HsaINT1015568 @ hg38
Intron Retention
Gene
ENSG00000232629 | HLA-DQB2
Description
major histocompatibility complex, class II, DQ beta 2 [Source:HGNC Symbol;Acc:HGNC:4945]
Coordinates
chr6:32756098-32757883:-
Coord C1 exon
chr6:32757773-32757883
Coord A exon
chr6:32757305-32757772
Coord C2 exon
chr6:32756098-32757304
Length
468 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTATAACTTCCTTTTGTAGGAC
3' ss Score
9.98
Exon sequences
Seq C1 exon
GGGCTCAGTCTGAATCTGCCCAGAGCAAGATGCTGAGTGGCATTGGAGGCTTCGTGCTGGGGCTGATCTTCCTCGGGCTGGGCCTTATCATCCGTCACAGGGGTCAGAAAG
Seq A exon
GTGAGGAACCCAAGGGGGAAATGGGGAAGATGAGCTGTGACCCAGACCCTCTATTCAGAGAGGTTCTGTCTCTAGATGTAGCTCTTTCCTCCTTACCCTGAGAGGAAGTGCGAGGAGACAGGACAAGATTGGAGGAGGCATTGGAATCTGATTTTACTGGGTGAATGGTAGCGCTGCCAGAGCTGACTGATAGAGCTTATTCCAGGGCGTCCTTACCGTTCATCATCGTCTCACTGGCTCCTTTCTAAAAGCTTCCTCCATTATGAGGGTCAGAGCCTCGGCCTCCTTGTCTTCTAGTGACAATTTCCTTTGTTTTGGGGGATTTTAACTTAGGGTGCTTAAGGACTTAAAGAACATGGGAGGGAAGAGGATATAACCCCAATTAAACTACATGTGTCATTTTCCTTTGGGGTAAGATAGTGGTTGTTTGTTTAACAAGACCTTTCTCTGTATAACTTCCTTTTGTAG
Seq C2 exon
GACCTCGAGGGCCTCCACCAGCAGGTAATATTTCAGCCATGATCCAGTCAGGGGAGAGGGCACAGGCATAAGAGGGAAGAGCCATGGTGAAACCGCATCTCTACTAAAAATACAAAAATTAGCTGGACGTGGTGGTGTGCATCTGTAATCCCGGCTACTTGGGAGGTTGAGGCAAGAGAATCACTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCCAAGATGGCGCCACTGCACTCCAGTCTGGGCGATAGAGCTAGAGTCTGTCTCAAAAAAAAAAAAGAAGAGCATGAGCGGAGTGTTCCAGGGCACAGTGGTCTCTGTTCATGGCCTGTTTGCTGCTATGAGGGTTAAGACTTAGGGGAAAAGTTTGCCAGTTTCTACGAATCTCCAGAGATTGTTTCCTAGAACCAGGCCTTAACTTTGGTGGCATCTTTTTGTGAAATGTGGGGACAGAGCCACATCTTGAATGTGAGATAGTAGGGTGATGCCCACTTTGTGCCACATTTTGTTAGCTACTGCCTGTAGGCATTTTCAGTGACTAAAAGAGGCTGCTAGTGGTGGAGATGAAGTGTCACCCAATTTACTAAAAAAATCAAACTCTTCATATTACCCAGAAGGGTAACTGCTGTTCCCCCACCTCCACATATCTGCATCAAGCTGAAGTTCTGTGTCCTCATGAGCTGATTTTACCTTTACACAGATATTGGGGAACGTGATGATGATATGCCCTGGACCTCAGCATCCTCTGTTTGATGCTACAGAGGGAACTGAGGACTAGGGGAGAGGGTGTGTCCCTCAGGGTACCCTGTGCTGATCATGCCTCGTCTCTCTTCTCCAGGACTCCTGCACTGACTCCTGAGGACTTTTGTCTGGGATTGGTCATCACTCTTCTGTAATGCCCACCTGCCCCTGCCCAGAATTCCTAGCTGCCTGTGTCACCCTGTCCCACTGAGGTCAGAGTCCTACAGTGGCTCATGCAGCCACAGGTCACCTTCTGTGATCCCCATCCCAAGGCACTGGTGGTGACTCTGCTTCCTGCACTGACCCAGAGCCTCTGCCTGTGCACTGCAAGCTGTGTCTACTCAGGCCCCAAGGGGCATCTCTGTTTCCATTCTCCCCCCACAGACCTGTCAAGAGAAGCATGACAAACAAAATCATTTACCTGACTTTAGTGCTTTTTCCCATAATTAAACCTGATTCTGAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000232629:ENST00000435145:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.695
Domain overlap (PFAM):
C1:
PF0765410=C1-set=PD(9.3=23.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCGTCACAGGGGTCAGAAA
R:
GGCCATGAACAGAGACCACTG
Band lengths:
351-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains