MmuALTD1034977-2/3 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000073409 | H2-Q6
Description
histocompatibility 2, Q region locus 6 [Source:MGI Symbol;Acc:MGI:95935]
Coordinates
chr17:35425645-35430055:+
Coord C1 exon
chr17:35425645-35425746
Coord A exon
chr17:35425747-35425846
Coord C2 exon
chr17:35429000-35430055
Length
100 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
GGGTCTTCATTTTTCTTTAGAGA
3' ss Score
6.58
Exon sequences
Seq C1 exon
TTCGCCTATGAAGGCCGCGATTACATCGCCCTGAACGAAGACCTGAAAACCTGGACGGCGGCGGACATGGCTGCACAGATCACCCTACACAAGTGGGAGCAG
Seq A exon
GCTGGTATTGCAGAGAGAGACCGGGCCTACCTGGAGGGCGCTTGCGTGCAGTCGCTCCGCAGATACCTGCAGCTCCGGAAGGAGACGCTGCTGTGCACAG
Seq C2 exon
AGAACAGTGTCTGATGTTCCCTGTGAGCCTATGGGCTCAATGTGAAGAATTGTGGAGCCCAGCCTTCGCCTACACACCAGGACCCTGTCTCTGCATTGCCCTGTGTTCCCTTCCACCGCCAACCTTCCTGGTCTGCAGTGGAAACTAAGGGTTCTTTGGAAAGTCGGTTGGATGGCGTTGTGCTGGGGCAAACACATGAAGGAGTGTTTCCTTAAAGTGGATACAGGTGTGAAATCCTAAGGCCGACTCCTGAAGGAACATTTCACTGAAGCAGACACAGGAGAGAGGATGTTCTGTTAAACAAGCATGTGAAAGGATGCGTGATGAAGGATTCTTTGCTAAAGACACACTTATATTGGTCTGCCTTACATTGTGTAGTGGAGCTGCATTGGTCGGGGCGCCATAGAGAGAAACGCACCCAAAAATTCTGATAGTATTCTGCAGTTGATGCTTCCAAGGACATGAGCTTATTGGATGCCTGTGCTGAGGCAAGACGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073409-3-12,5-12,6-12-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
NA
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGAACGAAGACCTGAAA
R:
GCCATCCAACCGACTTTCCAA
Band lengths:
251-351
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