MmuINT0137352 @ mm9
Intron Retention
Gene
ENSMUSG00000039087 | Rreb1
Description
ras responsive element binding protein 1 [Source:MGI Symbol;Acc:MGI:2443664]
Coordinates
chr13:38007891-38008464:+
Coord C1 exon
chr13:38007891-38008029
Coord A exon
chr13:38008030-38008327
Coord C2 exon
chr13:38008328-38008464
Length
298 bp
Sequences
Splice sites
5' ss Seq
AAGGTCCTC
5' ss Score
-0.12
3' ss Seq
AGTCTCTGCTTTTTCCTAAGATG
3' ss Score
5.38
Exon sequences
Seq C1 exon
ACATATGAAGATTCATGAGAAGGATACCAACAGTACTACAGCTGCAGCCCCTCCATCCCCTCTGAAGCGCAGGCGGTTGTCCTCCAAAAGGAAGCTGAGTCACGATGCCGAGTCAGAAGACCCAGGACCAGCTAAAAAG
Seq A exon
GTCCTCTGAGTTTATGACACAGACATGCTCCATTGTGTGGCGCTTGGCAGAAATGCCTCTAGCCTTTATTATCACAGTGTGGGACTTGGAAGAGATCAATCCGGGACCTTTTGACCTGGATGGAGGGGTGGGTGGAGGGGTCGGTGAATGGATGGATGAGTGGATGAGTGGGTAGTCAGACCTTGGTACTGAGTGAAAACCATACTTTTTAGCACTTCCTAGACTAACGTTAGGCTTCCTTCTAAAGCAACCTGTGTGGGAGCCCCCTTGGTGATGCCAGTCTCTGCTTTTTCCTAAG
Seq C2 exon
ATGGTAGAAGACGGGCAGTCAGGCGATTTGGACAAGATGAGCGATGAAATCTTTCACTGCCCAGTGTGTTTCAAGGAGTTTGTTTGCAAGTATGAACTGGAGACCCACATGGAGACCCACTCAGATAACCCACTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039087-Rreb1:NM_001177869:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF047109=Pellino=PD(5.9=12.8)
A:
NA
C2:
PF138941=zf-C2H2_4=WD(100=52.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGATTCATGAGAAGGATACCA
R:
AGTGGGTTATCTGAGTGGGTCT
Band lengths:
268-566
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: