MmuINT0050146 @ mm9
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:138226001-138227327:+
Coord C1 exon
chr7:138226001-138226324
Coord A exon
chr7:138226325-138227297
Coord C2 exon
chr7:138227298-138227327
Length
973 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
ATCTATCTTCTTTATCACAGATG
3' ss Score
8.09
Exon sequences
Seq C1 exon
GAACAGAAAACAGTTTGGCCGTGAGGCTGGAGAATGGAGGAGACAGGTGTCAGGGTCGAGTGGAGATCCTTTACCAGGGATCCTGGGGCACTGTGTGTGACGACAGCTGGGACACCAAGGATGCCAACGTGGTGTGCAGACAGCTGGGCTGTGGCTGGGCCGTGTCTGCCCCAGGAAATGCCTACTTTGGACCGGGCTCTGGGTCTATTGTTCTGGATGACGTGGCCTGTACAGGACACGAGGACTATCTGTGGAGCTGCTCTCACCGAGGCTGGCTCTCTCATAACTGTGGACACCATGAGGATGCTGGAGTCATCTGTTCAG
Seq A exon
GTATAACCCAAAAGCCATCAGATATTGTCTTCAAGACTGTGCTTTTAGATGTCACTGAATTCTGTTCTCTGTACTCTATTTGGGCTTCATCAATAGTGGGACTCCTTGTGCATTTTTGTTGAGTTTTTCTCACTCAGAGAACTGTCCAAAACTTTCACAGCTGTCTTGGAACTCTAGAGTTCCTTGGTGCAGAGCTAGGTCCCCAGTTTGAAGAAACACTGGTGTCTTCACATGCTCACTCTTGTAAGCTTTCCCATAGTATCTGAAAGTTCTTAGGTACTGGTTTTAAGATTTAGCATCCAGCAACTCATATATAAAAACTATAATCCATTATTTTACCCGAGGAACATCCATTTGACTCTACTTCTGTGGTCCCTTACATCAGTCATAGAGATAGAGCCTATGCAGGACACATGTGTTGCAGCTCACCACTTTCTTTTGTTTCATAGTCATTTGCGATTAGCCATAATCATCGTATGTTAGCACAGTAGCTAACCTAAAGTGAATGGCTCATTTACTAGTCAAGGTAGAAATCTGGATGACAGAGTAAGGTATAGGCTTCGCAGGATGGTGATATACTTTGTGCTCATGAACCAGCCATATTGGAGCAGTGAAGCAAGGAAGACCACATGTTTTCAACAGCATCCTCCTAATATGAGGGTAGTCCGTGGGTCTCCAGCAGCTCATCACTGAGACTAATTTTGGATGATTACCTCCATGCTTATGCAAAGAAGTTTGTAGCCTGTTCTAGTGGTAGCCATTACTTTCTTACTCCAGATAATGACTTATTGGTACTCAGGTCCCGGCTTTGGCTGTGGGGTGCAGTGTGGATTTCAGTGAGTGTTATCTAGGTTTCTGGGTACTCTGGTTACAATAGAACATCAGCTCTTTGTGTAAAAACACCAACTCTGTCCCCCATGTTAGTCTATGTGGGGTCTTGTTCTCAGTGTCTAATCTATCTTCTTTATCACAG
Seq C2 exon
ATGCCCAAATCCAGAGCACAACCAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517-Dmbt1:NM_007769:24
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=0.182
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAAAACAGTTTGGCCGTG
R:
GCCTGGTTGTGCTCTGGATTT
Band lengths:
349-1322
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: