BtaINT0102841 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:104000046-104001055:-
Coord C1 exon
chr11:104000936-104001055
Coord A exon
chr11:104000199-104000935
Coord C2 exon
chr11:104000046-104000198
Length
737 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
ACTCTCGTCCCCTTCCCCAGGGC
3' ss Score
10.07
Exon sequences
Seq C1 exon
GGGCCACGTGTGAGGTGGTGCTGGCCCCATGTGCCCCCGGGCCCTGCAGAAACGGCGGTGAGTGTCGGGAGTCAGAGGACTATGAGAGCTTCTCCTGTGCCTGCCCCGCGGGCTGGCAGG
Seq A exon
GTGAGTCCGGGGGGTGGGACAAAGGGAGGCTCGGAGAGGCTCGGGGGCCACGGGCTGGCAGGGGGAGTCCGGGGTGGTGGGACAAAGGGAGGCTCGGAGAGGCTCAGGGGCCACGGGCTGGCAGGGTGAGCCCAGGAGGATAGGGTGGGGAGCCTCGGAGAGGCTCGGGGGCCACGGGCTGGCAGGGTGAGCCCAGGAGGATAGGGTGGGGAGCCTCGGAGAGGCTCGGGGGCCACGGGCTGGCAGGGGGAGTCCAGGGGACGCTGGTACTGGGTTGGGAGAGGCTCGGAGAGGCTCAGGGGCCACGGGCTGGCAGGGGGAGTCCAGGGGACGCTGGTACTGGGTTGGGGGAGGCTCGGAGAGGCTCGGGGGCCATGGGCTGGCAGGGTGAGCCCAGGAGGATAGGGTGGGGAGCCTCGGAGAGGCTCGGGGGCCACGGGCTGGCAGGATCAGCCCAGAGGGTGGGGGGACGGGGGTGGGGAGGCTCGGGGGCTTCAGGCGACTCTTGCTAGTGAGCCCCCGTCCTTGGGGGATGAGCCAGTGGGCTGCAGGACCCTCCTAGGCTTGAAGGTCTGTCTCCTGCTTGGCCCAAAGTCAGGGGGCAGCCCTTTGGAGAGCTCCCCCCTCCCCGGACGCCCCCAGAGGGTTGTCCTGTGGCACTGGAGGGCCTGCTCTGGGGGGGCAGGCAGTGCCCCGTGGGTACTGGCCGAGCCAGCGACTCTCGTCCCCTTCCCCAG
Seq C2 exon
GGCAGACCTGCGAGATCGACATCAACGAGTGCGTGAAGAGCCCGTGCCGCGCGGGCGCCTCCTGCCAGAACACCAACGGCAGCTACCGCTGCCACTGCCAGGCGGGCTACACGGGGCGCAACTGCGAGACGGACATCGACGACTGCCGGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:16
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=4.9),PF0000822=EGF=PU(90.9=73.2)
A:
NA
C2:
PF0000822=EGF=PD(6.1=3.8),PF0764510=EGF_CA=WD(100=73.1),PF0000822=EGF=PU(9.7=5.8)
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:
CACGTGTGAGGTGGTGCTG
R:
GCAGTCGTCGATGTCCGTC
Band lengths:
262-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development