MmuINT0053440 @ mm9
Intron Retention
Gene
ENSMUSG00000069441 | Dsg1a
Description
desmoglein 1 alpha [Source:MGI Symbol;Acc:MGI:94930]
Coordinates
chr18:20486738-20487349:+
Coord C1 exon
chr18:20486738-20486872
Coord A exon
chr18:20486873-20487163
Coord C2 exon
chr18:20487164-20487349
Length
291 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
TACTTTGCCTCTTGTTCCAGTAT
3' ss Score
7.35
Exon sequences
Seq C1 exon
CAATATAGCCAGTATTCCCTTGTGGTGAGAGGCTCAGACCGGGACGGTGGAGCAGACGGCATGTCTGCAGAGAGCGAGTGCAGCATCACCATCCTGGATGTCAATGACAACATCCCATACTTGGAGCAGTCATCT
Seq A exon
GTAAGCAGTCCTTCTTAAGGATTAGATTCCATGACTCTACATTCCTTACATACCAGTTCTTATAGGAACTCATTCAGTGTGCAGGTGCACCTGCTGTATTTGCTATCTACAACACCAGAGTAGACACACACTTTCTCTTGAATTGCTTTCACAGTGGGAAAAGTGGATTTGAACAAAGTATGCAATTATAAGCAGGGATGTTGTTTCTGAATGGTTAACCATGAACATGATACAGACAGCCTGGTACAGGATCTCTCATTTGCTTTGCTGATACTTTGCCTCTTGTTCCAG
Seq C2 exon
TATGACATCACAATTGAAGAAAATGCACTTCACTCACAGCTAGTGCAGATCAGAGTCATTGATTTGGATGAAGAATTCTCAGACAACTGGAAGGCAATCATTTTCTTTATCTCTGGAAATGAGGGAAATTGGTTTGAAATAGAAATGAATGAAAGAACAAATGTAGGAACTCTGAAGGTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000069441-Dsg1a:NM_010079:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(31.3=68.9)
A:
NA
C2:
PF0002812=Cadherin=PU(58.7=98.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCCTTGTGGTGAGAGGCT
R:
TGACAACCTTCAGAGTTCCTACA
Band lengths:
306-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: