HsaINT0048807 @ hg19
Intron Retention
Gene
ENSG00000187908 | DMBT1
Description
deleted in malignant brain tumors 1 [Source:HGNC Symbol;Acc:2926]
Coordinates
chr10:124351788-124353114:+
Coord C1 exon
chr10:124351788-124352111
Coord A exon
chr10:124352112-124353084
Coord C2 exon
chr10:124353085-124353114
Length
973 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TTCTCTTCTCTTTCTCACAGTTT
3' ss Score
10.85
Exon sequences
Seq C1 exon
GATCTGAATCCAGTTTGACCCTGAGGCTGGTGAATGGAAGTGACAGGTGTCAGGGCCGAGTAGAGGTCCTATACCGAGGCTCCTGGGGCACCGTGTGTGATGACAGCTGGGATACCAATGATGCCAATGTGGTCTGCAGGCAGCTGGGCTGTGGCTGGGCCACGTCGGCCCCAGGAAATGCCCGGTTTGGCCAGGGCTCAGGACCCATTGTTCTGGATGATGTGCGCTGCTCAGGACACGAGTCCTACCTGTGGAGCTGCCCCCACAATGGCTGGCTCTCCCACAACTGTGGCCATCATGAAGATGCTGGTGTCATCTGCTCAG
Seq A exon
GTGGGCCTCCAAGACCTTGGGCTCCCTCTCCTAGACTGGAGTTTGCTCAGGAAGAAAATCCTAATTACATTCTGATCTCCTCACTCAAAGATTCTTCTATGTTTCCTATATTTATGTAGTCTTGTTAGCTCTCTGCTAAGGATCTGTATGAATTTTACTACAGGGCTTGGTGTTCCTGTGGTCACTTAGGACAGGCCCCAAACTGAAACAACAACCCAGACTTTATCCCCTTCCTGAGGCAGTGCAAGAAAGAGGCCGAAGAGAAAACTGCTGGCTCCCCAGGGTTCCATTTCTCCTCAGCTGAGTAGCACTGGGTGAGGGTATCATGGACATAGGACAGACAGCAAGGTAGGGGAGGAATCCTCTCACTGAGAGGAACTCTGAGCTAAAGATGCTTGTCTGAAAGTGAGTTCTCAGCTGAGACCCAGTGAGGAGGTCTGGAAATAGAGGCTCAAGGGTTAGGGGTGCAAATGGGTGTCTGGTTCTATCAGGCCTGGGTTGTGTGAGGTTGGAGTCCTTGACCTCAGGTCCTCTCAGAACGCTGCAGAGCACTGCCTTGCCCTGGGTCTGGTGTGGGGAGGGCAGCCCCCATGAGACAGGCCAGGCATGGCCTTGTTATTGCCTGTGGTCGGGGCTTGAAGATCACACAAGGGATTTTGGCTGGAGTGGCTTCCTCAGCCTTGCTGACTCAGGAACACCTAAGATGTGCAAGGGAGTGGGTTGGTTTAGGTCAACCGGGTTACCCTGGGCAGACACAATTTGATCACCTCAGAGCTGGCAATAGTGGAAGGATCTGCCTCGACCCCTTACACGGTGCATCTCTGTGGGGATGTGCATGGCAATGTCCCTCCCTGTGTGATAGGAACTAGGATGGACTGAGTGTCAGACTCGCTCATTTCTTTCCCTCCTCGTTCCAGTTTTGCCGACTTCTGTGTAATGTTCCTGATCTGACCTTCTCTTCTCTTTCTCACAG
Seq C2 exon
TTTCCCAGTCCCGGCCGACACCCAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187908-DMBT1:NM_017579:19
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.439
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:
ATCCAGTTTGACCCTGAGGCT
R:
CTGGACTGGGTGTCGGCC
Band lengths:
347-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)