MmuINT0075672 @ mm9
Intron Retention
Gene
ENSMUSG00000053835 | H2-T24
Description
histocompatibility 2, T region locus 24 [Source:MGI Symbol;Acc:MGI:95958]
Coordinates
chr17:36151745-36152601:-
Coord C1 exon
chr17:36152329-36152601
Coord A exon
chr17:36152021-36152328
Coord C2 exon
chr17:36151745-36152020
Length
308 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
TGTCTGTCTGTCTACGGCAGACC
3' ss Score
8.85
Exon sequences
Seq C1 exon
GCCCTCACACCCTCCAGTTCACATACGGCTGTGAGATGCGGTACAACAGGACCACAGGGCATTGGCAGTATGGCTACGATGGCAGTGATTACCTGACCTTGGACTTGGGCTCTATGCAATATATAGCAGCCACCTTCATTGCTGGCTACACCAAGCGCAAGTGGGAAAACAATGAGTACTGGCTGGAGAAAGAGAAGACCTACTTGGAGAAGGAGTGCATCCTATGGCTGCAGAGATACTTAACCATGGGAGGAAAGAACTTTACCCGAACTG
Seq A exon
GTAATGACCCCCTCCAAGCCCAGCCCTCCTCCCTGGGGTCAGCAGGGTAAAAGCTCACTCTGTAGTTGGTAGGGAGTTGCGGCAGCCACTCCGGCACAGGAATGTAGGCTATCTGGGTGGGTTCAGTGTGCTGGGGGTAGTTTCCCACAAGCAGATGTGAACTCTTTTGAGTCTCCTAGACCGTGGTCACCTACCACCTCTGAGGTCTCTACTCTCTAAATGTGTCCCAAGGGTACTTGGGTGTGTCTCCTACTTCTGCCTTTTCCACTGGAGACACCTGAGTCTGTCTGTCTGTCTGTCTACGGCAG
Seq C2 exon
ACCCTCCAAAGACAACAGTGACTCATCAGTTCAAACCTAAAGAAAACGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGAGAGGAGCTGACCCAGGACACGGAGCTTGTGGAGACGAGGCCTTCAGGGGATGGGACATTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACATGTCATGTGCAACATGAGGCACTAACGCAGCCCCTTGTTCTGAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053835-H2-T24:NM_008207:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(46.5=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGAGATGCGGTACAACA
R:
GGGTGATGTCAGCAGGGTAGA
Band lengths:
342-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: