MmuINT0075540 @ mm9
Intron Retention
Gene
ENSMUSG00000061232 | H2-K1
Description
histocompatibility 2, K1, K region [Source:MGI Symbol;Acc:MGI:95904]
Coordinates
chr17:34132957-34133599:-
Coord C1 exon
chr17:34133561-34133599
Coord A exon
chr17:34133449-34133560
Coord C2 exon
chr17:34132957-34133448
Length
112 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACA
5' ss Score
5.19
3' ss Seq
TTCGAATGTTGTCTTCACAGTGA
3' ss Score
6.1
Exon sequences
Seq C1 exon
GCTCCCAGACCTCTGATCTGTCTCTCCCAGATTGTAAAG
Seq A exon
GTGACACTCTAGGGTCTGATTGGGGAGGGGCAATGTGGACATGATTGGGTTTCAGGAACTCCCAGAATCCCCTGTGAGTGAGTGATGGGTTGTTCGAATGTTGTCTTCACAG
Seq C2 exon
TGATGGTTCATGACCCTCATTCTCTAGCGTGAAGACAGCTGCCTGGAGTGGACTTGGTGACAGACAATGTCTTCTCATATCTCCTGTGACATCCAGAGCCCTCAGTTCTCTTTAGTCAAGTGTCTGATGTTCCCTGTGAGCCTATGGACTCAATGTGAAGAACTGTGGAGCCCAGTCCACCCCTCTACACCAGGACCCTGTCCCTGCACTGCTCTGTCTTCCCTTCCACAGCCAACCTTGCTGGTTCAGCCAAACACTGAGGGACATCTGTAGCCTGTCAGCTCCATGCTACCCTGACCTGCAACTCCTCACTTCCACACTGAGAATAATAATTTGAATGTAACCTTGATTGTTATCATCTTGACCTAGGGCTGATTTCTTGTTAATTTCATGGATTGAGAATGCTTAGAGGTTTTGTTTGTTTGTTTGATTGATTTGTTTTTTTGAAGAAATAAATGATAGATGAATAAACTTCCAGAATCTGGGTCACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061232-H2-K1:NM_001001892:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PD(46.2=85.7)
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCTGATCTGTCTCTCCCAG
R:
GAAGGGAAGACAGAGCAGTGC
Band lengths:
257-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: