HsaINT0048783 @ hg19
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:2926]
Coordinates
chr10:124389804-124390797:+
Coord C1 exon
chr10:124389804-124390006
Coord A exon
chr10:124390007-124390476
Coord C2 exon
chr10:124390477-124390797
Length
470 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
TCAGTTAATGTGTCTTTCAGATG
3' ss Score
8.51
Exon sequences
Seq C1 exon
ATTGGAGGCACACCATAACTGCAGTTTTGATTATGTTGAAATCTTTGATGGATCATTGAATAGCAGTCTCCTGCTGGGGAAAATCTGTAATGATACCAGGCAAATATTTACATCTTCTTACAACCGAATGACCATTCACTTTCGAAGTGACATCAGTTTCCAAAACACTGGCTTTTTGGCTTGGTATAACTCCTTCCCAAGCG
Seq A exon
GTAAGTGCACACTAGACCATGCCTATGAGGCTTGGTGGATTTACCCAGCTGCCTCTTTGGGGGCACCATGGTTCCCCAAGGAAATCAAAGAAGGGCCTCAGCGATGCACGGCCCATTCTCTTTCTCTTGGCACTGACTGTGTGGGCAGGCCCTTGGGAAGGCAGCAAAGGGTGCAGACTGGGGGTTCCACCTGGCCTTGGGTCTGCCACCAACTCTCCAGGGGACCTGGTGACTCTCCTTCAGAGCCACCCCTCTCCGTCTGGAGGTGAGGGGATCTGAGCTTGGCGATGTCTAGAGCCCCTTTCAGCTCTGCATGGAGCGGTCCAGTACCTCCACCCCAGCTTTTCCACATTTCTATTTGGCGACTTTAGAGGTGGGAAAAGGCCTGTGGGATGCTTGGCCTTTGAGGTTTGTTGTGGGACATTTGTTGTGGGACATGGCCATGATCTCTCAGTTAATGTGTCTTTCAG
Seq C2 exon
ATGCCACCTTGAGGTTGGTCAATTTAAATTCATCCTATGGTCTATGTGCCGGGCGTGTAGAAATTTACCATGGTGGCACCTGGGGGACAGTTTGTGATGACTCCTGGACCATTCAGGAAGCTGAGGTGGTCTGCAGACAGCTAGGGTGTGGACGTGCAGTTTCAGCCCTTGGAAATGCATATTTTGGCTCTGGCTCTGGCCCCATCACCCTGGACGATGTAGAGTGCTCAGGGACGGAATCCACTCTCTGGCAGTGCCGGAACCGAGGCTGGTTCTCCCACAACTGTAATCATCGTGAAGATGCTGGTGTCATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187908-DMBT1:NM_004406:32
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=PD(56.9=89.9)
A:
NA
C2:
PF0053013=SRCR=WD(100=90.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGCACACCATAACTGCAG
R:
TAGCTGTCTGCAGACCACCTC
Band lengths:
343-813
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)