MmuINT0050162 @ mm10
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:131106153-131107911:+
Coord C1 exon
chr7:131106153-131106476
Coord A exon
chr7:131106477-131107884
Coord C2 exon
chr7:131107885-131107911
Length
1408 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
ATGGCTTCTTTTTCTTACAGTCC
3' ss Score
9.13
Exon sequences
Seq C1 exon
GAAATGATTCTTCATTGGCGCTGAGGCTGGTAAATGGATCAAACCGGTGTGAGGGCCGAGTGGAGATCTTGTACAGAGGCTCTTGGGGCACCGTGTGTGATGACAGCTGGGGCATCAGTGACGCCAATGTGGTCTGCAGACAGCTCGGTTGTGGCTCTGCTCTGTCTGCACCAGGAAATGCTTGGTTCGGTCAGGGCTCAGGGCTCATTGTCCTGGATGATGTGTCTTGCTCGGGGTATGAGTCTCACCTGTGGAACTGTCATCATCCTGGCTGGCTTGTCCATAACTGTCGCCATTCTGAGGATGCAGGAGTCATCTGTGCAC
Seq A exon
GTGAGTTGGGTGGAACCCTCTACTGTCTTCTTCCAGTATGAACGTTCTTCTTATCCTTGGATCTCACCCCTCAGTGCATCTGTCTCTCTTATAAACTGAAACTGCCTCATTTCTTTACCAGTAGTGATTTTTCACCTCCTTCAACAAGGTTGGTTGTGGAAATTGTCACTGGAAACCCACACCTAGGCTTTGGTAGAAGAATCAAGAAGAAAATCACAGGCTTCAGTGCTTTTTCTACCATGGTTGAGTTCTATGGGAACAGGGGGAACTGTAGTTTATAGACTGGAATATACTGTATCAATGAGCATACACCACTTCAAAGTGTTTTCAGGGGAAGTGTGGTTTCCTCAGACCATAGCAGTTCCCAAGGTTTCTGAATGAGGCCTATTGGTTGGCACTGTGAATATGAGTATGTACAGAGAAATTTTTAGGATAGAGATGGGTATCTATATCCTACAAAAGAACACCTTCAATTTTTCTAACTCAAGTCTATTTGATTGGGATTAATCCAACACTGAAAACTCTACGCTAACTTTAACCCAACAGAAAATCTAACCCAAACCCTATCCTGAACACTAACCCTAACCCAAACCCTAATCCCCAAACCCTAACCCTAACTCCCTAACTCTAACCCTAATCCAATATAACCCTAACACTATTCCAATCCTAACATTAACACTAACACTAATCTAACCCTAATCCTAAACCAAATCCTAACCCCCTAAGCCTAACCCACCCCTAATCCCTAACCATAACCCTAACCCAACCCTAACACTAACCCAAACCCTAACCCCCTAACCAATCCTAAACCAAATCCTACCCCCCTAAGCCTACCCCAACCCTAATCCTAACCATAACTCTAACCCAACCCTAACACTAACCCAAACCCTAACCCAACCCTAACCCTAATTCAAACCCTAACCCCCTAACCCAAACCCTAACCCAACCCTAACCCCCTAACCCAAACTCTAATCCAACCCTACCCCCATAACCCAAACCCTAACCCAACCCTAACCCCTTAACCAAACTCTAACCCAACCCTAACCACCTAACCCAAACCTTAACCCAATCCTAACCCTAACCCAACTCTAACCCTAACCCTGAGGCCTAGATGGTTCCATGTAAAAATTTGTCCTGGACAAGGCCAATTAACATCTGAATCACTGGGCAGTTATGAAATACAAAGTTCAGTCTATTACCTTGTCCAGACACATTTGTCACCTTCTTCCAGAAGGTGGAATACTAGTTGAGCCTCACAAAAAAAAATCTTCCTATGAGTATAGATGGCTATCAATTTCTACTTGGTGGTGGGGGGTGAGCAGGGCTTAATTCAAAGTCTGCCCAGTGTCACCCGCTCAGGTTCCAGATTAGTCACCTTCTGATCTAACATGGCTTCTTTTTCTTACAG
Seq C2 exon
TCCCTGAGGTGACTTCTCCCAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517:ENSMUST00000084509:39
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:
PF0053013=SRCR=WD(100=89.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTCTTCATTGGCGCTGAGG
R:
ACTGGGAGAAGTCACCTCAGG
Band lengths:
343-1751
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