MmuINT0003963 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:88461997-88462438:+
Coord C1 exon
chr9:88461997-88462123
Coord A exon
chr9:88462124-88462345
Coord C2 exon
chr9:88462346-88462438
Length
222 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
ATATTATTTTCTATTAACAGGGC
3' ss Score
9.5
Exon sequences
Seq C1 exon
GAGTTGGTGTCTTTTGAGGACGTCACTGTGAAGTTCACCTGGGAGGAGTGGCAGAATCTCAACGACGCTCAGAAGATGCTGTACAGGAGTGTGATGCTGGAGACATATAATAGCCTGCTGTCACTGG
Seq A exon
GTCAGTATCAGGAGCAAGCACCAACCCTGCAGGAAATATATGGGCCCTTGTAAGGTTGAGAGCTAAGGTTTTAGGCCACGAATTGTATGACTGTTCACTGCTCTCTAGGGAAAGGTGCACATTTGCACTTTAGTTACATAGATCCTAAAACCTGGTTTTATCTTTCTCCAAAGAACATTTAAGCAAAATTTTTCCAAGTCCTATATTATTTTCTATTAACAG
Seq C2 exon
GGCAATGCATCCCTAAACCTGAGTTGATCTTTAAATTGGAACAGGGAGAGGAGCCATGGACAGCAGAAGAACCTGCAAACAAGACTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
-4930422I07Rik:NM_001163061:3
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
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTTGGTGTCTTTTGAGGACGT
R:
CTGGCAGAGTCTTGTTTGCAG
Band lengths:
220-442
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: