MmuINT0137349 @ mm9
Intron Retention
Gene
ENSMUSG00000039087 | Rreb1
Description
ras responsive element binding protein 1 [Source:MGI Symbol;Acc:MGI:2443664]
Coordinates
chr13:37984421-37985853:+
Coord C1 exon
chr13:37984421-37984527
Coord A exon
chr13:37984528-37985640
Coord C2 exon
chr13:37985641-37985853
Length
1113 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
CGCTGACTTCTCTTTTTCAGTTC
3' ss Score
9.98
Exon sequences
Seq C1 exon
CATAAAGGAGTGATATCCAGAGAATAAAAGGGCTCCCCAGAGTCATTTCCTACTCCATGTGGATGACAGCAGGAGCAAGGGACTATCATTTGGGGCAGAAAATGGAG
Seq A exon
GTAATTTGCAATGGAGACAGTTCTTTTATGAGGTATAGGTAACTTTTTTTTTGGAAACATGCTTTTTAGTGTTGGTTTTAAATTTGGTTGTAATTACAGCAGTGTTGGTATCTATAGAATCAGCACACACATCCTCTTAAAACTGCATCCAGTTAGAGGAAACCTGAAGTTTCCTATCAGCTAGTTCTTAAGTCTAGAACTTTTAATTAGAAGAAAGCAAGTACAGGGTACGTGGGAGGTGCTGGCCAAACGGGAGCTCTGTTTCCTCTTGGAAAGGCTCAGGCCTTTCCAAACTCTGCTCACGAAGATTAGGGAAAGCTTGGGCTCAGGAGATGGCACACTGGATAAACTGCTTGCTATAGAAGTGCAAGGATCAAAGTCTGAATCCCCCACACCCACATTAAAAACCTAGGTGTGTATGGCACACCACACACACACCACACACACCCCACCCCACCCCACCCACCCTGTAACCCAGTGCTCAGGAGGCAGGGACAGGATACTTAGGTAGACCAGCCAAATCAGCAAGTTCTGGGTTCTGTGTGAGCACTTCCTCTGGGTTTTGTATGAGACACTTCCTTGTGCATAAAGAAGGCAACGATCAAGGAAACGACACAATAAGCACACATGGGCCCACTTACGTGCAAACACAAAACATGCCACAGTACATGTGGGATAAACAAGAAAGGGGAAAGGAAGATGCTTCAGAAGGCTTGAATTGCACTGGTGCTAAGCACTTGGAACAGAAAAGCCTTCCATCAGTATAAAAAAGCTTAAGCTGCTTTGGAACTGGGTGTGGTGGCTCACACCTGTAATCGCAGTACTTGAGAGCCTGAAGCAGGAGGATTGGGGAGTTCTGGTCATTCATGGCTACATAGTGTGGCCAGCCTGGGCTACATTGCAAGCTCCTGTCTCAATAAACACAATGAACAAACTGAAATAATAATTAATAATAATAATAATAATTTTGAGCTCTCTTCTGGGTTTGGGTTGAACTAGGGCAAGGGTGTTGGGCATTTCTGTCTCTTTTACCATGGTAGCTATGATTAGCACCACATGACTATGATAATCCTACACTTTCTCACAAGGACATCGCTGACTTCTCTTTTTCAG
Seq C2 exon
TTCTATAGCAGAGACTTCTTAGAAGCATAAAACCCTGTCCCGATGACGTCGAATTCGCCCATTGGTTTAGAAGGCTCAGACCTGTCTTCCATCAACACCATGATGTCAGCAGTAATGAGCGTAGCGAGTGTCACAGAGAATGGTGGGAGCCCCCAGGGCATCAAGTCCCCCATGAAACCTCCAGGACCAAATCGGATTGGCAGAAGGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039087-Rreb1:NM_001177869:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.965
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF047109=Pellino=PU(8.9=15.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATATCCAGAGAATAAAAGGGCTCC
R:
CTGGTTCCTTCTGCCAATCCG
Band lengths:
310-1423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: