MmuINT0050161 @ mm9
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:138248363-138249990:+
Coord C1 exon
chr7:138248363-138248389
Coord A exon
chr7:138248390-138249666
Coord C2 exon
chr7:138249667-138249990
Length
1277 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGACTACCACTTTATCTCAGGAA
3' ss Score
5.95
Exon sequences
Seq C1 exon
GTCCTCCATCATTCCCAAACATAACTG
Seq A exon
GTGAGTCCTGACCTCCTGTAACTCCTCTCTATCCTCTTCATCCCTATTCTGGACACAGCCACAGCCAACAGCTCCAGAGTGCTGGGACTCCAGTCTTCTGTCTGCCCCAGGACCTTCAACACTCTCCATATAGTACAAAGGCAGCATGTATTGAGTCAGCACCATCCTCTGCTTGACTCAGTGTCATCTGAGAGGTGCAGCACTTAATCCATTTTGCTAAACTTCACTCCCTGTGAGAATTGCTATGGCGGTCCTTTCCTATTCTGTTTGTCTAGAAAGCGTTGTCTTTTGCAATCGTTATATGACATAGGGACGGAGGGTACTGCTCTTTCTAGATTCCTAAGGTATAGATGCCATAATTCTTTTATCAGTTATGTCATTCATGACAAAATACCTCATTGACCACTTGATGGAAACACCTGAGCACGGTTAGGACCAACCCTTGCTGTCAAGTTACGGACAGTCTTTTATTCAGCTTCAGTGCTTCTGTGTCCAATGTTATCTGCTCTTAACCAGAGTCCCTTAACAGACCTCGATGCACAAGGCTTTTTTCTAATCTGTTTTAATTCCCACCCCCCCAACCCCCCAGATTGTTAGCCTACAATATATCCTTCTTATGCTAGGTCTGTTTTCAGTATGTCAACCAAGAGTTTAGAAAGAGACAAAATATTCTGGGATCTTCTTGAAGCCTGTGCTGGAGCACAGCTCAGAAAGACAAGGAGAAAGAAAGAAATTAGAAAGAGGGCCTATCTTTCTTGTGTATATCTGCAGTGATCTAGTCTGTCCACAAAAATCTATCTTTTATTTACTTCATCCCAGGACTAATAAACAGATTTGACCTGAGTCCTTGTGAGGCTGGACTCATGATCAGGACTTGAGGTCTTTAATGTGGGCCTTTGCTGGACACTTCCTGTTCCAGTCAGAACCCTGTGGCATTGCCAGAATACATAAGCCCTGGACGCTGTCATTTGGAACAGCAGAAATATTGTAGTACATAGTGCTTCCTGTAGATTTTCTCTGTTCTCCAGAGAGAGTGACACCCATATCAGCAAACACGTGTGCTCCTGAGATAGCCCCTGAGATAGGTTTGATAGCCCCTGAAGATTCTTTGTGCCCAGGGTGCAGAAACTTTGCACCAGAAATCTAAGGGATTGGTATCTACAATCACCTACCCACTGAGGAGTCAGAGACTCAAGGAAAGCCTTTCACCACAAGTACAGGGGACACCTGACTATGGCATTGGTGGAACTTACCTAATGACTACCACTTTATCTCAG
Seq C2 exon
GAAATGATTCTTCATTGGCGCTGAGGCTGGTAAATGGATCAAACCGGTGTGAGGGCCGAGTGGAGATCTTGTACAGAGGCTCTTGGGGCACCGTGTGTGATGACAGCTGGGGCATCAGTGACGCCAATGTGGTCTGCAGACAGCTCGGTTGTGGCTCTGCTCTGTCTGCACCAGGAAATGCTTGGTTCGGTCAGGGCTCAGGGCTCATTGTCCTGGATGATGTGTCTTGCTCGGGGTATGAGTCTCACCTGTGGAACTGTCATCATCCTGGCTGGCTTGTCCATAACTGTCGCCATTCTGAGGATGCAGGAGTCATCTGTGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517-Dmbt1:NM_007769:38
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:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
GTCCTCCATCATTCCCAAACA
R:
GCACAGATGACTCCTGCATCC
Band lengths:
349-1626
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: