MmuINT0075537 @ mm9
Intron Retention
Gene
ENSMUSG00000061232 | H2-K1
Description
histocompatibility 2, K1, K region [Source:MGI Symbol;Acc:MGI:95904]
Coordinates
chr17:34133983-34134505:-
Coord C1 exon
chr17:34134230-34134505
Coord A exon
chr17:34134103-34134229
Coord C2 exon
chr17:34133983-34134102
Length
127 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CTTGTACCTGTCCTTCCCAGAGC
3' ss Score
8.31
Exon sequences
Seq C1 exon
ATTCCCCAAAGGCCCATGTGACCCATCACAGCAGACCTGAAGATAAAGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAGCTGATCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGTATTACACATGCCATGTGTACCATCAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
Seq A exon
GTAAGGAGAGTGTGGGTGCAGAGCTGGGGTCAGGGAAAGCTGGAGCTTTCTGCAGACCCTGAGCTGCTCAGGGCTGAGAGCTGGGGTCATGACCCTCACCTTCATTTCTTGTACCTGTCCTTCCCAG
Seq C2 exon
AGCCTCCTCCATCCACTGTCTCCAACATGGCGACCGTTGCTGTTCTGGTTGTCCTTGGAGCTGCAATAGTCACTGGAGCTGTGGTGGCTTTTGTGATGAAGATGAGAAGGAGAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061232-H2-K1:NM_001001892:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(37.5=32.6),PF0765410=C1-set=PD(83.7=89.1),PF0189111=CbiM=FE(35.2=100)
A:
NA
C2:
PF0189111=CbiM=PD(29.7=92.7),PF066236=MHC_I_C=PU(16.7=4.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
TCTACCCTGCTGACATCACCC
R:
AGGACAACCAGAACAGCAACG
Band lengths:
256-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: