HsaINT0076466 @ hg19
Intron Retention
Gene
ENSG00000198502 | HLA-DRB5
Description
major histocompatibility complex, class II, DR beta 5 [Source:HGNC Symbol;Acc:4953]
Coordinates
chr6:32487147-32489951:-
Coord C1 exon
chr6:32489682-32489951
Coord A exon
chr6:32487429-32489681
Coord C2 exon
chr6:32487147-32487428
Length
2253 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTACATTTCCTTTCTCCTAGTTG
3' ss Score
7.05
Exon sequences
Seq C1 exon
CACGTTTCTTGCAGCAGGATAAGTATGAGTGTCATTTCTTCAACGGGACGGAGCGGGTGCGGTTCCTGCACAGAGACATCTATAACCAAGAGGAGGACTTGCGCTTCGACAGCGACGTGGGGGAGTACCGGGCGGTGACGGAGCTGGGGCGGCCTGACGCTGAGTACTGGAACAGCCAGAAGGACTTCCTGGAAGACAGGCGCGCCGCGGTGGACACCTACTGCAGACACAACTACGGGGTTGGTGAGAGCTTCACAGTGCAGCGGCGAG
Seq A exon
GTGAGCATGGTGGGGGGCGGGGCCTGGGTCCTTGTGAGCTGGGAATCTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGGAAGAGAGAGACAGAGAGGGAGCGCGCCATCTGTGAGCATTTAGAATCCTCTCAATCTTGAGCAAGGACTTCTGAGGACACAGGTGTGTGTGTAGAGTGTGGATTTGTCTTTGTGGCCTTTGTGGGAGGGGAAGCAGGAGGGGGCTTCTTCTTATCCTTGGAGGCCTCTGTGGGGAGGTGACATGGGAGGTGGGTGCAGGGGGCTGGAGAGAGAGGAGACCTTGGTTGTCTCGTGTCCTTAGAGATGCAGGGAAGGAAAGTGTAAGGTGTGTGTGGTTGGGGTGAAGGTTTAGGGGAGGAGAGCTGAGGGGTGTGGAAGATTTGTGATAATATGAGGAGGCCAGTTCCAGACTGTCCCTGGCACCCACCCTTCACGCAGTCTCTGAAATAAAAGTGTGTGGTGTTTGTTTGCAAAAGCATTAGATTAATTTCTAGGGGAATTGAGGAGACCTCTGAGGCACTTCTGAAGCTTCTTTAGGTCTAAATTTCTTGCTATTTTTTCTGTTTGTTTTCTTAGTGTGTATATTTTTACATAGTTGAAATGACTGTGAAACTAACTTTTTGATTAAAATTTTAATACACTGTTACTATTTTATTATAATGCTAATAGTTTTCTACTACTTACCTATTATTCTTTTATATATAATAGTTGTGACACAACTTATCTCACTTTCCCCTTTGTTGACCTTTATTATGACATTCACCAAAAGTTGAAAATATATGTTTCTGGTTATTATTTAATTTATTTTTTTATTTGGAATTCTTTTGAATTATCTTGACCTATTTATTGCCCAATTATAATTACTGCTCTAAGAATTCCCTATTGTATTTGGTAGGTAATGGACAATGATCTATTTTCTGTTATCTCCAGGGCTTAGTATTTTTCTCAGTGATTTTGTGGGTTCTTTGTACTGTAAGATTATTAACACTTTATTGATATTTGATTCCACATTTTCTCCAGTTTTTGATTTGTATGTTGATTTTGAAAATTCTATGTTAAGAATTTGAACATTTCTGTTTAATAAAATATATTCCAAAACTTTTATTAATGGTTTACAAACCATCTTAAATCTATCATTTTGTGGTATTTTTGTCTCCAGGTTTCTCCTTCCTTCTTAAAAAAAATGTATTTATTGAGAGTCTGCTAGTGTTAGGGATTTTCCTAGGCATAAGCACCCCAAGTAATGAGTCCCAGACCCTGCCTGCCTTGATCCAAATGTCATTCTGGAAAGAAAAATTATTTTACAATGATAGTATAATAATAGTTATGCTTGTTTGCATGGGAGATGCATTGATCAGCTAAATGTAAATGTAAGAATTTTCAAAACTAAAATAACTTTCCTTAATCCTTCTCTCTGCTTTATGACTCATGCTTTGCTGGGAACTTAAAGATTGGAGAACCATTTCTGTCTGTCCTACCTTCCCAGGGGCACAACCATTTCTGTGTTGTTCTAAGGTGTGAGTGCATGGCAGTAGTATTCCTAAACATTCATACTCAGTCTCCTTTTGTACCCTACTCGGTCCCTTTATCTATCCACATTACTTTAAATCATATTTTTCTCTCAAACTGTACAAGGATGATAAATAGGTGGCAAGTGGAACACCCAAGTGTGATGAGCCCTCTCACAGTGGAATGGAGTGAGAAGCTTTATGACCTCATAAATTAAAGGCTATCTTCAGTCATTGTTTTATATATTTTATGTGCATTAATCCTCATATAACCCCAAGAGGTAAATTACTATAATTATCCTCTATTATGGGTGAGAAAGTTGAGACACAGAAGAATCGAAAAACTCTTCCAGCATCAACCAGTAAAAGGCAGACCTTGGATTTGAGCCAGGCAACCTGGCTCAGGTATCAGTTTTAATTACTACACTCTGTACTTTCAAAGACTTGTAAACACTTTGACAATGCATCCCAATTTCAAGTGATGAAGAAACAAACACAATTTTTCACATCTCTCAAATCTGATGAGCCCCCACTATAAAGACTAAATTCCAGGCTGATGACACTGTGAGGCCTCATGGCCAGCTGTGCTGGAGGCCTGGTCAAGGCCAGAGCCTGGGTTTACAGAGAAGCAGACAAACAGCCAAAAAGGGAGATTCACTCTGTCTTCCTGAGTCATTCCCTCTACATTTCCTTTCTCCTAG
Seq C2 exon
TTGAGCCTAAGGTGACTGTGTATCCTGCAAGGACCCAGACCCTGCAGCACCACAACCTCCTGGTCTGCTCTGTGAATGGTTTCTATCCAGGCAGCATTGAAGTCAGGTGGTTCCGGAACAGCCAGGAAGAGAAGGCTGGGGTGGTGTCCACAGGCCTGATTCAGAATGGAGACTGGACCTTCCAGACCCTGGTGATGCTGGAAACAGTTCCTCGAAGTGGAGAGGTTTACACCTGCCAAGTGGAGCACCCAAGCGTGACGAGCCCTCTCACAGTGGAATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198502-HLA-DRB5:NM_002125:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0096914=MHC_II_beta=WD(100=82.4)
A:
NA
C2:
PF0765410=C1-set=PU(92.5=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Pre-implantation embryo development
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)