GgaEX6027997 @ galGal4
Exon Skipping
Gene
ENSGALG00000002559 | HMHA1
Description
minor histocompatibility protein HA-1 [Source:RefSeq peptide;Acc:NP_001026108]
Coordinates
chr28:2845706-2846143:+
Coord C1 exon
chr28:2845706-2845770
Coord A exon
chr28:2845869-2845979
Coord C2 exon
chr28:2846063-2846143
Length
111 bp
Sequences
Splice sites
3' ss Seq
CTGCTTTTGTCGTTCCTCAGACC
3' ss Score
9.76
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
AAATGGAGTTCGCCAAAGGGCTCCAGAAAATGGCAAACAGCTGCAAGCAAACCTTCACGCAGGAG
Seq A exon
ACCAGCATGCCCTTCCTGTCCATCTACCTGCTGGCATTGGAGCAGGACATGGAGTACGGCACGTCGGTCCTGCAGACCGTCACCACGCTGCAGCACCAGACCTTCCTGCAG
Seq C2 exon
CCGCTGACTGTGAGGCGCCTGGAGCACGAGAAGAGAAGGAAGGAGATCAAGGAGCAGTGGCACCGCGCACAGAGGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002559-'10-9,'10-8,11-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=0.000 C2=0.519
Domain overlap (PFAM):
C1:
PF0061118=FCH=FE(23.1=100)
A:
PF0061118=FCH=PD(35.2=86.5)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATGGAGTTCGCCAAAGGG
R:
CAGCTTCCTCTGTGCGCG
Band lengths:
146-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]