MmuINT0023924 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:35290452-35290952:-
Coord C1 exon
chr17:35290867-35290952
Coord A exon
chr17:35290686-35290866
Coord C2 exon
chr17:35290452-35290685
Length
181 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GCTCCTTCTCCACCTCGCAGATG
3' ss Score
10.03
Exon sequences
Seq C1 exon
CCACAAGCCGAAAGAGTTACCAGCCTGGCTCCATCGAGCCCTGGATGGAGCCCCTGAGTCCCTTTGAGGATGTGGCAGGCACAGAG
Seq A exon
GTAAGGAGACGCTGGGACCGGAGTGGCAGGGAGGTTACTGAGTGTTGGTCATGTTTCTTCACCTGTTCTGAATAGACATAGCCCTTGAGGCCGTTCTCTTGGAATTGTCTCCTTTCCTCTGTTGGTATGTGACACTTCTCAGGTGTCCGGTGTTTTACCTAGCTCCTTCTCCACCTCGCAG
Seq C2 exon
ATGAGTCAGTCTGACAGTGGAGTGGACCTGAGTGGAGATTCTCAGGTGTCATCAGGTCCCTGCAGTCAGCGAAGTTCCCCTGATGGAGGACTTAAGGGGTCAGCAGAGGGACCCCCCAAGCGGCCTGGAGGACCCTCACCCCTGAATGCTGTTCCTGGTGAGAGTGCATCTGGCTCTGAACCCTCTGAACCTCCTAGGAGACGGCCACCTGCTTCCCATGAAGGGGAAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2:NM_020027:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAAAGAGTTACCAGCCTGGC
R:
TCAGAGCCAGATGCACTCTCA
Band lengths:
257-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: