HsaEX6091461 @ hg19
Exon Skipping
Gene
ENSG00000180448 | HMHA1
Description
histocompatibility (minor) HA-1 [Source:HGNC Symbol;Acc:17102]
Coordinates
chr19:1080463-1081063:+
Coord C1 exon
chr19:1080463-1080546
Coord A exon
chr19:1080681-1080785
Coord C2 exon
chr19:1080891-1081063
Length
105 bp
Sequences
Splice sites
3' ss Seq
CAGTCCTGATTCCCGCCCAGGGG
3' ss Score
3.57
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
Exon sequences
Seq C1 exon
CCGGGCGAGGACACCAGGTTCACAAGTCATGGCCGCTCTCGATCTCAGACTCGGACAGTGGGCTGGACCCCGGCCCTGGCGCAG
Seq A exon
GGGACTTTAAGAAGTTCGAGCGGACGTCATCCAGTGGTACCATGTCGTCCACGGAGGAGCTGGTGGACCCAGACGGTGGAGCCGGGGCTTCAGCCTTTGAGCAGG
Seq C2 exon
CTGACCTCAACGGCATGACCCCCGAGCTGCCGGTGGCCGTGCCCAGTGGACCGTTCCGCCACGAGGGGCTGTCCAAGGCGGCCCGTACTCACCGGCTCCGGAAGCTCCGCACGCCCGCCAAGTGCCGCGAGTGCAACAGCTACGTCTACTTCCAGGGTGCTGAGTGTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180448-'16-17,'16-16,17-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.517
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0013017=C1_1=PU(57.1=48.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGACACCAGGTTCACAAG
R:
ACACTCAGCACCCTGGAAGTA
Band lengths:
246-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)