MmuINT0132610 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:3162959-3164277:+
Coord C1 exon
chr17:3162959-3163112
Coord A exon
chr17:3163113-3164146
Coord C2 exon
chr17:3164147-3164277
Length
1034 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TGTGATGTCTTTTCTAAAAGGAA
3' ss Score
7.48
Exon sequences
Seq C1 exon
AGTAAAATAGTGAGAGTATTAAACTTATGGCAGAAGAATAATGTTTTTAAGAGTGAGATTATCCAGCCTCTTCTGGATATGGCGGCAGGGATTCCTCCCCCAGTTGTCACGCCTGTTTTGGCCAGCACCACTGCAGCTATGAGCAACACTCCAG
Seq A exon
GTACGTGCCTGTTGTACAGACTTGTTGGAGACTCAAGTTACACTGCTTACCCAATGTTCACACGCTATAGGGCAGAGGAGTTTGTCCAGTGTTAAGAGACTTGAAGGCTGAGTGTGGTGGCAAGTGCCAACTGTTAGTCCTTACACTGGGCAGACAGGCAGGTGTATCTCTTTATGTTCATGAAATAAAATACTGTGGTTTTGCTCTTAATCTAAAATTTAGAAAACAATTTTTAAAAATTGCTTTTATTTCTTTTTTTCTATCACCCAAAACATTTTGGAAAATGTCTATGTCACAGTTCATTTTTGTTTTGTTTAGCACTATGATTGATTGAACTCGGGGCCCAGCATATGCTGGGCAAGGACTTTTGCACTGAGCCACATCCCCAGTTCTCAATGAGCGTTTTCTTGATTTAGGTTGTCTATAACTCCTTAAACATGTATATGTAACTTAACTTGTTTACAGGTTATTTGGGGAATGTCATTTTTTAAGAAAAACTCCAAAATCGCTTAATAAAGCCAAGATTGCTTTAATGTAATTATCTAAAAATTTTATTGCTTGGGATATTTTAAATATTTCAGCTTTTACTCTGAACCCAACATTCGTTAACTTTTTGGTATGTAGTTCTTGTTGTACACCTGTCTACAAACATCTGTGTATAAACAAGAGTTTTGAAAAAAAAATAGTTTCATCTTACAGATACAGATTTTACCAGGAAAGATTGTATTTTTGTTATTTCCCCCTGTTAAAGAATTTTCTGTAGTAAAACTTTGCTGACAGGTTTCATTGAAGTGGTAGCTTAGTTTAAGATAAGTATAGACAGATCGCATGGGGCTTGGAGTGGGGAATTGCCTTCCTGTTTGTAAAGTTACCTAACTACATAAAGGCTGTAAGTCGTTTTCAAGATGGAGGCAGTAAAGTGAAAGCATACTATCTGCTTATGTTTTATATGTTAGCTGAATAAATCTTTGTACCTTTTTAAAGTATCATTTACTTGTTTCCTTCTTTGGTCCGTGTGATGTCTTTTCTAAAAG
Seq C2 exon
GAACACCCGTGACACCTGTTACTCCAGCCAATGTGGTCCAAGGCTTACCTGATCCATGGGTATCTCAGATAGCAAACACAGACACACTGGCAGCTGTTGCTCAGATCCTACAAAGTCCTCAAGGTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
-Rbm16:NM_134123:5
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:
AGTGAGAGTATTAAACTTATGGCAGA
R:
CTGTTGACCTTGAGGACTTTGT
Band lengths:
277-1311
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: