MmuINT0100559 @ mm9
Intron Retention
Gene
ENSMUSG00000026471 | Mr1
Description
major histocompatibility complex, class I-related [Source:MGI Symbol;Acc:MGI:1195463]
Coordinates
chr1:156983705-156984904:-
Coord C1 exon
chr1:156984644-156984904
Coord A exon
chr1:156983981-156984643
Coord C2 exon
chr1:156983705-156983980
Length
663 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
ATAGGCTGTATATGTTTCAGGGC
3' ss Score
6.9
Exon sequences
Seq C1 exon
GGACCCACTCGCTGAGATATTTTCGTCTAGCTGTTTCCGATCCTGGTCCCGTCGTCCCTGAATTTATCTCTGTTGGGTATGTGGACTCACACCCTATCACTACATACGACAGTGTCACTCGACAGAAGGAGCCGAAAGCTCCATGGATGGCAGAGAACCTGGCACCTGATCACTGGGAGAGGTACACTCAGCTGCTAAGGGGCTGGCAGCAGACATTCAAGGCGGAGCTGAGGCACCTACAGAGGCACTACAACCACTCAG
Seq A exon
GTGTGACTGTAGCAGAGATGAGCACTCTCCCTCACTGGCTACTCCCCAGAAGACAGGCCCTGGGCTGTCTACGACAATTTCACTAGTTGCTTATATTCTTTGTAGAAAACTTAGAAAATCAGGTTGCTGGAGTTCAGTGACCACCATCTCCCCCATGACTCTTCCACACTGACCTGTAAAAACCCTTTATCCCTTGTCCCCATATTCCTATCCCATTGGTATCCAACACTCTTCTCTAACCTCATTCTAGATTTGCTCCCCTTAGGACTCATGTGCTGATGGCTAGTCTTCATGATTTGCTTATTTCTGCATAGAAACTTAAGATTTTAATTGCCCCAGATATATTTCTGGCTCCTGCGTATCTCTTGCTCCTACACTGCACTCAGAATAGCTATGAAATTTATCAATGAATCATCCCAAAGATAGGCTAATTCCCCAAGGCAAGCTTCATCATGATCCTTTGGCATGCAGCAGGTACCCCACCAATGTCTGCGAGTAGGTGGGTCTGCTGAACAGGAACCTTTTGGAACTCAAATATACAGACCTGTGTGGTGGTGTCTTCTAAGGCAAAAGTGCTTTCAGCCATGCTCCAGTTGTACCACTTGAGAAGTCTCTCTCTGTCTCTGTTTAAAGCCATCCTCCCATAGGCTGTATATGTTTCAG
Seq C2 exon
GGCTTCACACCTACCAGAGAATGATTGGCTGTGAGTTGCTAGAAGATGGCAGCACCACAGGGTTTCTCCAGTATGCATATGATGGACAAGATTTCATCATCTTCAATAAAGACACCCTCTCCTGGTTGGCCATGGATTATGTGGCTCACATCACCAAGCAAGCATGGGAGGCCAACCTGCATGAGTTGCAATACCAAAAGAACTGGCTGGAAGAAGAATGCATTGCCTGGCTAAAGAGGTTCTTGGAATATGGAAGAGATACCCTAGAAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026471-Mr1:NM_008209:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTGGCACCTGATCACTG
R:
ACCTCTTTAGCCAGGCAATGC
Band lengths:
347-1010
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: