MmuALTA1039523-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000060550 | H2-Q7
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35442678-35442999:+
Coord C1 exon
chr17:35442678-35442794
Coord A exon
chr17:35442952-35442966
Coord C2 exon
chr17:35442967-35442999
Length
15 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCTTCCTTGAACTCTCACAGCTT
3' ss Score
6.29
Exon sequences
Seq C1 exon
AGCCTCCTCCATACACTGTCTCCAACATGGCGACCATTGCTGTTGTGGTTGACCTTGGAGCTGTGGCCATCATTGGAGCTGTGGTGGCTTTTGTGATGAATAGGAGGTGAAACACAG
Seq A exon
CTTTCCTTCTCACAG
Seq C2 exon
GTGGACAAGGAGGGGACTGTGCTCCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550-7-14,7-13,7-12-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF066236=MHC_I_C=FE(78.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
GCTGTTGTGGTTGACCTTGGA
R:
GAGCACAGTCCCCTCCTTGTC
Band lengths:
103-118
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