MmuINT0075669 @ mm9
Intron Retention
Gene
ENSMUSG00000067212 | H2-T23
Description
histocompatibility 2, T region locus 23 [Source:MGI Symbol;Acc:MGI:95957]
Coordinates
chr17:36166922-36167345:-
Coord C1 exon
chr17:36167316-36167345
Coord A exon
chr17:36167177-36167315
Coord C2 exon
chr17:36166922-36167176
Length
139 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TGTTATCTCTTCTACTGCAGGCA
3' ss Score
9.79
Exon sequences
Seq C1 exon
GTGTAAAAGGATGCTATGCTCATGTTCTAG
Seq A exon
GTAAGTGCGAGAGAGGGGCAGGGGACACCCTTGTCCCTGAGGCTCTCAGGATGGAGCTGGGATTTGTTCCAGCCCATAATCTCCTCTTGCCACATCCTCTCTGTCTCCTCTGTGTGCCTTGTTATCTCTTCTACTGCAG
Seq C2 exon
GCAGCAAGAGCTTCCAGACCTCTGACTGGCCTCAGAAGGCATGAAAATCCCTGGGGGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACTGACTGCTCTTCTGAAGGTCCAGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACGAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGCTACAATGTACTTACATATAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067212-H2-T23:NM_010398:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTAAAAGGATGCTATGCTCATGT
R:
ATGTAAGTACATTGTAGCTGTCTTCA
Band lengths:
242-381
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: