MmuINT0023940 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:35297397-35297777:-
Coord C1 exon
chr17:35297698-35297777
Coord A exon
chr17:35297540-35297697
Coord C2 exon
chr17:35297397-35297539
Length
158 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTTTTTTTTCCAATATGCAGCCG
3' ss Score
7.12
Exon sequences
Seq C1 exon
ATGTATCCCCCATATCTCCCATTCCCTCCGCCCTATGGACCCCAGGGGCCTTATAGATACCCGACTCCTGATGGGCCCAG
Seq A exon
GTAAGTAATCAGATTCTGGGTTTGTTGTTGGGGGAGGGGAACAGGGTAAGGCTACTTGGAGAGATGGTTTTTCTAACTAGGGGTTCAGTTTTATATGTGATTCTGCTACATGCTATATTTAACATCCCCCCCTCCAAATTTTTTTTTCCAATATGCAG
Seq C2 exon
CCGTTTTCCCCGTGTGGCGGGCCCCCGGGGCTCAGGGCCACCAATGCGCCTTGTAGAGCCTGTGGGTCGGCCTTCTATTCTTAAAGAGGATAATCTTAAAGAGTTTGACCAACTGGACCAGGAAAATGATGATGGTTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2:NM_020027:7
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCCATATCTCCCATTCCC
R:
CTGCCCAACCATCATCATTTTCC
Band lengths:
218-376
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: