MmuINT0180102 @ mm10
Intron Retention
Gene
ENSMUSG00000022201 | Zfr
Description
zinc finger RNA binding protein [Source:MGI Symbol;Acc:MGI:1341890]
Coordinates
chr15:12152801-12154565:+
Coord C1 exon
chr15:12152801-12152997
Coord A exon
chr15:12152998-12154445
Coord C2 exon
chr15:12154446-12154565
Length
1448 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTG
5' ss Score
7.44
3' ss Seq
TTCTATTTTTCCACACCAAGGTA
3' ss Score
4.93
Exon sequences
Seq C1 exon
GTGGAAATAAGCTACAGTCAACAGGAAATAAAACGGAAGACTTAAAAGGAATTGACTGTGTTAAGAATACTCCTGCTGCCTCTGCTGTGCAGATTCCAGAAGTAAAGCAAGATGCAGGGTCAGAACCAGTCACACCTGCGTCCCTTGCTGCTCTGCAGAGTGATGTACAACCAGTGGGACATGATTATGTTGAAGAG
Seq A exon
GTATTGATCTGAGTAATCATTGCTCCAAAATTATGCAAAAGGAAAAATGTGTCAAATAATATCCAGCTTTATTTTAGATTTCAGTTACCTATAAAATTAAGGTTGATAATCTGATTTATACCATTCATTTGGTTTCCTTAGCTGACTAGGACAGTCCCTGTTTTCACGTTAAGTAAGCACAGTAAATAAGTAAAGGAACAAGGGAACATCCCACAGGCTTGAATTAATAGTTGCTATGAACAGAAGGATCATATAGTAGTGTTGTGTAACACTACAGTTTGCTATTACTCTATAGGAAGGCATGTATACATTTCCAAGGACTAATTTAGGTCTTTGAAATTGGGGTGTTTGCCCATCAAACTTGTGGTGATTGGATATAATTGAGTGGTTTTGGTAATTGACTGTTTCATAATCTGTCTATCAAGAGATTACATTATATATTGAGGTTTTTGTTTATGAAGGTACACAGTAATTTGTAAATTACTATCTCTTATAAAGGTAAGATTTGGTTACCTTTTAAAAACATGTTCTCAGACACCTTTATTTCTAATGATTTGGATTAGTTTAGACAATTTGACTCGTATTGTATTAATAGCACAATTTCAACTTAATAGTAACATTTGAATCAGGTTTTTTTCCATTGTGCAGTAGGAAAAAAGCCTGCATCTTAATCGACTTCATATGCACAGAAGTCTTGAGCTTTGAGAAGTTTGTATGTCAAAGTTGTGTTTTAAAATCACTCTCATCTCCAAGAAGCAAGTGTCAATAACATTTATGAATTTAAGGCATCTAACTATATTAAAGAGGCATTGTTGACTCATACAGGGTCAGCTTAAAATGGAACCAATAAACATTCAGTCATGGATGGTTCAGGGCCTCACGGAGCTAGACTGCTACTTGCAGATCTGCTGCCATTTGCTGACTGCTGAGAAGAAGTGCGAGTTATCTTCAGTGATGTAGACACTGGCACATTGCCCATGCTCCTGTAGATAAATCCATAGATCTGCCCACGCAGGTAGCCCAGTTGAATCTGTTAGATCACAAAACAAAAAGACATGGAATTATAAAAGCAGCTTATTTGGGGGAGAAGAGTTGGCAAAGATGGGAATGAATAATAGTAGATAGGATATGATCAGAATATATTATATATGTGTATGAAATGGCCAAAGAATTAATAGAAATGATTCAAAAAGAAATCCAAATACTTTCAGACAGATACTGAAGTGAAAGATACTTTACAAAGGCAAGTATATGCTGGTATTCATCACAGTCCCAGTTTCTATCCTTTTTAGAAAAGTTTGGTCTGCGAAGTCAAGAACAGAGATAGGTAGAACTATGTCAGTTCAAGGCCAGACTGGTCTACATAGGCCAGCACAGGCTACAGTACTGAGAAAGTGTTTCAAAGGTTACTTCCAAATTGGTCAAAGGTTCTATTTTTCCACACCAAG
Seq C2 exon
GTACGAAATGATGAAGGAAAAGTCATTCGCTTCCATTGTAAATTATGTGAATGCAGCTTTAATGACCCCAATGCTAAAGAGATGCACCTAAAAGGACGAAGACATAGACTTCAGTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022201:ENSMUST00000122941:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.803 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF128742=zf-met=WD(100=62.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAATAAGCTACAGTCAACAGGA
R:
ACTGAAGTCTATGTCTTCGTCCT
Band lengths:
311-1759
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