MmuINT0075538 @ mm9
Intron Retention
Gene
ENSMUSG00000061232 | H2-K1
Description
histocompatibility 2, K1, K region [Source:MGI Symbol;Acc:MGI:95904]
Coordinates
chr17:34133772-34134102:-
Coord C1 exon
chr17:34133983-34134102
Coord A exon
chr17:34133805-34133982
Coord C2 exon
chr17:34133772-34133804
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CACAGCTTTTCTTCTCACAGGTG
3' ss Score
9.69
Exon sequences
Seq C1 exon
AGCCTCCTCCATCCACTGTCTCCAACATGGCGACCGTTGCTGTTCTGGTTGTCCTTGGAGCTGCAATAGTCACTGGAGCTGTGGTGGCTTTTGTGATGAAGATGAGAAGGAGAAACACAG
Seq A exon
GTAGGAAAGGGCAGAGTCTGAGTTTTCTCTCAGCCTCCTTTAGAGTGTGCTCTGCTCATCAATGGGGAACACAGGCACACCCCACATTGCTACTGTCTCTAACTGGGTCTGCTGTCAGTTCTGGGAACTTCCTAGTGTCAAGATCTTCCTGGAACTCTCACAGCTTTTCTTCTCACAG
Seq C2 exon
GTGGAAAAGGAGGGGACTATGCTCTGGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061232-H2-K1:NM_001001892:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.650
Domain overlap (PFAM):
C1:
PF0189111=CbiM=PD(29.7=92.7),PF066236=MHC_I_C=PU(16.7=4.9)
A:
NA
C2:
PF066236=MHC_I_C=FE(42.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
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:
CCTCCTCCATCCACTGTCTCC
R:
GAGCCAGAGCATAGTCCCCTC
Band lengths:
148-326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: