HsaALTA1056077-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000204642 | HLA-F
Description
major histocompatibility complex, class I, F [Source:HGNC Symbol;Acc:HGNC:4963]
Coordinates
chr6:29725031-29725563:+
Coord C1 exon
chr6:29725031-29725306
Coord A exon
chr6:29725454-29725509
Coord C2 exon
chr6:29725510-29725563
Length
56 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCCT
5' ss Score
0.89
3' ss Seq
CTTCCTTTCCCAGAGCAGTCTCC
3' ss Score
-33.9
Exon sequences
Seq C1 exon
ATCCTCCAAAGGCACACGTTGCCCACCACCCCATCTCTGACCATGAGGCCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCGGAGATCACGCTGACCTGGCAGCGGGATGGGGAGGAACAGACCCAGGACACAGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCCGCTGTGGTGGTGCCTCCTGGAGAGGAACAGAGATACACATGCCATGTGCAGCACGAGGGGCTGCCCCAGCCCCTCATCCTGAGATGGG
Seq A exon
TCCCCAGCCCACCATCCCCATCGTGGGCATCGTTGCTGGCCTTGTTGTCCTTGGAG
Seq C2 exon
CTGTGGTCACTGGAGCTGTGGTCGCTGCTGTGATGTGGAGGAAGAAGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204642-1-26,1-25,1-24-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.339 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=90.3)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTTCCAGAAGTGGGCC
R:
CTCCACATCACAGCAGCGAC
Band lengths:
148-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains