HsaINT0048762 @ hg19
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:2926]
Coordinates
chr10:124354819-124356570:+
Coord C1 exon
chr10:124354819-124355142
Coord A exon
chr10:124355143-124356540
Coord C2 exon
chr10:124356541-124356570
Length
1398 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TGACCTCCTCTTTCTCACAGCTG
3' ss Score
10.43
Exon sequences
Seq C1 exon
GACCTGAATCCAGTTTGGCCCTGAGGCTGGTGAATGGAGGTGACAGGTGTCAGGGCCGAGTGGAGGTCCTATACCGAGGCTCCTGGGGCACCGTGTGTGATGATAGCTGGGACACCAGTGACGCCAATGTGGTCTGCCGGCAGCTGGGCTGTGGCTGGGCCACGTCAGCCCCAGGAAATGCCCGGTTTGGCCAGGGTTCAGGACCCATTGTCCTGGATGACGTGCGCTGCTCAGGCTATGAGTCCTACCTGTGGAGCTGCCCCCACAATGGCTGGCTCTCCCATAACTGTCAGCACAGTGAAGACGCTGGTGTCATCTGCTCAG
Seq A exon
GTGGGCCTCCAAGACCTTGGGCTCCCTCTCTTGGGGTAGATTTTGCTCAGGAAGCGAGGTCTCATTATGTTCTGATCTCCTCACTCAGAGCTTTTTCAGCCTTTCCTATATATCTGATATCTCCTTAGCTCTCTCCTAGGAAACTGCATGAGTCTTCATTGCCAGGTTTTGAGGAGGTCAGGTAGGACAACGGGCCAAAGTGAAATAAGGGTCACGCCTTTGTTCACCTACCGAGGCAGCGCAAGCAGAGGGAGAAGAGGAAAGTGCCAGGTCTTTGCCTTTTAGTGTGGCTGGAAAGGAATAGCTGGGGCTGGTTTGTTCATGAGGAAAGAGGCTGATTTGGGTCTTGGCTTTGCAGGCTGCATAGGACCATGGTGCAGGCGTCTGCTCAGCTTCTGATGAGGGCCTCGGGCTGCTTGTACTCCTAGCAGAAAGGGATGGGGAGGTGGCCTGGGCAGAGGTCACAAGGTGAGGGAGGAAGGAAGAGAGAGCAAGAGGGAGGGCTCAGACTCTTCAACCACCAGCTCTTGCTAGGAACTAAGAGAAGAACTCACCCCTGACCAGGGAGGGCACTAAGTTATTCATGCAGTGTTGGTCTCCATGACCCAGACCTGGTGCATCAGGCCTCACCTCTAAACTTGGGGATTCAGTTGCAATATAACACTTGGATGTGACAAGCCTCTAAAGTATAGCACCCTGGCTCTCCAGGGTTCCATCTTTCCCCTACTGAAAGATTTTGCAAAGGGTTACATGGATGAAGCACATATAGAGGATGGGGGAGGGACTGTCTCCCTGGGAGGAGCCCAGAACCACAGGCTCCTGCTAGGAAGCGCGGTCTTCTGCTGAGGCCCAATAAGGTGATGTCTTAATAGAGACACAAGGCTAGGAGTGCGGATGTGTGTCTGTCCCTCTCTGGCCTGAGATTTGGGGGCTGTGAGTCCTTGACCACAACTCCCTCCAGAGCACTGCAGTGTCTTGCCTGTGCACCGGTCTGGTGTGGAGTGTGCAGTCCCCATGAGGTCTGCTAGGCAAAGCATTGTTATGAACGCCTGTGGGCTGGACTGGAACATCAGAGGCAGGACTTTGGCTGGAGTGGCCTCCTCACATTTGCTAACTCAGGGACTGCTAAGACATGCAAGGGAGAGGGTAGGTTTTGTGTCAACCTGATTACTATGGGCAGACACAAGGTTAATCACCTTGGAGTTGGCAATAGTGGACAGGATCTGCCCAGACACCCTCCAAGGAGCATCTCTGTGGGGACATGCATGGCAATGCCCTCCCTCTGTGATGGGGACCTAGGGTGGACTGAAGGCATGATCTGTTTAGTTCCTTCCACCTTTGTTCCGATTTTGCCAGCTTCTGTATAGTGCATCTGATCTGACCTCCTCTTTCTCACAG
Seq C2 exon
CTGCCCACTCCTGGTCGACGCCCAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187908-DMBT1:NM_004406:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=89.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATCCAGTTTGGCCCTGAGG
R:
GGGCGTCGACCAGGAGTG
Band lengths:
342-1740
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)