MmuINT0050157 @ mm9
Intron Retention
Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:138241035-138242833:+
Coord C1 exon
chr7:138241035-138241182
Coord A exon
chr7:138241183-138242633
Coord C2 exon
chr7:138242634-138242833
Length
1451 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTTTCCTTTTGTGTCCTCAGGCT
3' ss Score
11.73
Exon sequences
Seq C1 exon
ACTACAGCTGTGGAGGTCTCCTGACCCTACCCTCTGGACAATTTTCTAGCCCACACTATCCTTCAAACTATCCTAACAATGCCAGATGTTCCTGGGAAATATTGGTCCCCAACATGAACCGTGTGACAGTGGCCTTCACAGATGTGCA
Seq A exon
GTAAGTGTGTGTGTGTGCAGAGGAGATGTGTTAGAGAATAGTGGGGTGCTTTGAAAGTCATGGGATGAAAGTAGAATCGGCAGTTACAATACAGGTTCCATTTTTGGTGTGGAACAAGATGTAATGGGTGCTAAAGCACAAGAATTAAAAAATACTCTGTCTTATAGCCCCAGATTGTCATGAATTTGCACTATGGTCATGGGGTGCCATGTTCTGAATCCTCAGCCAGAAGGAAGGGGCTGGAATGCCTGTTTGCCTCACCTTGTTGATCAGCAAGTGAACAGAGAATGACAACACACTGGAGCCCTTACTCAGTGGGATGGAAGGGCGGTGGCCTATGGAGTGACCTAGCATCTTGGCTGCACATTAGGGCAGTGCTGCTAATGAGGGTACATATTTGGGGTAAAGCTTTCCCCAGAGTTCCTTCTCAGTCCATGAGGCACCAGAAGCAGGTCAGTGCATTTCCAGAGAAGTGACTAAGGTCACAGCACTCATTGAGTAAGCTGTGTCCCCAGGTGCTCTCTTAGTGTCTATAGAGCTTTTACAAGTCTCTGCTGTACAACTACATATACATCGTTTCAGTGTCCTTCTTAGGACAATTCAGGAGTGCACCTGAGGCCATCTGGTCCTATGCAGGAGGCTTCTTAGTCTGTTCTTGTCAGGACACCAGTAACAGTTACCAGCACACAGTAGTGACATTTTATGAAGTCACGTCCCTCTCCAACCTTCCCTGCTCCTCCTGGTAATATAGTATTTTGTCATGTTTTCTTTGTAGTGTTTCTATGTGAACATGGAATTCAGTTTTGCTCTCAGTATGTGAGAAACTTGAGGGTTAGAGTGTTCCAGTGACTGGTCTTGTGGCGATTTTTTTATTTTGTTACATTTTTATTTAATGTGTTTGAGTGTATTTTGTGTAGATGTATGTCTCTGGATTGCATGTTTGCCTGGTCCCCACACAGGTGAGGAGAAGGTGTTTAATTCCCTGGATAGTGAGGTAATCACAGTACTGAGCTTTGACGTAGGTGCTGGGAATCAAACCTTAGTTCTCTTGAATAACAGGCAGTGCACAGAACCACTGAGCCATCTTTCTACCACTTGCCTTGAGTGTATGTCTCCTTTTTTATATTCACTAGAGATGTTTATTTTTTCCCAAAGATAATTGAGGACTTTTGAAGGAACTAATTAGTATGTCCTTAGGTGAGATTCCTGTGTTGATGTAAAGGCTTTCAAGGAGAGGTATTATGGATTGCATATCTGTGAGCCACAAAGGTAGAATTTTACAAGGGATGCTGGGCATGGGAAGATAGATGAATTACCTTTGGATTCCAGGTAGCCATCTACTCTTCAAATGATGTAGTTAGTCACTGTTATCAGGACAATGGCTCCACAGATGTGAACCCCACATCACATTCCAGACACAGAAAAGGGTCCTTTTCCTTTTGTGTCCTCAG
Seq C2 exon
GCTTGAAGGAGGCTGCAACTATGACTATATCCTGGTTTATGATGGCCCTGAATACAATTCTTCTCTCATTGCTCGGGTTTGTGATGGTTCCAATGGCTCTTTCACCTCAACCGGAAACTTCATGTCCGTAGTCTTCATCACAGATGGCAGTGTGACAAGGAGAGGGTTCCAGGCTCACTACTACTCTACAGTCAGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517-Dmbt1:NM_007769:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(43.0=92.0)
A:
NA
C2:
PF0043115=CUB=PD(56.1=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTACAGCTGTGGAGGTCTC
R:
GCTGACTGTAGAGTAGTAGTGAGC
Band lengths:
344-1795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: