HsaINT0048782 @ hg38
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:HGNC:2926]
Coordinates
chr10:122629840-122630490:+
Coord C1 exon
chr10:122629840-122629993
Coord A exon
chr10:122629994-122630287
Coord C2 exon
chr10:122630288-122630490
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:ENST00000338354:44
Average complexity
IR
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
Rat
(rn6)
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