MmuINT0043557 @ mm9
Intron Retention
Gene
ENSMUSG00000034101 | Ctnnd1
Description
catenin (cadherin associated protein), delta 1 [Source:MGI Symbol;Acc:MGI:105100]
Coordinates
chr2:84452181-84453246:-
Coord C1 exon
chr2:84453093-84453246
Coord A exon
chr2:84452250-84453092
Coord C2 exon
chr2:84452181-84452249
Length
843 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCTTTCTCCATTTTCATAGGGA
3' ss Score
9.39
Exon sequences
Seq C1 exon
CTTGTGGAGAATTGTGTTTGCCTCCTCCGGAACTTATCATACCAAGTTCATCGTGAAATCCCACAGGCAGAGCGTTACCAGGAGGCCCTTCCTACTGTGGCTAACAGTACTGGGCCACACGCTGCCAGTTGCTTTGGAGCCAAGAAGGGCAAAG
Seq A exon
GTGAGTTTTGCTTAGTTCCAGTACTTTAATATGGGACAAGAGGAACACTTAGCTTTATAGGGATTTAATAAATAGCGTGGAAGTCTCCCTAGTAGAGTTGTGTCCTTTTGCTCTGTTGCTGCTCCTCCCTTGTTCTACATGCCTTGACGGGTGGTAAGGTGGTGGTGGTGGTGGTGGTGGTGGTGTGTGAGGATGGTGACGATTGTTAGTGTATTGGCATCTGGGGCAGTGAAGGACAAGAACTCAGCTACACCGGGGTCTTCCTCCCTATTCCTCCTCCTTCTCTGCTTTCTTGTGTACTTGCCCATGATCCTGTTGACATCTTTCTCCTGCGTTTTCTTCCTTCATTTCTCTCCTCGCTTTCCACCTTGGTGATGCACTGGAAGATGAGTGGTTCTCCAGAGGTGAGTGCAATCTTTTAAGGCGCTTGTCTCCTAACTTGCATGGTTTGGTTCTTACCTTTCTTAATATCTCTTTGTCTAACCTTCCCCATGGATGCATGTAGGAAAACTTAGTTGAGGGAAAGCATTGGAATAAGTTTAAATCTTCTGGGTTGTGGTTTTACATGTTGTTTCTGGGCAGCAGTCCCTTTTATCAGAACTCAGTTAACAGCCACAGGAGTGGTCATCCTTTTGGACAGTCTACTGCCTGTTTTGGTCTTCCTTGTTTCTGCATCATCCTGTTGGGACAGTTATGTGTGGGGTTTCTCTTCTTTTGCCTCTTTTGATGCTGCATCTCTGATCTGAAGATTCTGACTGAAGGATGAAAAACTGCCAGGTCGAATCTTTCCTTTTTTAAAAAATTATTTCCCCTGTTCTCTCCACCCTTTCTCCATTTTCATAG
Seq C2 exon
GGAAAAAGCCTACAGAGGATCCAGCAAATGATACAGTGGATTTCCCTAAAAGAACTAGTCCTGCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034101-Ctnnd1:NM_001085453:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.708
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(2.5=4.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGGAGAATTGTGTTTGCCT
R:
CTCGAGCAGGACTAGTTCTTT
Band lengths:
222-1065
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: