MmuINT0043549 @ mm10
Intron Retention
Gene
ENSMUSG00000034101 | Ctnnd1
Description
catenin (cadherin associated protein), delta 1 [Source:MGI Symbol;Acc:MGI:105100]
Coordinates
chr2:84600783-84603752:-
Coord C1 exon
chr2:84603649-84603752
Coord A exon
chr2:84602904-84603648
Coord C2 exon
chr2:84600783-84602903
Length
745 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
3' ss Seq
CTTCTCTTTTTTCCCCACAGCAG
3' ss Score
11.49
Exon sequences
Seq C1 exon
ATAACAACTATTCCACACTGAATGAGAGAGGAGACCACAACAGAACACTGGACCGATCTGGGGATCTGGGTGATATGGAACCATTGAAGGGAGCACCCTTGATG
Seq A exon
GTAAATCCTTGTTATGTATTGCTGTGTATGAGGCTAATACTATTTTGAAACTGTATGATATATAAAATGGGAGGCGGCGGGAAGAAAAAGACAAATCTTTTTGGTAGGTTTTCTTTGATGCATCTTGATGGTTCTTGGGATGTTGCTCATTGGTTGTGTGGATGGATTTTGCAAGCGTTGCTGACGTCACTGACACTAACTAACCTGCTCTCGAGGACATCTCCCTGCTCTTGCACTTACCTGTTTAGGATGTTTGCCCTGTACTCTTAACAGGGTTTGTTCACTTTACAGATGTTGGGATTTCCCTTCCATCTGGCACACACTTAGAAAGTCTTACCTTGGTTCTCTTACTAACAAATTGCATGTGTTCACAGCAGGACGAGGGGCAGGAATCTTTGGAGGAAGAGTTGGATGTGTTGGTTTTGGATGATGAGGGGAACCAAGTGTCTTACTCCCCCATGGTATGTCCTCCAGTCACCCCTAAGATGGTCCTGAGGAAGGAGGTTGCTGTGTGCCTACTCTTTGCCAATCATGCTGATCTGATCAGGCCTGCGATACTTGTTTGAGCCGCATGGTACCCAAGGGTTCTACTTCTGTGATCACGACCTCTTCCCAGGCTGGGATGCAGCGGATGATCTGGTTCTATGTTGTGTGCTGCTTTCCTGCCTCCAGATTTGCTCAGCTGTGTATGTTTCCCCTGTCGTCCTGTCCTCAGCCTTAACAGCCTTCTCTTTTTTCCCCACAG
Seq C2 exon
CAGAAGATTTAGCGCCACTCTACCTGCTCCATATGGGCTTATAATATATTACTTTTATTTTTTGGTGGTGAAATGGACTGATGATTTTTTTCCTTTCTTCGCTGGACTATTGTGCCAACTGCCAGGCTGACTCCTACCCTTGTAGCCCAAATTGGCTGCCGTCATCCGTGAATTACCTACATCTTCCACTGAAGTTTAATTGTCCTATCCTCCCAGACCCTACTTCCAGTTTTCCCCCAAGAAACCTGACTCTGTTATTTGCATATCTTGAGAAACTGCTGCAGATTAGCTCTTTTTGCCAGCCTTCCCTGGAACTCTTGGCCTTGCATAGAGGGAGGGAGAGTGGAACTCTCTACTGGAAGCAATGGGAAGAACTGAAAATTACACACTGTCTGTTCAGCAGTCAGCATTCTGACAAACTGATGACTTTTAATCAAGACTATTTTTTCTGGTGTGGGGGGAACTTTTTATTTTGTTTTGGATGGGGAAGTGTGAGTTCTTCCCTTATCCAGTGGCGATTTTTGAAGCCAAGAAGGCTGGAAACATTGGCACATTCCACCTGGCAAGGGCCCTCAAGTAAGTGAAGTACTCCCCAACCTCAGAGTGAGAACTCTTGTTCCTCCTGTTCAAGGCAGGGACCACAAAGGACCTACAGACTCCATCTCTCTGTCAGCTTCAGGATAACCTTGGGGTGCTGTCCTGACCAAGGCTGTCCTTAACCCTCCTCTCCTACCCTGTGATAAACCTGCTAACTTGACCTGGCTGTTTTGCAAGATGCTTTGTAAAAAGGAGAATGCCATGGAACCCCCTGGTTGAGAAGAAACAGAAAGATTGTCTATTGAGAAGATGAACCTCTAGGAGGAATGTACATGAAGTGGTTAGTCTGAAACTGGCAGGAAGCTTCAGAGCTGGCTTTCCTCAGCCCCCTCACCCCATCTCTCTTCGTCCTTTATAAGCTTGTCCTCCCTCTCCTCCCCTTCCCTGGATTTGTTGGCCAACTTACAAGACTTGTACATAGCTCCTCCCCCTTTGCCCTTGTAAGGTAGGAGTTGCCCTGGCTTTGCCTCTTCTTTGTGCCTTTGGCCTGGGGTGCATCTCCTCCCTCTCTTCCAGGTGCCTTTCTTTGCCTCTGCAGTCTCATTTCTCATGATTTTGCAAGTTAGACCTTGTTATTTTCTTACCCACTGTTGACCCCCAGTAGCTGAAGCAAAGAAGAGGAGTGGTAACTTAGGGAACTTCACGTCCCTACTGGGTGTTGTTAAAGCCTCTGACATAGCCACAACAGGCTTCTGCTTAACAGTGTGCAGTTGGGATTGGTGAAAATCCATCCCGATAAGTCTCAAAGTGAGGCTGTTAGGAGGGAGTGCTGTGACTCTGACTCCTTAGTCGTCCCCAGTTCCCATCATCTCTGAAAGGCTACAGGGAATCAGGCCATGCCTCCATTACACCCTTTTCTGTTGTAGTGAGTGTTACAGCTTGGCTAGAGAAGCAGCTACTATGTGGGTGCAATTTTTTTTAAACATTTTTCCTTATTTTCTTTCCTTAATCTAAAAGCTCTATTCAATGCAACTGGAATTCTTTATCCCTCTTGTCCTGTTCCTTAATATATTGAGGCTATGGGGTAGGAGAAAAGTGCACAGCCCACCAACTCCTTTTCTTATACATTGCAGTCACCCCCTCCCCCCAACCTTTGCTTCCTTCCCATTTCTTCCTAGTCCCGTTTCCCTTTTCTGGCAAAAAGGAGCTCTGTGCTCTCTGTGACCCTCAGAGTACACTGCACAGGGGAGCCTCCCCCACCCACATCTATCTGCCTCTGGTTTTGGGTTCTCTTGTCCTCTTCTGCTCTTCCTGGTGCTCTTTCTTCTCGGTGGGGTGTGGGTAATAGAATAGCCATGGGCTTTGGGGACCTTTAACTGTTTTTTTGTTTGTTTGTTTTGTTTTTCCTTTTTCATTTATAAAAACACTAAACATTCAATTTCAGCAAACCAAAAATCCTACCCTCCCACCGAATACTACTAAGGGGCATATCTTCTGCTCTGTATCTTTTCTCTCTTTCTTTCTCTTGTTAATGCTTTTAAAAACAAATGAGTTTTTTATATAAATAAAAGTTTTTAAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034101:ENSMUST00000111691:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAACCATTGAAGGGAGCACC
R:
ATGCAAGGCCAAGAGTTCCAG
Band lengths:
357-1102
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