DreEX6014886 @ danRer10
Exon Skipping
Gene
ENSDARG00000074765 | mhc1zja
Description
major histocompatibility complex class I ZJA [Source:ZFIN;Acc:ZDB-GENE-130206-11]
Coordinates
chr3:619838-620873:-
Coord C1 exon
chr3:620586-620873
Coord A exon
chr3:620222-620506
Coord C2 exon
chr3:619838-619963
Length
285 bp
Sequences
Splice sites
3' ss Seq
TCTGATTGCTGTGATTTCAGCTC
3' ss Score
4.15
5' ss Seq
GGGGTAATT
5' ss Score
5.8
Exon sequences
Seq C1 exon
TTCTTCATGTTCTTCAGTGGAGACATGGCTGTGAAGTTGAGAAACAGGGAAATGAACATAGTTTTAACAAATCTATTGATGAGTATGGCTATGATGGAGAAGACTTCCTGTATTATGATGATGCAGAGTCTCGGTGGGTCGCCCCAGTGGAAGAAGCGCTGCCAACCAAGAGAAAATGGGACAATTTGCCCATCCTGAACCAATACACCAAAGACTACCTGGAGAAAGAGTGTGTGGACTGGCTCAACAAATTCAGAGAGTATGCAGATGAAGAGCTCAGAAAAGCCT
Seq A exon
CTCCTCCAGATGTTTTTAAATTGACAAGAAAGTCCACCAAGGATGAAACTAAGCTGAAACTCACCTGTCTGGCCACTGGCTTCTACCCCAACGACGTGATGTTGAACATTAGGAGATATCGCGTATATCTGCCTGAACAAGAGACCATATCTACAGGAGTTCGACCAAACCATGATCAAACCTTCCAGCTGAGCAAGAGTGTGGAGATCAAGGAGGACCAGATAGATAATTATGATTGTTCTGTGTCCCACAGAACCTTCAAACAACCAATTATCATAAAATGGG
Seq C2 exon
ATGGAACAGATTTAGATGGAATATACACCGGCCACCCACCAGAGACTGTCCCAGTTGTGATCGGAAGTGTGCTTATTTTTTTAGCCATTTTAGGCGTAGTGGTTTTTCTGGTGATGAAATGTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074765-'4-5,'4-4,5-5=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=0.021 C2=0.054
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.8)
A:
PF0765410=C1-set=WD(100=87.5)
C2:
PF143161=DUF4381=PU(40.8=93.0)
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGACATGGCTGTGAAGT
R:
GGTGGCCGGTGTATATTCCAT
Band lengths:
308-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]