MmuINT0050166 @ mm10
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:131109485-131111129:+
Coord C1 exon
chr7:131109485-131109635
Coord A exon
chr7:131109636-131110920
Coord C2 exon
chr7:131110921-131111129
Length
1285 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGCTCCTTTTGTCTCTCCAGGCT
3' ss Score
10.56
Exon sequences
Seq C1 exon
TAAACTATACTTGTGGAGGTTTCCTGACCCAACCCTCTGGGCAATTTTCTAGCCCATTCTACCCTGGGAATTATCCTAATAATGCCAGATGTCTGTGGAACATCGAGGTCCCAAACAACTACCGTGTGACTGTGGTCTTCAGAGATTTGCA
Seq A exon
GTAAGTGTGGGTGCATAGCAGATGTTAGCCAATGTGGGGTGCCTTTGAAATTCCTGGGGGTGATAGACAAGTTGGCATTTACAATAGAGGTTACATGTTTGAAGTGGGATAAGAGTCGCCCATGGAAGGCGGTGAATCTGTGCAAGATCACATCAGAAAATACTCTGGCTTAAAGTCCCAGGGTGTCATGAATTTGCTCTATGGCCTTGGGGTGCCACTTTCCTAAGCCTCAGTCAGAAGAAGGGGCTAGAATGCCTGCTCTCCTCATATCCTCATCTTGTTGATCAGGAGTTCACCAGAGCATTTGAAAATACTTAGAGTAAGCCGATTGTGGTGGTGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTTTACTACAGAGTGAGTTCCAGGACATCCAGGGCTATAGAGAGAAACCCTGTCTTGAAAAACCAAAAAAAAAAGAAAGAGAGAAAGAAAATACTTAGAGTATTCTCAGCAGGAGGGAGGGAGGATCTGTGACTTGGGTAATGACAGTCTTGGGAGCACAATATAAAAGTGTGCCTGTCCTGTGCGGACCTTTCCTCATCGATCCCTTCCTTTCTGTGAGTCCCCAGGAACCAGGGTGCTAGTATCAACTGCTGCATTTGGCACCATCCATATGCTTACAAAGGAAAATGTTCTTGAGCAGGGCGACATCTACAAGAGCTCACTAATATACACAACATTCCGGGAGGCGAGTGGCCCAGATGGCCAAGAAACCATGCCAGTTTTCTCTAGCACCCCAAGAGCAGTGTCCACTGCTTGTGACCTTTTATGAACTATGTTTTCCCCATGCAGTGCTCCGTGTGATACTATCAGCACCCTCTTCGGTATACATAGCGCACAGTGTCTATCTTAGTGGCTGAGAGATCTGAGCATTACAGAGGTCCAGGGTTTATTTCTTTCTCTGTTCACCCCCACCACTCTGATGTCATTGGCACTTGTTTTATTCTGGAAGGGACCTGGAAGCACTTTGAAGGAACAAATCAAGATTTCTCTTGTGACCTTCCTGTGTTGATTTAAAGGGCAGTCAGGGAGAGAGATTATAGATCTCTTACATGTGGCCTTAGAGGGCAGTACGAAGACAAGCCATGGCAGTCTTGGCAAGATGAATTCCCCTGGGTTTAAGAAAATCCTCTTTCCCTTCAAATAATGAACCTGGTTAGGGTCTCCATGGCAAAGGCTCCTGAGGCCTGAGCACTCATCAATTGCTCCTTTTGTCTCTCCAG
Seq C2 exon
GCTGGAAAGGGGCTGCAGCTATGATTATATAGAGATTTTTGATGGCCCCCACCACAGTTCACCTCTCATCGCCCGGGTTTGTGATGGGTCCCTGGGCTCTTTCACCTCAACATCCAACTTCATGTCAATTCGCTTCATCACTGATCACAGTATTACTGCGAGAGGGTTCCAGGCTCACTACTACTCCGACTTTGACAATAACACCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517:ENSMUST00000084509:42
Average complexity
IR
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:
PF0043115=CUB=PU(43.0=90.2)
A:
NA
C2:
PF0043115=CUB=PD(56.1=84.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGGTTTCCTGACCCAAC
R:
GGTGGTGTTATTGTCAAAGTCGG
Band lengths:
347-1632
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types