCTCCCCCTGCCAGAACGGGGGCACCTGCCGCCCCACGGGGGACACCACCCACGAGTGCGCCTGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:3
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=WD(100=42.7),PF0000822=EGF=PU(90.6=32.6)
A:
NA
C2:
PF0000822=EGF=PD(6.2=1.8),PF0000822=EGF=WD(100=27.2),PF0764510=EGF_CA=WD(100=34.2),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:
GACTATGTCTGCGGCTGCC
R:
TAGGAGCCGACCTCGTTGAG
Band lengths:
356-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development