HsaINT0076467 @ hg19
Intron Retention
Gene
ENSG00000198502 | HLA-DRB5
Description
major histocompatibility complex, class II, DR beta 5 [Source:HGNC Symbol;Acc:4953]
Coordinates
chr6:32486333-32487428:-
Coord C1 exon
chr6:32487147-32487428
Coord A exon
chr6:32486444-32487146
Coord C2 exon
chr6:32486333-32486443
Length
703 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGC
5' ss Score
2.46
3' ss Seq
AACCTGGTTTCCTCTCCCAGGAG
3' ss Score
8.19
Exon sequences
Seq C1 exon
TTGAGCCTAAGGTGACTGTGTATCCTGCAAGGACCCAGACCCTGCAGCACCACAACCTCCTGGTCTGCTCTGTGAATGGTTTCTATCCAGGCAGCATTGAAGTCAGGTGGTTCCGGAACAGCCAGGAAGAGAAGGCTGGGGTGGTGTCCACAGGCCTGATTCAGAATGGAGACTGGACCTTCCAGACCCTGGTGATGCTGGAAACAGTTCCTCGAAGTGGAGAGGTTTACACCTGCCAAGTGGAGCACCCAAGCGTGACGAGCCCTCTCACAGTGGAATGGA
Seq A exon
GTGAGCAGCTTTCTGACTTCATAAATTTCTCAACCACCAAGAAGCAAACTTTACTAATCCCTGAGTGTCAGGTTTCTCATCTCCCACATCCTATTTTCATTTGCTCCATGTTCTCATCTCCATTAGCACAGGTCACTGGGGGTAGCCCTGTATAGTTTCTAGAAACACCTGTATCCTCTGGGGAAGCAGTCATTCCTGGCAGGAAGGAGAGGCTGTCCCTGTTTTGAACCTCCCCATGATGTCACAGGTCAGGGTCACCCCCTCTCCCAGGGCTCCAGACCCTGCCTCTGGGTCTGAGACTGTGTTTCTGGTGCTGTTGATCTGAGTTATTTGTTGTGATCTGGGAAGAGGAGAAGTGTAGGGGCCTTCCTGACATGAGGGGAGTCCAATATCAGCTCTGCCTTTTATTAGCTCTGTCACTCTAGACAAACTATTTAACCTCATTGAGTCTCAGGCTTTCTGTTTATCAGATGTTGAAGCCGTGCCTTACATCAGGGCTGTAATATTAGAATGAATTTGATCCCTGAAACTTGTAACTGTTCAGTGTGATTTGAAAACCTTTTTTTTCTCCAGAAATGGCTAGTTATTTTAGTTCTTACAGAGCAGCCTTCTTCCCCATTTTCAAAGCTATGAATATTGCAGGGTCTCAATTAAAAAGGTTCAATTTGGGATAAAAATCACTAAACCTGGTTTCCTCTCCCAG
Seq C2 exon
GAGCACAGTCTGAATCTGCACAGAGCAAGATGCTGAGTGGAGTCGGGGGCTTTGTGCTGGGCCTGCTCTTCCTTGGGGCCGGGCTATTCATCTACTTCAAGAATCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198502-HLA-DRB5:NM_002125:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=PU(92.5=90.5)
A:
NA
C2:
PF0765410=C1-set=PD(6.5=15.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGCAAGGACCCAGACC
R:
AGTAGATGAATAGCCCGGCCC
Band lengths:
356-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)