HsaINT1015530 @ hg38
Intron Retention
Gene
ENSG00000234745 | HLA-B
Description
major histocompatibility complex, class I, B [Source:HGNC Symbol;Acc:HGNC:4932]
Coordinates
chr6:31353872-31354526:-
Coord C1 exon
chr6:31354479-31354526
Coord A exon
chr6:31354297-31354478
Coord C2 exon
chr6:31353872-31354296
Length
182 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATGACTGTTGTTTTCTGTAGCCT
3' ss Score
8.36
Exon sequences
Seq C1 exon
GCAGCGACAGTGCCCAGGGCTCTGATGTGTCTCTCACAGCTTGAAAAG
Seq A exon
GTGAGATTCTTGGGGTCTAGAGTGGGTGGGGTGGCGGGTCTGGGGGTGGGTGGGGCAGAGGGGAAAGGCCTGGGTAATGGGGATTCTTTGATTGGGATGTTTCGCGTGTGTGGTGGGCTGTTTAGAGTGTCATCGCTTACCATGACTAACCAGAATTTGTTCATGACTGTTGTTTTCTGTAG
Seq C2 exon
CCTGAGACAGCTGTCTTGTGAGGGACTGAGATGCAGGATTTCTTCACGCCTCCCCTTTGTGACTTCAAGAGCCTCTGGCATCTCTTTCTGCAAAGGCACCTGAATGTGTCTGCGTCCCTGTTAGCATAATGTGAGGAGGTGGAGAGACAGCCCACCCTTGTGTCCACTGTGACCCCTGTTCCCATGCTGACCTGTGTTTCCTCCCCAGTCATCTTTCTTGTTCCAGAGAGGTGGGGCTGGATGTCTCCATCTCTGTCTCAACTTTACGTGCACTGAGCTGCAACTTCTTACTTCCCTACTGAAAATAAGAATCTGAATATAAATTTGTTTTCTCAAATATTTGCTATGAGAGGTTGATGGATTAATTAAATAAGTCAATTCCTGGAATTTGAGAGAGCAAATAAAGACCTGAGAACCTTCCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000234745:ENST00000412585:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.157 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PD(48.1=86.7)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
CCAGGGCTCTGATGTGTCTCT
R:
TGGGGAGGAAACACAGGTCAG
Band lengths:
242-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains