MmuINT0043546 @ mm9
Intron Retention
Gene
ENSMUSG00000034101 | Ctnnd1
Description
catenin (cadherin associated protein), delta 1 [Source:MGI Symbol;Acc:MGI:105100]
Coordinates
chr2:84449117-84449879:-
Coord C1 exon
chr2:84449687-84449879
Coord A exon
chr2:84449232-84449686
Coord C2 exon
chr2:84449117-84449231
Length
455 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GGCGTTACTTTCCTTCACAGGAA
3' ss Score
9.58
Exon sequences
Seq C1 exon
GCAAGCATGCTATTCCTAACTTGGTAAAGAATCTGCCAGGAGGTCAACAGAACTCCTCCTGGAATTTTTCTGAAGATACTGTGGTCTCCATATTGAACACCATCAACGAAGTTATCGCTGAGAACTTAGAAGCTGCCAAAAAGCTTCGAGAGACGCAGGGTATTGAGAAGCTGGTGTTGATCAACAAATCAGG
Seq A exon
GTGAGCTTTTACTTAATCACAGCCAAAAGAATTTGAGTATGAAAGAAGAAAGTTTTTAGAAAAGAATTTTCCTCTTCCATTCTGTGAGATTACAGCCCCTTCCTGTGACATATGGAGAGGTGTTGATCTATTTTCATTCTTAATGTTTGTCTATAAATTGGCATGGATTGTTATATCAAACTACTTATGTCAGTGTTTCCGACAGTATAGGATTTGGTGAAATTTGACTTCCATGATTACATTTTTATATCCTTGTGCTGTTACAGCAGTAGTTTTCACATGTGGGTTTCAAGTTATGAAGTAGCAATAAATATAAATTTATGTTTCGGGTCACCATAGCGTGAGGAACTATATGTAGCATTAGGAAGGTTGAGAACCACTTTGTTAGAGAGTATAGGTTCTAAAATTCCCTGTTCTGAAAACTAAACTTTGTATGGCGTTACTTTCCTTCACAG
Seq C2 exon
GAATCGTTCAGAAAAAGAAGTCCGGGCAGCAGCTCTTGTCCTGCAGACAATCTGGGGCTATAAGGAGCTTCGGAAGCCACTGGAAAAAGAAGGATGGAAGAAATCAGACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034101-Ctnnd1:NM_001085453:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.083
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
ENSMUSP00000042543, ENSMUSP00000064518, ENSMUSP00000065252, ENSMUSP00000097524, ENSMUSP00000107299, ENSMUSP00000107304, ENSMUSP00000107305, ENSMUSP00000107306, ENSMUSP00000107307, ENSMUSP00000107313, ENSMUSP00000107314, ENSMUSP00000107315, ENSMUSP00000107316, ENSMUSP00000107317, ENSMUSP00000107318, ENSMUSP00000107319, ENSMUSP00000107320, ENSMUSP00000107321, ENSMUSP00000107322, ENSMUSP00000107324, ENSMUSP00000107325, ENSMUSP00000107326, ENSMUSP00000107327
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCATGCTATTCCTAACTTGGT
R:
GAAGTCTGATTTCTTCCATCCTTCT
Band lengths:
302-757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: