HsaINT1015580 @ hg38
Intron Retention
Gene
ENSG00000204592 | HLA-E
Description
major histocompatibility complex, class I, E [Source:HGNC Symbol;Acc:HGNC:4962]
Coordinates
chr6:30490240-30491412:+
Coord C1 exon
chr6:30490240-30490515
Coord A exon
chr6:30490516-30491136
Coord C2 exon
chr6:30491137-30491412
Length
621 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TTTCTGACTCTTCCCCTCAGAGC
3' ss Score
10.59
Exon sequences
Seq C1 exon
GGTCTCACACCCTGCAGTGGATGCATGGCTGCGAGCTGGGGCCCGACGGGCGCTTCCTCCGCGGGTATGAACAGTTCGCCTACGACGGCAAGGATTATCTCACCCTGAATGAGGACCTGCGCTCCTGGACCGCGGTGGACACGGCGGCTCAGATCTCCGAGCAAAAGTCAAATGATGCCTCTGAGGCGGAGCACCAGAGAGCCTACCTGGAAGACACATGCGTGGAGTGGCTCCACAAATACCTGGAGAAGGGGAAGGAGACGCTGCTTCACCTGG
Seq A exon
GTAAGAGGGTCCACAGGGCTACTCTCCCATCTCCTTCTTGGGCTAGGACTGTGCCCACAGCTGACAGACCTCAAACAGTAGAAGAAACAGGGATGGAGGCCAGAATACCACTCCTCCCTTGGATCAGGAGAGGGAGCTGTCACCTGAGGTACAGGAGATCCTATACCACAGAGTGACTCTCTTAAAGGGCCAGACCTCTCTCAGGGGCAATTAAGGAATCTAGTCTCGCTGGAGATTCCATCCTTCAGATGAACTGATGAGCAGTTCTCTTTGACTCCCAGTATTAGGAATCACGGGGGAGTTTCTCTCGTGCCTGATTCTCAGCCCCACACCAAGAGTTTTTGGAGGTCTGACTCCAGCTTTTCTCAGTCACTCAGCATCCACACAGGCCAGGACCAGAAATCCCTTTTCACCTTCTACCCTGGGCTAGCTCATCCCGATTCTAGAACTTTCCAAGGAATAAGAGGCTATCCCAGATCCCTAAGTCCAGGCTGGTGTCAAGGTTTTGTCCTCTTCTCCTACTATAATTGTCCTCTTCCTTCTCAGGATGGTCACATGGGTGCTGCTGGAGTGTCCCATGAGAGATACAAAGTGCCTGAATTTTCTGACTCTTCCCCTCAG
Seq C2 exon
AGCCCCCAAAGACACACGTGACTCACCACCCCATCTCTGACCATGAGGCCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCGGAGATCACACTGACCTGGCAGCAGGATGGGGAGGGCCATACCCAGGACACGGAGCTCGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACGTGCCATGTGCAGCATGAGGGGCTACCCGAGCCCGTCACCCTGAGATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204592:ENST00000376630:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.387
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAGATCTCCGAGCAAAA
R:
TCTCTGCTCCTCTCCAGAAGG
Band lengths:
352-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains