MmuINT0026560 @ mm10
Intron Retention
Gene
ENSMUSG00000042507 | Elmsan1
Description
ELM2 and Myb/SANT-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685106]
Coordinates
chr12:84160479-84162601:-
Coord C1 exon
chr12:84162256-84162601
Coord A exon
chr12:84160546-84162255
Coord C2 exon
chr12:84160479-84160545
Length
1710 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
AATTTGTTCTTTGCTCGTAGATA
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCTGAAGACCTGAACGTCAAGTTGGAAGGGGAGCCTTCCATGCGGAAACCAAAGCAGCGGCCGCGGCCGGAGCCCCTCATCATCCCCACCAAGGCGGGCACTTTCATCGCCCCTCCTGTCTACTCCAACATCACCCCTTACCAGAGCCACCTGCGCTCTCCCGTGCGCCTTGCTGACCACCCCTCTGAGCGGAGCTTTGAGCCCCCCCCTTACACACCACCCCCCATTCTCAGCCCCGTCCGGGAAGGCTCTGGCCTCTACTTCAATGCCATCATATCAACCAGCAACATCCCGGCCCCTCCTCCTATCACGCCAAAGAGTGCCCATCGAACCCTGCTCCGCTCTA
Seq A exon
GTAAGTGACCCTGGTGGCTGTGGTGGCGGGTTATAGGGGACTGGGGGCTGGAGGACGACCTCTGCTATCTCCCCCTGGAGTGGAGTGGAGTGATGCTGGTTGGTCCTCCTGTTTGGATTCTCATCCTCTGTCCACCCTTTACTGTCAGACCTGCAAGTCCAACTGCTCAGACCCCAGTTCGTTCAATATTCAGCAAGGATCAGGATTTGATTAGTCATGCTTGGCTGCTGATACTCAGCTGATCCACAAACAGCAGTTCCTTACGATTCAATCTAATAGCTCCCTCCTCAGGCTGTGGTGGGGATCAGTTACATTAGCATTATTCATAGTAGGTGGCTGACCTGGTCTCCTGGGCTTGTTGATACGTTTTGGTCAAGAACAGGCCCTGGTGTTGTGAGGCTTAAAAATGTCCATTTTGCAAAGGGGTTCTTTCCTTTTGGAAAGTGGGATCACCTGACCCCTTACAGCAGACCGGCGCAGGTGCAGTCTTCTCCCAGTTAACCTCTGACCCCAGATACCACCCATGGTGTAGTTCTCTGGTGCCTCCTGGTGTCTGTGGATGGAAATTGCCTGGTGTTGGCAAGCACAGGTTTTGCTTACCTGGGAAGAAGTTTCTTTCTCTGGCTTGGTTTGGGTTGGAAATCACAGAGCAGAGCCAACAAGGTATCAGTCAGTGTGGCCAGCAAGTGTTTACTGAGCATTGTGTGTAAAACCTCACACTGGATCCTGTGCAGGCTCCAAGAATGTATGGGTACCATTATCTAGTCTAAAGAAAGTGCACGGTGGGATCATTGGGGAATTGACAAGAAAGCTTGGGAGACAGAAAAAGCAGAGGCTCCTAGCAGTGTGGGACCAGCAGGCAGTGAATGAGGCCGACACCAAGTTTCTAACCTGTGTGGCAGCCTCCTGGATAGATAAGGGAAGAATTTGGGAGAGGGTGGAGCCATAGCTGAGCTCGAACTGCAGAGTGGGAGGGGCAGGCACTGAAGGCGTGGAGTGGGGCTGAGCGGGGGAGTGAGGGCCGTGAGGTTGGGGTGAGAGCCTGGGTCATGGGGTGGGAGCACAGGGAACTGCCTGAAACAGCCGAGGGGGGGCAGACTTTGTCTCACTCACGTTGCAGGGGGCAGCAGCAGAGGTTTTGTGTGTTGTTTTGTTGTGATTAAGGGAGTGTTTTCATCCAGTCAGGCTTTAAGATTAACTTGGAGAAAGGTGAGGCCCCTCCCCCTCCCCCTCAAAAAAAAAAATCCAGAGAGAAGATGAAAAGATAATTATAAAGAGGCCTTTGACATCTCCCTGGTATGCTTCGTCCCGGCCTCTTTGATAGAACAAAACAAAAGTAAAACATAGCTCTATACTGCAGCGTGTGCAGAGAGAGCTCCTGGAAGCTGGGGCTGGGCTTCTGGGGGTTGTGCTGATAGCTGATAGTTGTGGAGTGCCAGGCTCTTTTTTAACTCACACATCTCATTACCTACAGGAGACAGAAAGAACGAACCCCTTTTGCAGATGTGAAAACTGAGGCACTCACATGTTTAATACGGGGCCGGAGTTGCACAGTCGTCAGATTGCAGAGCAAGGACAGAGGGTGCCTGGGTTCCGAGTGTACTCAATGAGTCACCGCTGTGACTCTTGCATGCAGGACAGCAGTCTAGGACAGGAGTGTTTTCCTGAAGGGAGGAAGAGGCCATTTACCAATTTGTTCTTTGCTCGTAG
Seq C2 exon
ATAGCTCTGAAGTCACCCCGCCTGTCCTCTCTGTGATGGGGGAGGCCACCCCTGTGAGCATCGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042507:ENSMUST00000110294:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.655 A=NA C2=0.261
Domain overlap (PFAM):
C1:
NO
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:
CAAGTTGGAAGGGGAGCCTTC
R:
GCGGGGTGACTTCAGAGCTAT
Band lengths:
350-2060
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