MmuINT0132849 @ mm9
Intron Retention
Gene
ENSMUSG00000042369 | Rbm45
Description
RNA binding motif protein 45 [Source:MGI Symbol;Acc:MGI:2387367]
Coordinates
chr2:76211617-76213535:+
Coord C1 exon
chr2:76211617-76211743
Coord A exon
chr2:76211744-76213412
Coord C2 exon
chr2:76213413-76213535
Length
1669 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TCACGGGTTCTCATTTTCAGGTT
3' ss Score
11.24
Exon sequences
Seq C1 exon
GTGTATGGAGATATCGAGTATTGCAGCATTATTAAGAATAAAGTCACTGGAGAAAGTAAAGGCTTGGGCTACGTGCGCTATTTAAAACCATCACAAGCTGCCCAGGCAATAGAAAACTGTGATAGAA
Seq A exon
GTAAGAATGGGCTTTTAAAGTTTTATTTTATGTGTTTGGTGGTTGTGCCTACATGTACATCTGTGCGCCACATGGGTGCAGTGCCTGCCGAGGCCAGAGGAACATCAGATCTGGAACTGGAGTTACAGATGAGTGTGACCCTCCATGTGGGTATTGGGAACAGAACCCAGGTCCTCTGTAAGAGCCACAAGTGTTTGTAACCACTGAGCCATCTTTTCAGCCCCAGAATATACTTTTTTATATTTTGTTTTTAACTTTGCTAAAAGGCCTTTAAAAAGAAATTCTCATTATTATAAATAACAGCCTTCCATGCTATGCCATGTAAGTAGTGTAGCAGGTATTTATACAGATCCAAGGCTGAAAACATTTTGCATTGATGAATCAGTCATGCACTGATGCCATCCTGAGAAACACGATCGGCTGAATCCTCCATAGTAAGTGCAGGACACTCCTGGCTCATTGTTTGCATAGGTTTGGGGCTTTAAAAATTATTTTGTAATTTAAAGTATTGAAAACTGATTTACCCTTTTAGGTTTTTAAAAGTATTTTTCTTTGTTGTTTTTCTTAAGACAGAGTCTTGTTGTGTAGCCCAGACTAGACTTTTCACTTGTGATTCCCCTGCCCTGGCCTCCTAGCTGTCAGCTTTACAGGCGAATGCCCCTGTGCCCAGCAGATCTGATTCTGTTTGTTCCTACTTGACCTAAGCCCTAAGAAGGATTTATTATACTAACAAACATACAAATTAAGGATGGCATTGGTAAGAGTTGCTATCACGGGTAAATAATTTGAAGCTATAGAGGCAAATTGTTGGATGTTTAATGTTATATATAAAATTGAATTCAGCAAATAAGAGGTGTACTAAACTCTGTGCTTTAGACTGTTATAAAAATCTGTATATACAGGAAAGAGTTGCGGTTGATCAGTAGAATTCTTATTTGCCTCTAAAGTCCACACTGTGATTTTCTTCTTAGGTCCTTCTGTTTCTCAGAAGTCAGTCTTAACTGGCTTCCTGTGGTATGTTCCTCAGTATGCTAAGAGGAGGGTATAGGTGAAGTACCTGCTAGCTCTGACATTTAAAACTCTATGTCTATGTTGATAAGACTGAAAACAAAAGTACATCTTGTTTTCCCTGACCTCCTAGTCCTTGTAGAGTCATAACTCCTCCCTGCAGATAGAATGAGCTCAGACCAGCTTTGTTTCGCCGTGTTTGCAGCTGCTGGATAATATGAACACTATGAACCCATATACTGATGTACACATAATATGGATAAGCATTTTGTTTTAGAGGGTTTGTGGGGCTTTCCCACCTTGTATAGGGAGGCATGGTAACAGGCTAAAGATGAGGACAGCCAATGGGGTTTTGGCGCTAAGCATGCTGGGCTAATGGGCGACACCATCTTTTGGAAGAATGGCTCAGCAATGCTGACCTTGCTTGTTTGTATTAACCTCTACTTGGGGCTCTTGATTTGTTGTTGTTGTTTTCTTTGTTTTGTTTGTTTTCTCGTATACTTTTTGTCCTTTAACTATGAAACAAGTCAGTCTGATGGGGATGGCCACCATGTAAATTCTGCCTTGTATGGTTATATTTCTAAAACTAGGTCAGATCCACAAAAATCAAACATGTTAAGTTTGCTATGAAGCTTGAAAATTCACGGGTTCTCATTTTCAG
Seq C2 exon
GTTTCAGAGCACTCTTGGCTGAACCTAAAAATAAAGTGTCGGGGTCCCCAGAACAAGATGATTACAGCAGCGGGAGGCAGGAGGCTTTGGGACAGGAACCCAGAGCAAATCTGTTTCCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042369-Rbm45:NM_153405:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.452
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(56.8=100)
A:
NA
C2:
PF0007617=RRM_1=PD(2.7=4.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGAGATATCGAGTATTGCAGCA
R:
CAAAGGGAAACAGATTTGCTCT
Band lengths:
246-1915
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: