DreEX6071834 @ danRer10
Exon Skipping
Gene
ENSDARG00000075963 | mhc1uba
Description
major histocompatibility complex class I UBA [Source:ZFIN;Acc:ZDB-GENE-990415-145]
Coordinates
chr19:7178393-7180592:+
Coord C1 exon
chr19:7178393-7178668
Coord A exon
chr19:7179979-7180272
Coord C2 exon
chr19:7180494-7180592
Length
294 bp
Sequences
Splice sites
3' ss Seq
AGCCTGTCTCTCTCTCTCAGTCT
3' ss Score
8.95
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
Exon sequences
Seq C1 exon
GTGTTCACACCTTCCAGTTCATGTACGGCTGTGAGATGGATGATGATGGCAACAAACAAGTACATTGGCAGATTGGCTATGATGGAGAGGACTTCATCAGTTTGGATAAAAAAACGCTCACCTGGACTGCTGCTAATTCTCAAGCTATGACTACCAAGGTTAAATGGGATTCCACTGGAGCAGAGGCAAATTACTGGAAAGGATATCTGGAGAATGAATGCATTGAGTGGGTGCAGAAGTATGTGGGCTATGGGAAGGACACTTTGGAGAGAAAAG
Seq A exon
TCTCTCCTCAGGTGTCTCTGCTGCAGAAATCTTCTTCTTCTCCAGTCGTGTGTCATGTTACAGGCTTTTACCCCAGTGGTTTAAAGATCTCCTGGCAGAGAAACGGACAAGATCATGATGAGGATGTGGAGCTTGGTGAACTTATCCCAAATGAGGACGGAACCTACCAGAGAACGAGCACTCTGAATGTTAAACCTGAAGAGTGGAAGAAGGACAAGTTCAGCTGTGTGGTGGAGCATCAGAGCAAAACTATCAACAGTATTCTCACTGAAGACGAAATCAGAACTAACAATC
Seq C2 exon
CTACTGCCCCCCTTGGCATCATAATTGGCATTGTAGTCGCAGCTGTTCTGCTGGTAGCCATTGCTGTTGCTGGGTTTGTGGTCTATCGAAGACACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075963-'6-9,'6-7,8-9=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=0.263 C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
PF0765410=C1-set=WD(100=87.9)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTTCATGTACGGCTGTGA
R:
AGCTGCGACTACAATGCCAAT
Band lengths:
307-601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]