MmuEX6077619 @ mm9
Exon Skipping
Gene
ENSMUSG00000054128 | H2-T3
Description
histocompatibility 2, T region locus 3 [Source:MGI Symbol;Acc:MGI:95959]
Coordinates
chr17:36324196-36326815:-
Coord C1 exon
chr17:36326546-36326815
Coord A exon
chr17:36326122-36326397
Coord C2 exon
chr17:36324196-36324471
Length
276 bp
Sequences
Splice sites
3' ss Seq
GACTAGGAGAGGGGGGCCAGGCT
3' ss Score
-17.63
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
GCTCACACTCGCTGAGGTACTTCTACACCGCCTTGTCCCGACCTGCAATCAGCGAACCGTGGTACATAGCTGTGGGCTACCTGGATGACACTCAGTTCGTGCGCTTCAACAGCTCAGGGGAGACTGCGACATATAAGCTAAGTGCGCCATGGGTGGAGCAAGAGGGGCCCGAGTATTGGGCGAGAGAGACAGAGATCGTCACAAGCAATGCACAGTTTTTCCGCGAGAATCTGCAGACTATGCTGGACTACTACAACCTGAGTCAAAATG
Seq A exon
GCTCTCACACCATCCAGGTGATGTATGGCTGTGAGGTGGAGTTCTTCGGGAGCCTCTTCCGCGCTTATGAGCAGCATGGCTATGATGGCCGCGATTACATTGCCCTCAATGAAGATCTGAAAACGTGGACAGCAGCAGACACGGCAGCAGAGATCACCAGAAGCAAGTGGGAGCAGGCTGGTTATACAGAGCTCCGTAGGACCTACTTGGAGGGCCCATGCAAGGATTCCCTGCTCAGATACCTGGAGAACAGAAAAAAGACACAGGAGTGCACAG
Seq C2 exon
ATCCTCCAAAAACACACGTGACCCATCACCCCAGACCTGAAGGTTATGTCACCCTGAGATGCTGGGCCCTGCGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAATTGATTCAGGACACGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCGCTTGGGAAGGAGCAGAAATACACATGTCATGTGTACCATGAGGGGCTGCCTGAGCCTCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054128-'1-3,'1-1,2-3=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.043 C2=0.250
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(95.7=98.9),PF107444=Med1=PU(12.4=25.3)
A:
PF0012913=MHC_I=PD(49.2=94.6)
C2:
PF107444=Med1=FE(49.7=100),PF0765410=C1-set=WD(100=90.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTCACAAGCAATGCACAGT
R:
ATTTCTGCTCCTTCCCAAGCG
Band lengths:
297-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: