MmuINT0137350 @ mm10
Intron Retention
Gene
ENSMUSG00000039087 | Rreb1
Description
ras responsive element binding protein 1 [Source:MGI Symbol;Acc:MGI:2443664]
Coordinates
chr13:37898412-37899787:+
Coord C1 exon
chr13:37898412-37898501
Coord A exon
chr13:37898502-37899623
Coord C2 exon
chr13:37899624-37899787
Length
1122 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
TGTCCCGATTGCTTCTGCAGCAC
3' ss Score
8.03
Exon sequences
Seq C1 exon
GAAACGAAAGAGGAGAAGTCTTCCTACAACTGTCCCCTATGTGAAAAGATTTGCACCACCCAGCACCAGCTGACCATGCACATCCGTCAG
Seq A exon
GTTTGCCCCTACTTTTGTATTGTTTTTCACTAACAGGATGATTTTATTTTAATTAAATTGAATTGTCTAGTAAATTATAAGCTATGTTTAAAATTTAGTGTTTTAGCAATCTTGGGTAATTATGGAGTGATTTTTGCATAGTCACGTTTCTATGATAGTCTAAGACAGAATGTCCAGGTAACTTATCACTTATCTTGATATAATGCTTTTTACTGTTTGTAACCATATTGACTAACCCTCATAATGAAAGACTATAGTATGGTTCTATATATGTGTGTGTGTGGAGGAAGAGGAACAGTCATGGGGGCCTTTACACATAATCTCACACCATGATGACGCTGAGTTCTGTCTGTAGCTTCTGTCCCAGAAGCTACATTGCAGGCATCTGTCACCACACCTGACTTTCCCCCCTTGCCATGTAGTCAGCTGGCTGAAGCCCAAAGTCCTCGTGTCCATTCCTGCCCTTTATTTAAATGGTACCAGTGTACTTCCTGCAGCCGAGGAGTTCCTGGACTTGGGATTGTTTTTCCCTTATCATAGGATGTATCCTTGTCCTCTTATGGCATTGCTGGTTTATGGCAGACTGCTGGTGACAGAGGGAACAGTGGGGAATGATGATGCATTAAAGTCTTAAGAAGCTACTAAATAGTAACGACACCTAGTCACCGAGGAAACTTGGATGTGGATAGAGATTTTCCTTGTCATTTTCAAAAGCAGGAACTACCTCATTCAGGTTTCTGTTATCTAACAACCAGCCTAAGTCTTCAAACTGGAGGAGGGACTGCAGCCTCCCAGTGTGTAAACACACTATTTGTTTCTCATATTGGCTGTATAGTTAAGACTCCTCCTGTCCAGAGGAGTTCATAATATATGTTAGTTTAAACCATGGACCTGCAGACTAGTTCTGAGTTTTGCATCAGAGTGGAAAATAATAGAACAAAAACAATCATATGCCCATCTTCTAATGCCTTTGGCTCTTTCGAAGACACTGGAAAAGAAACCTGGAGGGTGGGGGTCGGGGGTTGGGAGATGGAGAAACTTCACTGTTTTTTCTCACAGATCTCCAGATCTGTATTCCCAGTGCCATCTTCTCAGTGACCGTTGTCCCGATTGCTTCTGCAG
Seq C2 exon
CACAACACAGACACGGGAGGAGCTGACCACGCATGCAGTATCTGTGGGAAGTCGCTGAGCTCGGCCAGCTCCCTGGATCGTCACATGCTGGTGCACTCTGGCGAGAGGCCTTACAAGTGTACAGTGTGTGGCCAGTCTTTCACCACCAATGGGAACATGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039087:ENSMUST00000110238:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.467 A=NA C2=0.364
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=47.3)
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:
GAAACGAAAGAGGAGAAGTCTTCCT
R:
CTGTGCATGTTCCCATTGGTG
Band lengths:
254-1376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types