MmuINT0075673 @ mm9
Intron Retention
Gene
ENSMUSG00000053835 | H2-T24
Description
histocompatibility 2, T region locus 24 [Source:MGI Symbol;Acc:MGI:95958]
Coordinates
chr17:36151502-36152020:-
Coord C1 exon
chr17:36151745-36152020
Coord A exon
chr17:36151642-36151744
Coord C2 exon
chr17:36151502-36151641
Length
103 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
TCTTTCTTTTCCCTTCCCAGAGC
3' ss Score
11.64
Exon sequences
Seq C1 exon
ACCCTCCAAAGACAACAGTGACTCATCAGTTCAAACCTAAAGAAAACGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGAGAGGAGCTGACCCAGGACACGGAGCTTGTGGAGACGAGGCCTTCAGGGGATGGGACATTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACATGTCATGTGCAACATGAGGCACTAACGCAGCCCCTTGTTCTGAAATGGG
Seq A exon
GTAAGGAGAATAGGGGCACAGAGCCTATTGCCAAGGGGTGCAGAAGCCCTTCTGGAGAATGTTCCCAGAGCCAGGGCCCTCCATCTTTCTTTTCCCTTCCCAG
Seq C2 exon
AGCCTCTTCAGCTCACCACGCCCACGACAGGAGTATATGCTAGGGGAAGCTGTAGTCCTCAAGCAACCTTGCTGAGTGTCCTTGCGTTTCCTTTATTTGGCATAGTACTTGTGTTTGGACTTACCCGCTACAAAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053835-H2-T24:NM_008207:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=92.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGGAGAGGAGCTGACCCA
R:
AAACGCAAGGACACTCAGCAA
Band lengths:
256-359
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: