BtaINT0102858 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103989782-103991259:-
Coord C1 exon
chr11:103990964-103991259
Coord A exon
chr11:103989930-103990963
Coord C2 exon
chr11:103989782-103989929
Length
1034 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
AGACTTTCCCTGTGGTCCAGATC
3' ss Score
5.09
Exon sequences
Seq C1 exon
ACGGCTTCACGCCCCTCATGATCGCCTCCTGCAGCGGAGGGGGCCTAGAGACTGGCAACAGCGAGGAGGAGGAGGACGCGCCCGCGGTCATCTCGGACTTCATCTACCAGGGCGCCAGCCTGCACAACCAGACGGACCGCACCGGCGAGACCGCCCTGCACCTGGCCGCCCGCTACTCGCGCTCCGACGCGGCCAAGCGCCTGCTGGAGGCCAGCGCGGACGCCAACATACAGGACAACATGGGGCGCACCCCGCTGCACGCGGCCGTGTCTGCCGACGCACAGGGCGTTTTCCAG
Seq A exon
GTGGGCAGCCATCACGCGCCCTTCTGCGTGCCCTCGCCTGCCTTCCCTCCTTCCTGGTCTGGGCCCAGAGCCCTGATTCCAAGCCCGGCCAGAGCAGGGACAGCTGGGGTTCCCCCCGCACCCCAAACCTTTGTACCCTGGAGGGGGCGTGAGGCCAGGGAGGGTGTCAAATCCTCTGTGGCATCCCCTCGGGGCAGCCAGGCTGGTGGTGCTAAAGCAGGAGAGGCCACAGGGACCTACAGGGGCAGGACCTCCTCACTGTCACCCAAGACAGGCCCATCCCCTGCGCCTGCCCCTCCCGGCCCCCAAGCCCTCCCCGCTTTGGCTGCAGGCATCGATCGCTTCTGGCGATGGGGAGAAGGGCTAGAGGCTGCTGATTGCTGCCTGCAAGCAGCAGTGGGGGGGCGGCTCTGGCCTTGCTGGGCTTCCAGGATGAGGATGGATTAGGGACGTGGGTGCCTGGGTCTCTGGGGAGCATCCCTGGCAGAAGCAGCTTTTGAAAGCTGCCAGCCGGTCCCCTGGCCACAAACCCCCAGGCCCCGGGCCATGCTGCTCTGCACAGACGGGCAGGTAAATGGGGCACAAATGGGGGGTGTCACAAAAGTCTAATGATTTCCGACATGTTGTCTTTTATGGAAATGAGAGATTGGGGACAATTAAACGAGCCCCTGGAGGCAGGCCCTGGCCGAGTTTGCCCAGGCGGTCTCTGTGGCACGTAGAGACATTCCCTTGGGCGCTTCTCGGGGTGATGCCGGTCCGCACACAGCTCCTCCCCAGCTCCTTTCGTCCCCCCCTCCCGCCTGCGAACAATGACCATCCTTCTCTCTCATGCTCCAGCCCCACCCCTCCGGCAGAGCCTGGTGGAGTTCTGCCCACTCCCCAGGCTCCCATGCCACGTGTGTCCGGGCTCCCTGGGGCCACCCGACCCCAGGAGGGCTGCATTCGAATCGGGTTGAGTCCCAAGCACGTGTCCCGGAGCGGGCGGGGGCCTCACGCTCACACTTGCTGAGCCCGAGACTTTCCCTGTGGTCCAG
Seq C2 exon
ATCCTGATCCGGAACCGAGCCACCGACCTGGATGCCCGCATGCACGACGGCACGACCCCGCTGATCCTCGCTGCCCGCCTGGCCGTGGAGGGCATGCTGGAGGACCTCATCAACTCTCACGCCGACGTCAACGCTGTGGATGACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.434 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(84.7=83.8)
A:
NA
C2:
PF127962=Ank_2=PD(13.3=26.0),PF127962=Ank_2=PU(30.4=56.0)
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:
TCGGACTTCATCTACCAGGGC
R:
CAGGTCATCCACAGCGTTGAC
Band lengths:
351-1385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development