MmuINT0053319 @ mm10
Intron Retention
Gene
ENSMUSG00000024331 | Dsc2
Description
desmocollin 2 [Source:MGI Symbol;Acc:MGI:103221]
Coordinates
chr18:20032490-20033322:-
Coord C1 exon
chr18:20033062-20033322
Coord A exon
chr18:20032536-20033061
Coord C2 exon
chr18:20032490-20032535
Length
526 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TGTGCATTTTCTACACATAGGAA
3' ss Score
7.57
Exon sequences
Seq C1 exon
TATTCCACAAACGGCTTGACAACTCAAACTATGGGAGCTTCTGGGCAGACAGCTTTCACCACCATGGGAACTGGAGTCAAAAGTGGAGGGCAAGAGACCATTGAGATGGTAAAAGGAGGGCAGCAGACTTTGGACTCACGCAGAGGGGCTGGCTATCATCACCATACCCTGGATCCTTGCAGGGGAGGACATGTGGAGGTGGACAACTACAGACACACTTACTCAGAGTGGTACAATTTCATTCAGCCCCGACTTGGTGAT
Seq A exon
GTAAGTTTCTGAGCGGTTCCTCAAACTATACTGATGTAATTTAAATTTTACAAACGGTTCCAACTTAAGAGTTTGTGCAAACTCCTCTTCTTAGTTAATGATTAGTCTATTTATTGGAAAGTTACTATTCTCAATTAATTTGGGTTTAATTATGTCTTGATTTATGTGGTCATTTAGTTTCCTGCATTTTCATTTGGCTTTTATTATTTTTTAAGGGAATCATTTTGTGTTAATGATTTTGCATCTGAAAAATTTTGTTTTAAGCAACCCAATATCTAGCACAAGGCAATATCAACACATACGGCCACTTTGCCTGTTCCGAAAGAATGGAACTCACATCAATTTGGGTTCAATTTATCTGGGTGTGTTTTTCCTTTTACCACTATTTTGAAAGACAGAAGCAATGGCCACATAAAAGGAGTACTTGGGTGCTCAGTGACATGCAGGACTTTTAGAAGCATGCTAATACTGACTTGACAGTGTGATTTTATGATATAGACCAATCATGTGCATTTTCTACACATAG
Seq C2 exon
GAAACCATTAGAGGACACACTCTGATTAAAAATTAAACAATAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024331:ENSMUST00000039247:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.335 A=NA C2=0.818
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(45.9=64.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCACAAACGGCTTGACAAC
R:
AATCAGAGTGTGTCCTCTAATGGT
Band lengths:
286-812
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