HsaINT0076484 @ hg19
Intron Retention
Gene
ENSG00000242227 | HLA-L
Description
major histocompatibility complex, class I, L (pseudogene) [Source:HGNC Symbol;Acc:4970]
Coordinates
chr6:30229364-30230119:+
Coord C1 exon
chr6:30229364-30229480
Coord A exon
chr6:30229481-30230071
Coord C2 exon
chr6:30230072-30230119
Length
591 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTATTTTTGTTCTACCCCAGGCA
3' ss Score
9.04
Exon sequences
Seq C1 exon
AGCCGTCTTCTCAGCCCACCATCCCCATCGTGGGCATCGTTGCTGGCCTGTTTCTCCTTGGAGCTGTGGTCACTGGAGCTGTGGTTGCTGCTGCGATGTGGAGGAAGAAAAGCTCAG
Seq A exon
GTAGGGAAGGGGTGAGAGGTGGGGTCTGGGTTTTCTTGTTCCACTGTGGGTTTCAAGCCACAGGTAGAATTGTGACTTGCTTCATCACTGGGAAGCACCGTCGACACACAGGCCGACCTAGCCTGGGGCCCTGTGTGCCAACACTTGCTCTTTTGTGAAGCACATGTGAAAACGAAGGACAAATTTATCACCTTGATGATTGTGGTGATGGGGACCTCCCAGCAGTCACAGGTCACAAGGGAAGATCCCTACTGAGGACAGACCTCAGGAGGGCAGTTGGTCCAGTCACCACACCTGCTTTCCTCATGTTTCCTGATCCTGCCCTGGGTCTGCAGTCACAGTTCTGGAAATTTTCCTGGGGTCCAGGATTTGCTGTTTCCTTAAGGACTTCATGCCCCATGTCCTCCCTGACCTCTCACAGGTTGTTTTTTTCTCACAGATAGAACAAGGAGGAGCTATGCTCGGGCTGCCTGTTAGTATGGGGGATTAGAGGGCTGCTCCCTGAGATCGTTGGGACAGTGTAGACAAGATTCCTCCTTTAGCCACATCTCCTGTGGGCTCTGACCAGTTCCTATTTTTGTTCTACCCCAG
Seq C2 exon
GCAGCAATTGTGCTCAGTACTCTGATGCATCTCATGATACTTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000242227-HLA-L:NR_027822:5
Average complexity
IR-S
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
Main Skipping 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)