MmuINT0096250 @ mm9
Intron Retention
Gene
ENSMUSG00000036792 | Mbd5
Description
methyl-CpG binding domain protein 5 [Source:MGI Symbol;Acc:MGI:2138934]
Coordinates
chr2:49127561-49130294:+
Coord C1 exon
chr2:49127561-49128577
Coord A exon
chr2:49128578-49130082
Coord C2 exon
chr2:49130083-49130294
Length
1505 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TATGTTTTTCAAAACTGTAGGTG
3' ss Score
8
Exon sequences
Seq C1 exon
GTGGTTCAAGCCTGCCGTCCTCCATAGCTATAGCTGGCAGCAACCACCCTGCCATCACAAAGACAACATCTGTTCTCCAAGATGGTGTCATAGTCACCACCGCAGCTGGAAACCCACTGCAGAGTCAGCTGCCCATTGGGAGTGACTTTCCTTTTGTTGGCCAAGAGCATGCCCTTCATTTTCCATCCAACAGCACCGCAAACAACCATCTTCCACACCCCTTGAACCCCAGCCTCCTCAGCTCTCTACCTATCTCTTTGCCAGTGAATCAACAGCATCTCCTAAACCAGAATCTATTAAATATCCTCCAGCCTTCAGCAGGAGAAGGCAAGTCTGAGATCAACCTCCACCCTTTAGGTTTTCTCAACCCGAATGTAAACGCTGCTTTAGCTTTCCTCTCCGGTGACGTGGATGGGCAGGTATTACAGCCTGTCCACTTTCAGCTCTTAGCAGCCCTGCTTCAGAACCAAGCCCAAGCAGCTGCCATGCTTCCCCTGCCGTCTTTCAATCTGACCATCTCAGATCTTTTGCAACCGCAAAATACCCCTTTACCCTTATTAACACAGATGACAGCCCCACCAGACCGTTTGCCAAGCAATCAGTCAGACAACAGCCGAGCTGATACCCTTTTAGGCAGCCCCCTGGGAAACCCTTTAGCAGGCAGTGACACTACTTTTAACCCCCTGCTCCTCCCAGCTGTCACTGGGGCCTCAGGATTAATGGCCTTGAATCCCCAGCTGTTGGGGGGTGTCCTGAACTCGGCATCGGCCAACACCGCTATTCATCCAGAGGTTTCCATAGCAACCTCCTCCCAGGCAACCACTACCACAACCACTACATCATCAGCAGTGGCAGCACTGACTGTCTCAACACTTGGTGGGACAGCAGTGGTGTCAATGGCAGAAACATTGCTGAATATATCTAATAATGCTGGGAATCCACCTGGTCCAGCTAAACTCAACAGTAACTCTATGGTGCCACAGCTACTTAACCCTCTACTGGGGACAGGTCTGCTTG
Seq A exon
GTAAGTTCAATTTTTTCACAAATTTTTTTTTAAGAAACGTTTTTCTAATTCTCTATTCTCCTTTTTAAAACTACATTTTGTCACACTATTTTTTTAAAATGTCTTCATTATGTCACAGTTTATTTAAGTAATTAAATATAACAACACCCACACAAAACTATAGCTAAACAAACATCAAAATGGCTTTTTCCTTTTCTGATTCTAGCATTACTAAATACCACTGTAATCTGCTTCCTCTTATCTTCTAATTCTGATGCCACCTGAACCTAACCTACCTACCACTCCCTTCAGCCAAGTACAGTCTGCATCTTCTAAAGAGCCTTCATTTCTACTGTAGTTGGTGTGGCATCACAGGGTTGGTATGAGCAGCTGCACTAGGGTGGGAACAGTTGGAGGAAGTACTTCCAGGTGAACCCTGAGAAGCAAAACTAAAAAGGCCAGAAATCAAAATACCCCAAGCTGGGGTTTCCCCCAAGACAAAGGAAAATGTCCCTCTAAATAATACTAGGTTTCCTCAGAATTATCATTTTTATAATAATGGATTTGTCCATAAATACCTTTCTTTTTATAGGTTAGCTTATCAGGAAAAAGTTGGAAATAATGTCAAGTATTTATAATGGTGGGTGCAGGTAACACCAAGGAGAAGGATAGATAGGAAGTGCCAGTGAAACCCAGAAATAGAAGCAAGAGTACATGGTGTTGTCAAGAGCATCTTGATGCACTGCAGAGCTAATTATGTACATTACTTTATGGAAACTTTTATAATTATACTGCAGTGCAGTTAGTTTTGTCTAGACCTAAAATATAGTTAACCAAAAAAATCATAATAAACATACAGACTCAGGTTACAAAATTGTTCCCAAAAGAATTTAAACAACTTAAGACAATTCTAAATTTTAACTATGTATCAGTTACTAATGCTATCCATTGACATCATTGATTTTAAAATCTTCATAACAGCTATAGCAGTGAATTCTTTTGTATTGTTGGGTTTACAGTTTTAATTTTAGCTGACTAACATTTAACTGAGCAACAAAATGAGTATTTCAAAACTAAGCACTTAATTTAATTGGTGGCATTTATTGATGATTATGACTTAAAGCTGATTTTTTTATATAAATGAGACTATATTATACCCACTCTTTATCATCATCTGCTCAACTATTTACTGCTAAGTAATTGCTAAGGAAAATTTTCAACCTTTAACTGTAGGTGTTCTAATAAAAATAAACATAGGGACACTTAGCTCTGAAGTTTAACATTAATGACTAAGTAATTTTTATGTAGTATAAAATAAAAGGCTGACCTTACAGATAAAACTAAATGCTAAAGGTATTCTTTACTTACAACTAAGTAAGGCTGATTTAAAAAAAAAAAATGACCAATTTTCCTATGAAGCTCAGCTTTCAGTTTTTGTTTCAGAAATTATCAGGTGCAAAGACAACCATAAGTTAGTTCTCTGAAGAAGCACGTTTACTTATACTTTATGTTTTTCAAAACTGTAG
Seq C2 exon
GTGATATATCATCCATAAACAATTCATTGAATAACCATCAACTGACTCATCTACAGTCGCTACTAAACAGCAATCAGATGTTTCCTCCAAATCAGCAGCCGCAGCAACACCTTCTCCAGGGACACCAGAATCTCCAGGCCTTCCAAGGACAACCCACAGTCCCTTGCCCAGCTAACAATAACCCCATGGCTTGTCTGTTTCAGAACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036792-Mbd5:NM_029924:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.305 A=NA C2=0.639
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATAGCAACCTCCTCCCAG
R:
GGAGATTCTGGTGTCCCTGGA
Band lengths:
358-1863
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: