HsaINT0076461 @ hg19
Intron Retention
Gene
ENSG00000228080 | HLA-DRB1
Description
major histocompatibility complex, class II, DR beta 1 [Source:HGNC Symbol;Acc:4948]
Coordinates
chr6:32549334-32552155:-
Coord C1 exon
chr6:32551886-32552155
Coord A exon
chr6:32549616-32551885
Coord C2 exon
chr6:32549334-32549615
Length
2270 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTACGTTGTTTTTCTCCTAGTCC
3' ss Score
7.44
Exon sequences
Seq C1 exon
CACGTTTCCTGTGGCAGCCTAAGAGGGAGTGTCATTTCTTCAATGGGACGGAGCGGGTGCGGTTCCTGGACAGATACTTCTATAACCAGGAGGAGTCCGTGCGCTTCGACAGCGACGTGGGGGAGTTCCGGGCGGTGACGGAGCTGGGGCGGCCTGACGCTGAGTACTGGAACAGCCAGAAGGACATCCTGGAGCAGGCGCGGGCCGCGGTGGACACCTACTGCAGACACAACTACGGGGTTGTGGAGAGCTTCACAGTGCAGCGGCGAG
Seq A exon
GTGAGCATGGCCGCGGGCGGGGCCTGAGTCCCCGTGAGCTGGGAATCTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGACAGAGAGAGACAGAGAGAGGAAGAGAGAGAGAGAGCGCCATCTGTGAGCATTTAGAATCCTCTCAGTCCGGAGCAAGCAGTTCTGAGAGCACAGGTGTGTGTGTAAAGTGTGGATTTGTCTGTGTCTGTGTGTCTGTTGTGGGAGGGGAGGCAGGAGGGGGCTGTTTCTTATCCTTGGAGACCTCTGTGGGGAGGTGACAAGGGAGGTGGGTGCTGGGGGCTGGAGAGAGAGGAGACCTTGATTATCTCGGTCCTTAGAGATGCAGGGAAGGGAAATGTAAGGTGTGTGTGGTTGGGGTGAAGGTTTAGGGGAGGACTGCTGAGGGGTAAGGCAGGTTTGGGATAATGTGAGGAGGCCAGTTCCAGACTCTCCCTGGCATACACCCTTCGTGTAATCTCTGAATTAAAAGTGTGTGCTGTTTGTTTGTAAAAGCAATAGATTAATTTCTAGAGGAACTGAGTAGACCTCTGAGGCACCTCTGAAGCTTCTTTAGATCTAAATTTCTTCCTAGTTTTTTGTTTTTTTCAGTGTGTATATTTTTACATAGTAGAAATGACTGTGAAACTAACTTTTTGAATTAAAGTTTTGACACGGTTACTATTTTATTATAATGCTGGTAGTTTTCTAGTAGTTACATATTATTCTTTTATATATAATATTTGTGACACAACTCACCTCACTTTCCCGTTTGTTGACCTTTATTATGACATTCACCAGAAGTTGAAATTGTGTGTTTCTGGTTAATTTTTAATTTATATTTTTTATTTGTAATTCCTTTGAATTATTTTGCCCTATTTATTGGCCGATTATAATTATTGCTCTAAGAATTCCCTATTGTATTTGGTAGGTAATGGACAATGATCTACGGTCTAATATCTTGAGGGCTTAGTATTTTTCTCAGTGACTTTCTGCGTTCTTTGTACTATAAGATTATTAACACTTTATTGATATTTGATCCAGCATTTGCTCCAGTTTGTGGTTTGTATGTGGATTTTGAAAATTCTTTTCCATGTTAAGAATTTGAACATTTTTATTTAATAAAATATATTGCAACATTTTTATTAATGATCTACAATCCATCTGAAATCTGCCATTTTGTGGCATTGTTGTCTCCAGGTTTCTCCTTACTTCTAAAAAAATAGTTGTATTTATTGAGAGTATGCTAGTGTCGGGGATTTTCCTGGGCATAAGCACCCCAAGTAACGAGTCCCAGACACTGCCTTAATCCAAATGTGATTCTGGAAAGAAAAATCATTTTACAATGATAGGCCTAATAATAATTATGCTTGTGTTGCACGGGAGATGCATTGATCAGCTAAATGTAAATATAAGAACTTTCAAAACTTAAATGACGTTCCCTAATCCTTCTCTCTGCTTCAGGACTCATGCTTTTCTAGGAAAGTAAAAATTTGGAGAATCATTTCTGTCTGTCCCACCTTCCCAGGGGCAGAACAATTTCTGTTGTGTTCTAAGGTGTGAGTGCATGGGAGTAGTATTCCTAAAATTCATACTTGGTTTCCTCATGTACCCAACTCTGTCCCTTTATCTATGCATATTGCTTTAAATCATATTTTTCTGTCAAGGTGTACAAGGATGATAAATAGGTGCCAAGTGGAGCACTCAAGTGTGATGAGTGCCCTCACAGTGGAATGGAGTGAGAAGCTTTCTGACCTCATAAACTGAAGGCTATCTTCAGTCATTGTTTTATATATTTTACGTGCATTAATCCTCATATAACCCCAAGAGGTAAATTAGTATAATTATCCTTCATTGTAGGTGACAAAGTTGAGACACAGAAGAATCAAAAAACTCTTCCAGGATCAACCAGTAAAAGGCAGACCTTGGATTCGAACCAGGCAACCTGGCTCAAATATCAGTTTTAATTACTACACTCTGTACTTTCCAAGATTTGTAAACAGTTTGACAATGCATGCCGATTTAAAACTATGAAGAAACAAACACAATTTTTCACAACACCTCTCAAATCTAATGGGTCCTCACTGTCAAGATTAAATTCCAGGCTGATGACACTGTAAGGTCACATGGCCAGCTGTGCTATAGGCCTGGTCAAGGCCAGAGCCTGGGTTTGCAGAGAAGCAGACACACAGCCAAACCAGGAGACTTACTCTGTCTTCCTGACTCATTCCCTCTACGTTGTTTTTCTCCTAG
Seq C2 exon
TCCAACCTAAGGTGACTGTATATCCTTCAAAGACCCAGCCCCTGCAGCACCACAACCTCCTGGTCTGCTCTGTGAGTGGTTTCTATCCAGGCAGCATTGAAGTCAGGTGGTTCCTGAACGGCCAGGAAGAGAAGGCTGGGATGGTGTCCACAGGCCTGATCCAGAATGGAGACTGGACCTTCCAGACCCTGGTGATGCTGGAAACAGTTCCTCGAAGTGGAGAGGTTTACACCTGCCAAGTGGAGCACCCAAGCGTGACAAGCCCTCTCACAGTGGAATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000228080-HLA-DRB1:NM_002124:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
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]
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)