MmuALTD1035862-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000079547 | H2-DMb1
Description
histocompatibility 2, class II, locus Mb1 [Source:MGI Symbol;Acc:MGI:95922]
Coordinates
chr17:34157859-34159460:+
Coord C1 exon
chr17:34157859-34158059
Coord A exon
chr17:34158060-34158344
Coord C2 exon
chr17:34159344-34159460
Length
285 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CCTCTTTGATTACTTTGTAGCAC
3' ss Score
5.94
Exon sequences
Seq C1 exon
GCCAGCACTGGGAACTAAAATAAAAAAAAAAAAAGAAGAGGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGAAGAAGAAGACAGAGAGGAAAGGGACAGGCTTTTCTCTTG
Seq A exon
GTACAGGGCTGCACTGAATTTGGGTGGCTTTTTGAGTATAATGGGATCGTGCAGCCATGACTGCAAGACACACTTATGGGCCTGTGAAGGGGCTAATCAATAGGGACCTCACTGAACCCAGGACTAGTTAAAGGTAACATATGTGGTACACACCAGTTTGGAGATGACTGAAAAGAGAGGAAGAAAGAAGAGGAAAGGGCAGCTTGGAAGAGCAGGAAGCAGGGTCCTCAGGCTGCTGAGGCAAGGACTCCTCTGTGGGGAGTGCTGTGTCTGCTGTTGGTTCAA
Seq C2 exon
CACCTGGGCTGTCCCCCATCCAGACAGTGAAGGTCTCTGTGTCTGCAGCCACCCTGGGCCTGGGCTTCATCATCTTCTGTGTTGGCTTCTTCAGATGGCGCAAGTCTCATTCCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079547-16-6,17-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
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:
CCAGCACTGGGAACTAAAATAAA
R:
CGCCATCTGAAGAAGCCAACA
Band lengths:
300-585
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