MmuINT0075565 @ mm9
Intron Retention
Gene
ENSMUSG00000024448 | H2-M10.1
Description
histocompatibility 2, M region locus 10.1 [Source:MGI Symbol;Acc:MGI:1276522]
Coordinates
chr17:36459805-36461061:-
Coord C1 exon
chr17:36460959-36461061
Coord A exon
chr17:36460194-36460958
Coord C2 exon
chr17:36459805-36460193
Length
765 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTTCATTTTTCCTTCTATAGAGT
3' ss Score
8.59
Exon sequences
Seq C1 exon
AGCCTCCACACACCATCCCCATCATAGCAATTCTCATCGGCCTGGTTCTTGGAACCTTGGTGGTGGGAACTGTGGTGATTTTTCTGGTGTGGAGGAAATAAAG
Seq A exon
GTAAGAAAGGGTCTGAATGCTTGTCTCTCTACAGATCTGCAGACCAAGCTATAAATGAACCCTGCCTCATTAGAGGAAAGATGTATCCACTCAGGCACTGGGAATTGTGTGCTGACATTAACTCTATCATAAAGCATAAGGGAAATATAGAAAGGTCCACTGCCCTCTTGATGCAGGAGATGGAGACCTGATTGTGATTCCCCACAGACAGAAAGATGTCACAGAGAAGGTCCCTGCTGAGAACAGACCTACAGAAGGCTACTAAGTCCTTTTATTTACTATTTTCCATTGTGTTTTCTTCTGCATCCACGGAGCTGCAGTCCCAGTTCAAGAAACTTCCCTGGGGTTTGACCAGGAGATTTTCCACTCCCACAACTTTACTGCTTCCACAGTCTCTCACTGGCTGTGTTCTTTCCACAGGTGGGAAAGAGGCACCTATAATTCAGCTGCCAGTAATTAAGTCCGAGTTGTTTCCTGAGCCCCTTGCAAAAGGGAAGCCAGGAACCCATTGTGTGTGCTCACACATTTTCCCTCTGGGCCCTATTGCTGTGGGCCCTTAACAGGTCTTATGTTGTACTGCCATAGGCATGGACAGTGCCCAGAGATCTGATGCATCTCTCCCAGTAGGATAGGAAATATTCAGAGAACATATTCCTGAGCTGGGGTCACTTGCTAGACTGGAATTGTTGTTAGTATGGATGCTTGTTTGCTATCATGGTTTAACAATCACCAATCAGAATTTGTTCTTCATTTTTCCTTCTATAG
Seq C2 exon
AGTGAGATACAAACCTTCTGTGACTTCAAAAACTCCTGGCTTTTCTTTCAATGGCTGACACCTATGTCCATGTGTCTGTATCCTGTCAAAAAGAGACAGGTCTGGGAGACCTCCAGCAAAAACTGACCTTTAGTTTACAGTAAGCTGTACATTTATTCTGTCATCTTTAACATGAGGATTTGGGTAATTTTTTAATGTATGACTTTTTCCTATAGTTTATTTAATGAGTAAACCCAATCAAAGCAAGATGAATTAAATAGAAACTCTGTCTTCAGGAGTTGAAATTCATTATTTGGGTCTTCTCTGACTTTTTCTGAGTGCTTTTCTTTCTCTTCAACTTCATATTTCTCTGTTAATGTCTCTTCCTAATAAACCTGAACTTTGATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024448-H2-M10.1:NM_013544:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCGGCCTGGTTCTTGGAAC
R:
TCAACTCCTGAAGACAGAGTTTCT
Band lengths:
351-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: