MmuINT0100561 @ mm10
Intron Retention
Gene
ENSMUSG00000026471 | Mr1
Description
major histocompatibility complex, class I-related [Source:MGI Symbol;Acc:MGI:1195463]
Coordinates
chr1:155130633-155132635:-
Coord C1 exon
chr1:155132360-155132635
Coord A exon
chr1:155130732-155132359
Coord C2 exon
chr1:155130633-155130731
Length
1628 bp
Sequences
Splice sites
5' ss Seq
GGGGTTAGT
5' ss Score
2.75
3' ss Seq
TTTTTCTCATTTACTTACAGAAT
3' ss Score
9.99
Exon sequences
Seq C1 exon
AGCATCCAGTGGTAAGAACAACTCGAAAGGAAACTTTTCCAGGGATTACAACTTTCTTCTGCAGAGCTCATGGCTTCTACCCACCAGAAATTTCCATGACATGGATGAAAAATGGGGAAGAAATTGCCCAAGAAGTGGATTACGGAGGGGTACTTCCCAGCGGGGATGGAACCTATCAAACGTGGCTGTCAGTTAATCTGGATCCTCAGAGCAATGATGTTTATTCTTGTCATGTGGAGCACTGTGGTCGCCAAATGGTTCTGGAGGCCCCTCGGG
Seq A exon
GTTAGTATGGGGGTAGTGGCTATCTGGGAAGTGAGAGTGAGAAATGAGATAGAAAGCGGTGAAGCCTGTAGGGAAGGGATGCTGGGTCACTGGGTGGGTCACCACAGGCTTCACCAGGTGGTGGTGCAGTGGCAACTGATTTGTTTGTTTGTTTGTTTGTTTGTTTGGTTTTAGAGGCATGGTTTCTGTGTAGCCCTGGCTATCCCTGAAACCTGTTTTGTAGACCAGGCTGGTCTTGAACACACACACCTGCCTCTGCCTCCTGAGTGCTGGGATTAAAGGTGTGAACTACACCTGACTTCAATTTCTATTTGTAATTTTAAAAGTTTTTTTAAATTTTATTTTATGTGCATGTTGTTGTTGTTGTTTTGTTTTGCCTACATGTATGGCTGTGCAGCACATGTATAAAATGTCCACAATGGCCAGAGGAGAATCATTGAGTCCTCTGGACTTAGAGTGATAGTTAGTTGCTAGCTACCATGTGTTCTGGGTATCCAACCTAGAACCCCCGGAAGAGAGGCCAGTGCTCTTAACCACTGAGCCATCTCTCCAGTCCCAAGATTTATTTTATTATTTTTATTTATGTATGTATCTATGTGTGTATGTGTGAGGGTATGAATGTAAGTACCAAACAAGTTTAGAGGAAAGCATCAGATCCCTTGGAGCTGGAGTTACAGGTGGTTGTGAGCTATCCCAGGCTGGTGCTGGAAGTTCCTCCATAAGAGCAGTCAAGTGCTCTTAATGGCTGAGCCATTTCTCCAGCTCCAACAATGTTTGTTTTAATATTGTTTGTTTGCTTGTTTATATATATGAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATGCCATTGCAGATGGTTGTGAGCCACCATGTGGTTGTTACGAATTGAACTCAGGACCTCTGGAAGGGCAGTCAGTGGTCTTAACTACTGAGCCATCTCTCCAGCCCCTACAATTGTTCTGTTCAGTGCTTCTCACGGTGTTTAGTTCCCACACTCATCTATATTCTTATGAATTACTGAAGACCTTAAATAGCTGTCATTTGTGTGTGTCATACCTGTTGCAGATTACTATATCACATATTACATTAAAAAAAATATCCAGGTGGTGGTGGCACATGCCTTTAACCCCAGCACTCAGAAGGCAGAGGCAGACAAGTCTCTGAGGCCTGGTTTACAAAGTGAGCTCTGAGACAGCCAGGACTACACAGAGAAACCCTGTCTTGAAAAAACCCCAAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAACTGGGTGGCAGAGGCACATACCTTTAATCCCAGCACTGGGGGCCTAGGGTGAAGGTGGGAGACAAAGGCAGGTTGATCTTTGAGTTTGAGGCCAGCCTGATCTGCAAAGTCAGTTTCAGGGCAGCTGGGGCTACACAGAGAAACCCTGTCTTAGGAAAAACAAACACATAAACGAAGCATATGCACATATCTATGTGCCATCAGGTGGTGACTGAGAAGTGATAGCCAGGTTTCCTAATGAACACTATGATACACTTAATGCAGATGGCAGGAGCAACGTGGAGTTTTTCTCATTTACTTACAG
Seq C2 exon
AATCAGGGGACATCCTTCGAGTGAGCACGATCTCTGGAACCACAATTCTCATCATCGCCCTGGCTGGAGTTGGTGTTCTGATCTGGAGAAGGTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026471:ENSMUST00000027744:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGTGGTAAGAACAACTCGA
R:
CAGAACACCAACTCCAGCCAG
Band lengths:
352-1980
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