BtaINT0102849 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103995850-103996298:-
Coord C1 exon
chr11:103996041-103996298
Coord A exon
chr11:103995963-103996040
Coord C2 exon
chr11:103995850-103995962
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
CACGCCACTCTTGTCCCCAGGAC
3' ss Score
9.15
Exon sequences
Seq C1 exon
GCGTGCACTGCGAGATCAACGTGGACGACTGCAACCCCCCCATCGACCCCGTGTCCCGGGGCCCCAAGTGCTTCAACAACGGCACCTGCGTGGACCAGGTGGGCGGCTACAGCTGCAGCTGCCCGCCCGGCTTCGTGGGTGAGCGCTGCGAGGGGGATGTCAACGAGTGCCTGTCCAACCCCTGCGACGCCCGTGGCACCCAGAACTGCGTGCAGCACGTCAACGCCTTCCACTGCGAGTGCCGCGCCGGCCACACCG
Seq A exon
GTGCGTGCCGCCCTGGTCGGGGGTGGCGGGCGGCGCTGGGGGCGGGGGGTCGGCGCCTCACGCCACTCTTGTCCCCAG
Seq C2 exon
GACGCCGCTGCGAGTCAGTCATCAACGGCTGCAAAGACAGGCCCTGTAAGAATGGGGGTAGCTGTGCAGTGGCCTCCAACACGGCCCGTGGGTTCATCTGCAAGTGCCCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=2.3),PF0000822=EGF=WD(100=44.8),PF0000822=EGF=PU(90.9=34.5)
A:
NA
C2:
PF0000822=EGF=PD(6.1=5.3),PF0000822=EGF=PU(79.4=71.1)
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:
GATGTCAACGAGTGCCTGTCC
R:
TGCACAGCTACCCCCATTCTT
Band lengths:
171-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development