HsaINT0051723 @ hg19
Intron Retention
Gene
ENSG00000136908 | DPM2
Description
dolichyl-phosphate mannosyltransferase polypeptide 2, regulatory subunit [Source:HGNC Symbol;Acc:3006]
Coordinates
chr9:130699713-130700763:-
Coord C1 exon
chr9:130700097-130700763
Coord A exon
chr9:130699803-130700096
Coord C2 exon
chr9:130699713-130699802
Length
294 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
GAGACCTCCCTTTTCTCCAGGCC
3' ss Score
7.86
Exon sequences
Seq C1 exon
GTCCCGGTCCGAAACGTGTCTGGGCTGCTGCGAGAGACAGTCGGTGAAGGAAGGGAGGGGACATCCGAAGGGTGGCCCGGGAGGCCGGGCGATGGTGAGGAGGGCGCCTCCTCTCCACCAAATCCTCCCCATCCATGCGGGCTAGGGACAGACCCTCCCCCGCCCACCCTAGGCTGGAAAGTGAACGTTCTCTGCACCTCTCCCACCTACAGACTAAGTAGGGCACCCGGTTTCCGTGTCGGCTTCACCACTGACTCGGAATGGGATCTACCTTTCTCTGAGCCTCACTTTTCCCATCTGAAAAATGGAACTTCCGATCCCGCACTCCCATCCCACTCTGGCCCCGGGACTCTGGGATACTTAGAGATTGGCTTTTGGTGGGGCGGCGACAGGACTGTGGCCATGAAGGCCAGGGAGTCTGGGTCCCCAACTCGGTCCCATTCCCTAGAGAGATTCGGGCAGCAACCGGCCCCACAATGCTCTTGAGAACTACACTTCGCCGATATGCAAAGAAGAGGAGGCGGTTCCTGCTCGTCTCCGACGAGGTGGGCCCGAGCAGGCCTGGGGACTACGACTCCCGGCGTGCTCCGCAGTCCAAAGCCGGAAGAGCGTGGACCCGGAACCGGATGTGGCTTGCGGCTCGGGTGGCTGAGCGCGCGGGGAAATG
Seq A exon
GTGAGATTGGCACCGTGTGCCGGAGATAGGGGCGTCTGGGGGTGGGGTCCCGGGTCTGCTCAGGAGCTGGGGCATGGGCACTTGGAACGGGGATTGCTCTCCCGCCCCCACTATTGTACGGACGACAACGCGGAGGCCTAGCATTCTCTCCCAGCCTAGAAACTGATCCCTAGTCAGCCCTCTACCATCTGTTGAATGGGAAGCTTAGACCGTGATCGGGCCGCGACGCCCCGCTTCCATTAGTGCGCCGAAATAGAGGGTCACTTCGTCAGCTGAGACCTCCCTTTTCTCCAG
Seq C2 exon
GCCACGGGGACAGACCAGGTGGTGGGACTCGGCCTCGTCGCCGTTAGCCTGATCATCTTCACCTACTACACCGCCTGGGTGATTCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136908-DPM2:NM_003863:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175811=SBF=PU(0.1=0.0)
A:
NA
C2:
PF072977=DPM2=PU(33.8=90.0),PF085107=PIG-P=PU(32.5=86.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACTCGGTCCCATTCCCTA
R:
GATGATCAGGCTAACGGCGAC
Band lengths:
298-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)