HsaINT0048782 @ hg19
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:2926]
Coordinates
chr10:124389356-124390006:+
Coord C1 exon
chr10:124389356-124389509
Coord A exon
chr10:124389510-124389803
Coord C2 exon
chr10:124389804-124390006
Length
294 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AATACATTTTCTCCATACAGATT
3' ss Score
9.01
Exon sequences
Seq C1 exon
GACCCTCTTCAAATTGTGGTGGCTTCTTATTCTATGCCAGTGGGACATTCTCCAGCCCATCCTACCCTGCATACTACCCCAACAATGCTAAGTGTGTTTGGGAAATAGAAGTGAATTCTGGTTATCGCATAAACCTGGGCTTCAGTAATCTGAA
Seq A exon
GTAAGTAATGCCTGGTCATCTGGTGAGGGGTGAGTTCCTCTGCAGCACACCCACTGGTTTAGACTGTGTCCTGGGCTGGGATGCTTTTCACTCTCATGTGCCATGGACAAGCTTTTGGTGGCTTTGATTCCTACCATAAAGCATCAGGGAACACTGATGTCCTTTGACTTAATTGAGGAAGAGCTAGAAGAAAAACCTGTATTCAATGGCATCCCTCGTAAAGTGCAAACTATTTATAAAATGGAGGGGCAATAGGAATTTCAATGTTGACTTGAATACATTTTCTCCATACAG
Seq C2 exon
ATTGGAGGCACACCATAACTGCAGTTTTGATTATGTTGAAATCTTTGATGGATCATTGAATAGCAGTCTCCTGCTGGGGAAAATCTGTAATGATACCAGGCAAATATTTACATCTTCTTACAACCGAATGACCATTCACTTTCGAAGTGACATCAGTTTCCAAAACACTGGCTTTTTGGCTTGGTATAACTCCTTCCCAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187908-DMBT1:NM_004406:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(42.2=88.5)
A:
NA
C2:
PF0043115=CUB=PD(56.9=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
ATTCTCCAGCCCATCCTACCC
R:
ACCAAGCCAAAAAGCCAGTGT
Band lengths:
293-587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)