HsaINT1015536 @ hg38
Intron Retention
Gene
ENSG00000204525 | HLA-C
Description
major histocompatibility complex, class I, C [Source:HGNC Symbol;Acc:HGNC:4933]
Coordinates
chr6:31269338-31269525:-
Coord C1 exon
chr6:31269493-31269525
Coord A exon
chr6:31269386-31269492
Coord C2 exon
chr6:31269338-31269385
Length
107 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
TTTTTTTTGTTCTACCCCAGGCA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GTGGAAAAGGAGGGAGCTGCTCTCAGGCTGCGT
Seq A exon
GTAAGTGATGGCGGCGGGCGTGTGGAGGAGCTCACCTACTCCATAATTCCTCTTGTCCCACATCTCCTGCGGGCTCTGACCAGGTCTTTTTTTTTGTTCTACCCCAG
Seq C2 exon
GCAGCAACAGTGCCCAGGGCTCTGATGAGTCTCTCATCACTTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204525:ENST00000376228:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126692=P12=FE(27.4=100),PF066236=MHC_I_C=PU(44.8=72.2)
A:
NA
C2:
PF126692=P12=PD(25.0=82.4),PF066236=MHC_I_C=PD(51.7=88.2)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains