MmuINT0179236 @ mm10
Intron Retention
Gene
ENSMUSG00000059475 | Zfp426
Description
zinc finger protein 426 [Source:MGI Symbol;Acc:MGI:1920248]
Coordinates
chr9:20476396-20478254:-
Coord C1 exon
chr9:20478133-20478254
Coord A exon
chr9:20476479-20478132
Coord C2 exon
chr9:20476396-20476478
Length
1654 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CCTCTCTCTTTTTCCATAAGGTC
3' ss Score
8.27
Exon sequences
Seq C1 exon
GTGACAGAGTGCCACTGTCCACTGAAATTCATCAGCTGCACTAAAGCAAAGCTTGCCTCAGTGAAAGGAGTATTCATGCAGACTTCTGTGTTACAGGATGGCAGCTCCTGCTTCGTCCCATG
Seq A exon
GTAAGGCCTACTGATACTGTTTCTCAGAATTCCTAAGGTGCCCCTAAGGTAGTACTGTGTATAGGAGCACAGTCGTCTGGGCCAGAACAGCTTATGCTGCTGATTCTTTTACTGTTTTTATTTATTCTCCTCTCATATATTACATCCTGATCGCAAAAATAAGGAATGTGTCAAGAATTTGCATGTCATCCTTGCTCAGGGACCATGCTAATCTTCTCAATTGTGTTGTTATGGTTTTTTTTGTTATATGTACTGCTGAAGCCAGCAGGTGATTCTTTTAAATAGTCTAAAAAGGTAGTTCTCAGAAATAGAGAGATGGCTCAGCTGTTATAAACACTTGTTGCTCTTGCAACTCCAGTTCAGTTCCCAGCACCTAAATAATGGCTCACAATTACCTGTAACTCCAGTTCCAGGGGTCCAATGCCTTCTTCTGACCTCTGCAAGCATTAGGTATACATGTGTTGCACAGACATATATGCAGGCCCAGCACTAATACATACAATCTAAAGACAAACGGTAGTTCTCTGAGAAGATATACAGTAAATAACAGCTGTACACATTCTGAGTTTGCTTGACCCTGAGCCAGTGAAAGGGTCAAACGTTTCATTGATTTCAAGCATTTCCAGGCAAGGATATAGTACTTGAGAGGTGCTTTAGGTCTTTTTTGTGGGTCCCCCCCACCCGTGTGTTTGTGTCTGTGTATATGTGTGTGTGTGTGTGTGTGTGCTCATGAATATGTGCATATGTGGTGTGTGCATGTGGATGTCAGTTCTGTCCGTCTGTCCTTCCTTCCTCCCTTCCTTCTTTAGTTCTGAGAGAGAAGGGGGAAGTGGGGCGGGGAGCACAACTTTTAGGAGTCAGTTCTCTCCTACCATGCGGTTCTTTGGAACTGAACTCAGGTCAACAGGCTTGGTAGGAAGTGCCTTTACCCACTTGCTGGCCTACAGGGGTATTGTTACAAGGGGAGAGATGCAGTCTTCATTAGGAGTCTTATAATCATGACAAGTAACATATTTGTTTTAGATTTATTTATATATATGAGTGTTGTCTGAATGTTTATCTATGCATCATGTATGTGTAGGGCCCACAGAAGCCAGAAGAGGGTGTCAGATCCCTTTACTAGAGAGTTGTAAGCTGCCTGTGAATGCTCAGAATTGAACCTGGGTCCTCTGGAAAAGACTCCAGTGCTTTTAGCCACTGAACTATCTCTCTATCCCCCAACATTTTTTCTTTTTTGGGATCGGGCCCTATGTAGCCCATGGTGGCTTCAAATTTGCTTAGTAACAGTTGATGGCCTTGAATTTATGATCCTCTTGCTTCCACTTCTTGAGCTGGGATGACAGATATGCATCACCACACCCATTTTTATGCTGAGATGGAAGCTGGGGCTGTATACATGCCAGGCAAGTACTGTACTGAGCTACAGCCCCAGCCCTGATAAAGTAACATTTTCAGAGCATAAGCCTCCTCCCTTGTGAGCTGAGCTTGTTATTAATAAATAGTTATCCTAATAAGCAGCATGCCTTGCCATCCTTCTTTCAAGTTGTAGATGGGGCAGGACTGCTCTAGCCTTCTGTGGCATGTGGGGGTGGGAAGAGCATTGAATGAGGATTCTGAACAACTGAGTATTCATACCTCTCTCTTTTTCCATAAG
Seq C2 exon
GTCCTTCAGAGGACTCAGGCTGCCTTCAGGAACGAAAAATAGCAGCAGAAATGATGTTGGTTGATTGCCTGACAGATGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059475:ENSMUST00000115562:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.972 A=NA C2=0.339
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGTGCCACTGTCCACT
R:
TCATCTGTCAGGCAATCAACCA
Band lengths:
198-1852
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