MmuALTA1039708-2/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000061232 | H2-K1
Description
histocompatibility 2, K1, K region [Source:MGI Symbol;Acc:MGI:95904]
Coordinates
chr17:33996376-33996654:-
Coord C1 exon
chr17:33996616-33996654
Coord A exon
chr17:33996477-33996503
Coord C2 exon
chr17:33996376-33996476
Length
27 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
TGATGGTTCATGACCCTCATTCTCTAG
Seq C2 exon
CGTGAAGACAGCTGCCTGGAGTGGACTTGGTGACAGACAATGTCTTCTCATATCTCCTGTGACATCCAGAGCCCTCAGTTCTCTTTAGTCAAGTGTCTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061232-18-29,18-28,18-27,18-26-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
GCTCCCAGACCTCTGATCTGT
R:
AACTGAGGGCTCTGGATGTCA
Band lengths:
119-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types