HsaINT0048761 @ hg19
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:2926]
Coordinates
chr10:124354012-124355142:+
Coord C1 exon
chr10:124354012-124354044
Coord A exon
chr10:124354045-124354818
Coord C2 exon
chr10:124354819-124355142
Length
774 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ATTCTTGTGTTCCCCTGTAGGAC
3' ss Score
11.07
Exon sequences
Seq C1 exon
ATACTTGGCCGACCTCACATGCATCAACAGCAG
Seq A exon
GTAAATAACCCTCTCACCCCTCCCTAGGACTCACTATCTCTGGACATATTTTGTGTTTGAAACTGATAGGATGAGGCTCAATGTGGGCTTCTCTGTTTTCATGTCCCTGTGGGTTGCGTGGGAGGAAGGTGGAATCTCTGAGGAGCCAGTCCTGGGTCTGATGTTTGAGGACGGAGGGTGTTGGTGACCTGTCTCCCATGGAATCCTGTTCCAAGTGGTCAGGAAAGATCCTCATCCAGGTGCTCAGGACGAGCACTGGAGGGCTCCTTAATGCTGCTGGGACCTCATTCCTGGCCCTCAGGCCATGGGATCCAGACCTCTGAAGAGCGGGTGAAAGTGCCGGTCCCTGCACCTGTGTGGCCAAGGCCTTGCCATCACTGGCAATTTGCCAGAAGGCAGAGAGGCCCATGCAGGTGCCAATAAGCTCCTGAATATGGAGGGGGTCTAGGCCTGTCATTTGTAGCTGTGTAGCTCCATCCTGTGTTCACCCAGAGTGGGGAGTGGGGTGTCCATTCCTGTCCTCTCCTCTGGGGTCATACATGCTTACCCATAGCTTGAGCTTTTATAGACTTGAGTAGAATAGGGCATCACTTTTTCCACTATGACCAAGCTTAACCTCTGGGTGCAGCCATCTGCCATTGTGACTGCGTGCCCTGGTGACTTTGGCATTTGTATTCAAACTTGACTACTTTTCCCATTGCCCTGAGTGTTGTCCATGCCTTTTCCTTCACCTCAGAATGGAGATGGATGAAGGATTCTTGTGTTCCCCTGTAG
Seq C2 exon
GACCTGAATCCAGTTTGGCCCTGAGGCTGGTGAATGGAGGTGACAGGTGTCAGGGCCGAGTGGAGGTCCTATACCGAGGCTCCTGGGGCACCGTGTGTGATGATAGCTGGGACACCAGTGACGCCAATGTGGTCTGCCGGCAGCTGGGCTGTGGCTGGGCCACGTCAGCCCCAGGAAATGCCCGGTTTGGCCAGGGTTCAGGACCCATTGTCCTGGATGACGTGCGCTGCTCAGGCTATGAGTCCTACCTGTGGAGCTGCCCCCACAATGGCTGGCTCTCCCATAACTGTCAGCACAGTGAAGACGCTGGTGTCATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187908-DMBT1:NM_004406:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=0.008
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGACCTCACATGCATCAACA
R:
GCAGATGACACCAGCGTCTTC
Band lengths:
345-1119
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)