MmuINT0026555 @ mm10
Intron Retention
Gene
ENSMUSG00000042507 | Elmsan1
Description
ELM2 and Myb/SANT-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685106]
Coordinates
chr12:84154895-84156576:-
Coord C1 exon
chr12:84156427-84156576
Coord A exon
chr12:84155108-84156426
Coord C2 exon
chr12:84154895-84155107
Length
1319 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTCATTCTTGTCCCCCATAGACT
3' ss Score
9.8
Exon sequences
Seq C1 exon
ATCCAGACCAAGACTGTGGCCCAGTGCGTGGAATTCTACTACACCTACAAGAAACAGGTGAAAATCGGCCGCAACGGGACGCTCACCTTCGGCGACCTGGATATCGGTGACGAGAAGTCAGGCCAAGAGGAGGTTGAGGTGGACGTTAAG
Seq A exon
GTGAGTCCTTCCCCGGCTCTGCTGCATCACTCTGGGTAACACCTTAGGCCAGGACCTAACTGGAGGCCTGAGGACTCTCCTGGGGTTTATACAGGGCTGACAGAGGAGGAGAGCAGGTCCCTGGCAGCTCCCGGGAGCTGGTGCCCCAGGCCCTGGCCCTTTTGAGCTCTCTCCGGTATCGACTGTCGCGGTCGCAGTGATGGTGCTGATGCTGAACACTGGAGAGTCGGCGGCACAGCTTTGGCTTACTGCCTCTTCTGAGCAGACCACCAAGGTCACTTCTGGGCTCCAGCTCTTCTTGTACCACCTTTATGATTTCTGCTTTGTCTGTGCGTTAACACACACCACAATTACTGTTTCTGTCACGTCTCACACAACTTTTTTTTTAAAAGATTTATTTATTTATTTATTTTATGTATTCATATATCTGTACACTGTAGCTGTACAGATGGTTGTGAGCCACCATGTGGTTGCTGAGATTTGAACTTAGGACCTTCAGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCCCACACAACTTTTATTATTAATTTTTTTTTTGAGTCAGCCCACTCTTTTTCTCAAAAGGGAAGCTTTATATTACAATCATAAATAGAAACCAGTATTGTTGCCTATAAATAGAAGGTACTGGGAAAAATAAGTCCACATGAAAACCAAACCCTGTCACTAAATGCCAGCTACACGCTGCAGTTGCTTGCCAGGCCTCTGAGACAGGGCTGGCTTCTCATTTAGGCAGATTATCAAGTCTAGGGAAGAGGCACATTAACACCAACCCTGACGTGGTCTTTGAGAGACACTGTGATTTAATTTTGTGCCCAGAAATCCTCTTGACCTTGTCTCTAGGTTACAAGGCAAGATTTGGTGGTGTTCTGCTTTGAGATGAGGGAGTATTTTGGTCCCCATATTATAGATGGGGAATGGAGATAAAGTATCACAGACAGTTAAATTGGAGCTCAGAGCTACTGCCTGGCACACGAGGTCACTGTGTCCAAAGGGTGCTCAAAAGATTCTGGGCATCTCTCCAGGAGGCCAGGTGGTTTGTGGATCCTGGCAAGTTCCCTCCATATCCCTGGCTCAGTCTCACCCAGAGGGCACCCAGGGTCAAGACTATCATCCTCTTTCCGGGCCAACTGGCCATAGGGAAGCTGTGACTTATGACAGAGTCTCAGTACAAGAGGCTGGACTGGGCCAAGACAGGACTGCAGACCCCGCAGGTGCTTCAGAGCCTTGGGTGGATCAGAGTCTGCACTCTGGAATGACTGGGTTCATTCTTGTCCCCCATAG
Seq C2 exon
ACTTCTCAGAAGTTCCCAAGGGTGCCTCCTCCCAGAAGAGAGTCCCCAAGTGAAGAGAGGCTGGAGCCTAAGAGAGAAGTGACAGAACCCAGGAAGGAGGGGGAGGAGGAGGTGCCAGACACCCAGGAGAAGGGAGAGCAGGAGGAGGGGCGTGAGCGCTGCCGGCGGGCCGCTGCCGTCAAAGCTACACAGACACTACAGGCCAATGAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042507:ENSMUST00000110294:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PD(34.8=32.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAGACCAAGACTGTGGCC
R:
GTCTGTGTAGCTTTGACGGCA
Band lengths:
344-1663
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