MmuALTA1037368-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000053835 | H2-T24
Description
histocompatibility 2, T region locus 24 [Source:MGI Symbol;Acc:MGI:95958]
Coordinates
chr17:36014800-36015656:-
Coord C1 exon
chr17:36015384-36015656
Coord A exon
chr17:36014969-36015075
Coord C2 exon
chr17:36014800-36014968
Length
107 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
TGTCTGTCTGTCTACGGCAGACC
3' ss Score
8.85
Exon sequences
Seq C1 exon
GCCCTCACACCCTCCAGTTCACATACGGCTGTGAGATGCGGTACAACAGGACCACAGGGCATTGGCAGTATGGCTACGATGGCAGTGATTACCTGACCTTGGACTTGGGCTCTATGCAATATATAGCAGCCACCTTCATTGCTGGCTACACCAAGCGCAAGTGGGAAAACAATGAGTACTGGCTGGAGAAAGAGAAGACCTACTTGGAGAAGGAGTGCATCCTATGGCTGCAGAGATACTTAACCATGGGAGGAAAGAACTTTACCCGAACTG
Seq A exon
ACCCTCCAAAGACAACAGTGACTCATCAGTTCAAACCTAAAGAAAACGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAG
Seq C2 exon
TTGAATGGAGAGGAGCTGACCCAGGACACGGAGCTTGTGGAGACGAGGCCTTCAGGGGATGGGACATTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACATGTCATGTGCAACATGAGGCACTAACGCAGCCCCTTGTTCTGAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053835-5-9,5-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.172
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(46.5=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=92.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGGACTTGGGCTCTATGC
R:
TGGAATGTCCCATCCCCTGAA
Band lengths:
248-355
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