MmuINT0137350 @ mm9
Intron Retention
Gene
ENSMUSG00000039087 | Rreb1
Description
ras responsive element binding protein 1 [Source:MGI Symbol;Acc:MGI:2443664]
Coordinates
chr13:37990281-37991656:+
Coord C1 exon
chr13:37990281-37990370
Coord A exon
chr13:37990371-37991492
Coord C2 exon
chr13:37991493-37991656
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-Rreb1:NM_001177869:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.488 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF047109=Pellino=FE(28.7=100),PF138941=zf-C2H2_4=PU(87.5=70.0)
A:
NA
C2:
PF047109=Pellino=FE(53.5=100),PF138941=zf-C2H2_4=PD(4.2=1.8),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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: