MmuINT0050167 @ mm9
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:138254435-138255764:+
Coord C1 exon
chr7:138254435-138254643
Coord A exon
chr7:138254644-138255579
Coord C2 exon
chr7:138255580-138255764
Length
936 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
GCTCTGATCTTGCCCTTCAGATC
3' ss Score
10.01
Exon sequences
Seq C1 exon
GCTGGAAAGGGGCTGCAGCTATGATTATATAGAGATTTTTGATGGCCCCCACCACAGTTCACCTCTCATCGCCCGGGTTTGTGATGGGTCCCTGGGCTCTTTCACCTCAACATCCAACTTCATGTCAATTCGCTTCATCACTGATCACAGTATTACTGCGAGAGGGTTCCAGGCTCACTACTACTCCGACTTTGACAATAACACCACCA
Seq A exon
GTAAGTTTCCTTGTTAGAACAATGGCTTATTAGGACTGCAGGTGCCACTGAGAGCCTACTGCTCCTGTATTTTCTTGGGGACATAAAATATTAGATTTCTCTGTAACATAAAATATTAGAACAACCATGGCCCCTATGATTGAGTTCATGCACTGTCAATTGAGAGAGACTGTGTGGTGAGTCTTGGGGCTCTGGATGTCTAAAAGAGTGCCAAGGGCCAGCATTGGCTGATGAGAGTTGTCCTGGCCTTACTGTGGTTGGCAAAGAATATAAAGGTATAAGATGATGTTCTCAATAGACAGTGAGAAGGCAGTGCCAGAAGGAATTGTGGGTGACACCAGGCTTGAAACTTTAGGACCCTCCCAGAGTAGGAGTCACTGGCCATGTCCTGAGACCTAATACATTTGGCTTCTGTCTGAAGATGGGTAAAGCTGGACATCTTAACAGAGGTGGACTACTGCAACAGAGGCTCTATGGATCCAGTTTGAGATGCTATATGAACCTATATCTACATTGGTGAAGGGCTGAGCCTGGAGAGAACCATGGTCTCTAGCCGGTCAGCATCAGAGGCATCAATTTTCTCCTTAGCTAAAGTACATTACCTAATGCTATCATTACTATCTTATTGTACAGTTGCTCTCCTTCATGGGAGAATGCTAACTTGGCAACAAATGTTTTGGATATTTAAAAATCTTATCAGATCCACATCAGAAAATCCTATACCTCTAAGTGCCCTCATTGGGCATTCCTGAGATGAGGTTGAGTGTAGCCATAGGGTACCCTCGGAGCCATAGTGACTCTGTTTTGAGCATGAGTGTTATGTGTGAACCATGTGAGTCAGCCATCCTGATCTGCGTTTCTTTAGCTGGGGAAAGACCCTCATGAGGGTTGTGGGTTTCGAATCCTGACTCTGTCTGCTCTGATCTTGCCCTTCAG
Seq C2 exon
ATCTCCTTTGTCAGTCAAATCACATGCAAGCCAGCGTGAGCAGGAGCTACCTTCAGTCCATGGGCTATTCTGCCAGGGATCTTGTCATTCCTGGTTGGAACTCCAGCTACCACTGTCAGCCCCAGATAACACAGAGGGAGGTCATATTCACAATTCCCTACACAGGCTGTGGCACAATCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517-Dmbt1:NM_007769:43
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:
PF0043115=CUB=PD(56.1=84.5)
A:
NA
C2:
PF0010018=Zona_pellucida=PU(23.7=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACAGTTCACCTCTCATCGC
R:
TGTTTGATTGTGCCACAGCCT
Band lengths:
342-1278
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: