HsaINT1015527 @ hg38
Intron Retention
Gene
ENSG00000234745 | HLA-B
Description
major histocompatibility complex, class I, B [Source:HGNC Symbol;Acc:HGNC:4932]
Coordinates
chr6:31355107-31355592:-
Coord C1 exon
chr6:31355317-31355592
Coord A exon
chr6:31355224-31355316
Coord C2 exon
chr6:31355107-31355223
Length
93 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
ATCTTCCCCTCCTTTCCCAGAGC
3' ss Score
10.55
Exon sequences
Seq C1 exon
ACCCCCCAAAGACACACGTGACCCACCACCCCATCTCTGACCATGAGGCCACCCTGAGGTGCTGGGCCCTGGGTTTCTACCCTGCGGAGATCACACTGACCTGGCAGCGGGATGGCGAGGACCAAACTCAGGACACTGAGCTTGTGGAGACCAGACCAGCAGGAGATAGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAAGAGCAGAGATACACATGCCATGTACAGCATGAGGGGCTGCCGAAGCCCCTCACCCTGAGATGGG
Seq A exon
GTAAGGAGGGGGATGAGGGGTCATATCTCTTCTCAGGGAAAGCAGGAGCCCTTCAGCAGGGTCAGGGCCCCTCATCTTCCCCTCCTTTCCCAG
Seq C2 exon
AGCCGTCTTCCCAGTCCACCGTCCCCATCGTGGGCATTGTTGCTGGCCTGGCTGTCCTAGCAGTTGTGGTCATCGGAGCTGTGGTCGCTGCTGTGATGTGTAGGAGGAAGAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000234745:ENST00000412585:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.359 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=86.7),PF066236=MHC_I_C=PU(9.1=6.7)
A:
NA
C2:
PF066236=MHC_I_C=PU(14.3=5.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
GAACCTTCCAGAAGTGGGCAG
R:
CGATGACCACAACTGCTAGGAC
Band lengths:
183-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains