HsaINT0076460 @ hg19
Intron Retention
Gene
ENSG00000228080 | HLA-DRB1
Description
major histocompatibility complex, class II, DR beta 1 [Source:HGNC Symbol;Acc:4948]
Coordinates
chr6:32551886-32557562:-
Coord C1 exon
chr6:32557420-32557562
Coord A exon
chr6:32552156-32557419
Coord C2 exon
chr6:32551886-32552155
Length
5264 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GATGGTTCGTGTCCCCACAGCAC
3' ss Score
8.57
Exon sequences
Seq C1 exon
CTTGCCTGCTTCTCTGGCCCCTGGTCCTGTCCTGTTCTCCAGCATGGTGTGTCTGAAGCTCCCTGGAGGCTCCTGCATGACAGCGCTGACAGTGACACTGATGGTGCTGAGCTCCCCACTGGCTTTGTCTGGGGACACCCGAC
Seq A exon
GTAAGTGCACATTGCGGGTGCTGAGCTACTATGGGGTGGGGAAAATAGGGAGTTTTGTTAACATTGTGCCCAGGCCATGTCCCTTAAGAAATTGTGACGTTTTCTTCAGAGATTGCCCATCTTTATCATTGGATCCCAAATTATTTCCTCCATAAAAGGAGCTTGGGTACTTGCCCTCTTCATGAGACTTGTGTAAGGGGCCTTTGCACAAATCATTTCTTTTCAAATCTCCACCAATAAAACCTTTGCATCACATGTCCTCAGGGTCTTTAGAGGATTTAGAAATAAGGATTCTAAAATAAATTCCCCATACAGCACTTCCCTTTATTATGTTGACTTATGTCAGACAAAAGGAGGTTCTTACTGAAAATTTTGTGGGAGTCAAGGGAATTCAAAGGGTCTCTCCTAGACGATCCAGTGTTAGGTTCCCCACAGGACCTTTGGTGTTGGCCATAGTCCTCATATGTGAGGATGGACCCAGTGGCCTCCCCATTATCTCCTTTCTTTTCTTGCTGAACTCCAATGTTTATAAGGCCTGTATCCCTGTAGTGTATGTAGGTTCTCTGACAGAAGTTATACTTAGTGCTCTTCCTTTCTTGTGGGGAAAAGTCCCTGGAACTGAAGCTGAGATTGTTAATACTTGGAGTCACCTTACAGATACAGAGCATTTATGAGGTATTCTTTGGTGCCTAAAGAACTTAAGGCATCCTCTGAAAAACTAGCCCAGGTTCGTGTTCATTATGAATCTTTTTTAACCTTTCTGTACTTGTTTCTCTTGCATCTCCTATGTGCTCTAACTAGACATGACAGAAGAGATTTAACTAATGTATAAATTATATGAAATTCTATTTTTTAAGTCAAAAATAATCAACTATCAGAAATTTAATAATGTTCAAACTATATACTCTGTGTGGGGTTACCGAGATGATGTGAACATTGTTCACGTCTCATAGGGCTGAAAGTCAATGGGCAAGTCTTGGGAACTCATTGTCTTACTGGGGTCTTGTCCTAAATTTCCTAGGTTCACCCATCATGCCCTCAGCTTTCCTTAACTAGCCATGTCTGCTTACCTCTTCCTCCAGTTTCTATTTTTCCCCAGCTATGTTGTCATCATTTCCAGAAATCTCTAAAGCTTGCACAGAACCTTAGCACTATGAGATTCATTGAAAGAGACTTTTTTTCTCTTTTTGAGGTAGGGCCTGGCTCTGTCACCCAGTCTATAGCTCAGTGGTGTGATCGAGGCTCACTGCAACCTCTGCCACTTATGCTCAAGTGATCCTCCCTCCTCAGGCTCCAGAGTAGCTGGGAATACAGGCAGGCAACCACGCCCAGCTAATTTTTGTAATTTTGGTAGACATGAGATTTTGCCATGTTGCCCAGGCTGGTCTTGAACTGCTGGACTCAAGCAATCCTCCTGCCTTGGCCTCCCAACATGCTAGGATTATAGATGTGAGACACTGTGCCCAGGCAAAAGAGATGACTCTTAATAAAAAAATTTCCTTTTTCTTAAATCACTGTTTCTTTATCTGTGAATTCTTCTTCCAACTAGAAGGAGGAGAAAAAAGAAGTTTGCCTGTATTTATCACTGGGAGGAGAAGGGGTCTAGTGTGACATTAAAATGAAAGAGTGCTGGAGCTTGAGCCCCTTCTTGCTTTCCAGGATCCCTACAGTGATCAGTTCCCATACCCTGGTTTATTCATGTAAACCACACTTATTTTTCTCAGCAGCTACTCTTTACTGGGCTCCATTCTAGGTTCAAATCATTCTATTTGATTAAGTTAGAGAGCGTCCCTACTCTCATGGAAGTTACACAAGAGTAGAGGAGACAGACACTAACCCAATAAGCATTTAACAAAGAAGATAATGTTAGAGAGTCATAGTGCACTGAAGAAAAGACATCAGGTTTGTGAAAAAGAGAGACATGGATTCACCTACTTTAGTTCATATGTTAGGGAGCTCCACCTGAGAAAGTGACATTCAGCTGAGACAACAAAATAAGTAGACAGTCGTGAAGATCTAAGGGATGAAAGTTCCAGGGAGACCGAATCGGGGGAAAGCCCTGATGTGTTAAATTATGTGGAGGGAGAGAAAGAAAGCTAGAGGGGCTGATGTATAGAAAGCAAGGAAATGGAGAGGCAGAAGATGAGGGTAGGACACAGAGAGGAATTCAGGAGCCTCATCATTATAGGCTCTGATGTCCACAGTAAAAAAAAATTAAATTTTATTATTTATTTATTTGTTTGTTTATTTTATTTTATTTTGTGATGGAGTCTCTCTCTGTTGCCCAGGCTAGATTGCTGTGGCACAATCTCGGCTCACTGCAACCTCCGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGATTAGCTGGGGCCACAGGCGCATGCCACCACACCTGGCTAATTTTTTGTATTTTTAGTAGGGATAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCGCCCGGCCTATATTCAATGTTTAAAACTAATTCTAGCTACTCTGTGGGGATTGGATTGTTGGGGTTCACTAGTGGTTAGGAAGACTATTTAGGAGCACAGCAGGGAATTCTTCAGGGAAAACAGGTTTGTGGCTTCATGGAGTGCATTAGTGATAAAGATGGTGAAAAAGATAAAGTGGACAGACTTGGCATGTATTTTTGCTTAGCTTGTTAATGAATTACTGTAAAGGGGGTAGAACAATCAAGCTTATTCCTAAGGATTTTCTTTTGACAAATAAATGGGTGGTAGTGTTGTTTATTGAGATAGGAAAAACTATGGGAGGAAATGATTTGAAGTGGGTGGTTTGAAATAAAAGTTTTGTTTAAATATGAGATGATTGATTGACATTTATGTGGAGAAATCCGAAGGTCAATGGCATTTAAGAGACTCATGGTGAGGCCAGGGCTTCAGGTATTTATGTTGGCAGCAGCAATACGTGTAGTGTGTTAAATTCCAGGGCGTGGAAGAGGATACATAGGGAGATGGATTGTGTGAAGAAAAAAGAACAGGGCACAGGCCAGCAAAGGGGGCTGAGAAAGAGCCCAAGGATGCTGGAGAAAAACCAAGAGAACATCATGTGTGTAAGTCCAGGAAAATAGATTATTTTCAAGGAGAAGGGAGAGGCCAATTGTGGTGAGTACCACTAAGAGGAGGGGCAAGTGAGAATATGATAGAGAAGCAAGTGCTGGGTTTGGTGGAGTCGATATTTGCAGTCAATGGAGCATCCAGGTAGGAAACTGGATTGGACCATTTGAAGAGTGAGTAAAAGTGAGGACGAGGTTAAGGTTGACTGTTTTGAGTAGAGAGCTTCAGGGAAGGATTGTTCTCTGGGTTCAGGGAGCCAGCTGAACCTAAAGGAAAAGGCTAAAGAAGCTGAAGAGAAGGAGGAGGACCTGTGAACCAGAGATGCTCAGTCATTATTAGCGAGGAAATACGGAGAGCCCCTGTGTGCAGTGGTGACTACTCATGCAAAATGTCACACAGCCAATATTTAACACAGCCAGTATTTCACACAGCCAATATTTATTAGTGACATAGCATATACCAGTTATTACTCTAGGTCATGAGAATGGAGTGATAAATAAAATGAATCCAGTCGCCATCACTATATGCCATGTAACATTTTGCAATGACTGTGTATCAGGCCTATGAATTTCAGTATTCAATTTCAATAATGATCCTGTTGTATCTGTGGTATTTAAAAACATATACATCTCTGGAATCTAAAATTGAGAGGTTATAAGTAACACCCAGTATTACAAATTTAGTGCTGGAAATCAGATTGCAGTTTAAATCTGAGCATATAGAAAGTCCGTTTCTTCTATGTCAGCAGATGCTTTTTGTGTGAGGTTTAGGTATACTGCATTATTTGACATAAACCAGTGTTTCTGCCCTATGTCTTCAGAATGACAATTCTTTATGAAACTAATAGAAGAACAGAAGACAATTGCAAAATCATGATGAAGATACTAATTGCTTTAGAATTAAGGAATACAAAAAATAATATGAGCTGCAGTTATAGGATCAGAAAAGTTAAAATGGGAATGTATTCGAGTGTTTATTATGTGATCAGTGCTAAGAAGTGTCATCATTTAATTTTACACTTAACGGTAATCCTGTGAGGATTACGCTATTATTAAATGCATTTGATAGATTACAAAAAGGCTTATGGTTGGTAAAAATTGACCCAAGTAGAAGAGATCGTGTTTTTATTCAGGTTTTCTGATTATAGAGTTTGAGAGTTTGACCATCATTAGTGAGTAGTGACTATATTGTGTCTGAATTATTGACACAATTTCTGATATTCATATGTACCAGGCTGTTTCTTAGAGTGGGGACAGAAATGCAAGGGCTGCTAGTTCTGATGTATAGGAGAAACTTTCATTCATTTTGCATTTATCATTTTAAACGTTGTATATGTCTATCTGGGCATGTGTTCAAGAACACAAGGAAGTATTAAATCACTCCTTCTTCTGAGGTTTGACTAGCAAGTTGGGCTAGAGTTACAAATAAAATACAGGTTCCTAGTGAAATCTGAATTTCAGATACACAACCATAATTTATTGGAAATCCAAATTTAACTGGGAATCTTCTATTATTCTCTGCTCTAGAACGCCACACTTCTGATATTTCTCATTGCTGTCTAAGCTCTTGTGTGTTTGGTTTTTGGCCATCGCTTTCACTGCTCTTTAAGCTCCCCCAGAGGAGTGGAGAGGTCTGTTTTCCCTCGTTTGGATTCCTAGAGGCAGCGCAGGCCTGGCACAAGGTCATCACTAAGGAAGTGTTCACAGGGTGAACGCGGTGGGTGCTGTTGAAGGTACCGGTAAAGCGTGTGGGATGAGAGGAGCAGAGAGTGTCTTTGGGGCTCCCAGGAGGAGGCGGCGCGGGCTGCGGTGCTGGGCGGATCCTCCTCCAGCTCCTGCTTGGAGGTCTCCAGAACAGGCTGGAGGCAGGGAGGGGGTCCCAAAAGCCTGGGGATGAGAAGGGGTTTTCCCGCATGGTCCCCCAGGCCCCCGTTCGCCTCAGGAAGACGGAGGATGAGCTCCTGGGCTGCAGGTGGTGGGCGTTGCGGGTGGGGCCGGTTAAGGTTCCAGCGCCCGCACCCCGCTCAGGGAGCCCCGGATGGTGGCGTCGCTGTCCGTGTCTTCTCAGGAGGCCGCCCTGTGACCGGATGGTTCGTGTCCCCACAG
Seq C2 exon
CACGTTTCCTGTGGCAGCCTAAGAGGGAGTGTCATTTCTTCAATGGGACGGAGCGGGTGCGGTTCCTGGACAGATACTTCTATAACCAGGAGGAGTCCGTGCGCTTCGACAGCGACGTGGGGGAGTTCCGGGCGGTGACGGAGCTGGGGCGGCCTGACGCTGAGTACTGGAACAGCCAGAAGGACATCCTGGAGCAGGCGCGGGCCGCGGTGGACACCTACTGCAGACACAACTACGGGGTTGTGGAGAGCTTCACAGTGCAGCGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000228080-HLA-DRB1:NM_002124:1
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
Zebrafish
(danRer10)
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)