MmuINT0180085 @ mm9
Intron Retention
Gene
ENSMUSG00000022201 | Zfr
Description
zinc finger RNA binding protein [Source:MGI Symbol;Acc:MGI:1341890]
Coordinates
chr15:12084201-12086163:+
Coord C1 exon
chr15:12084201-12084320
Coord A exon
chr15:12084321-12086017
Coord C2 exon
chr15:12086018-12086163
Length
1697 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TGTATTATTGGTGTTAACAGAAA
3' ss Score
5.41
Exon sequences
Seq C1 exon
GTACGAAATGATGAAGGAAAAGTCATTCGCTTCCATTGTAAATTATGTGAATGCAGCTTTAATGACCCCAATGCTAAAGAGATGCACCTAAAAGGACGAAGACATAGACTTCAGTATAAA
Seq A exon
GTAAGTAAATGCTAACTATAGAACTACTGTCCTTTTAAGTTTTTTTACATACATTTTTATTGTTTTATGCATACGGGTGTTCTGCGTGTATGCATTTCTGTGCTTCTAATGTTTGCCTGTTGCCCAGAGAGGCCAGAAGAAAGCATTAGATTACTTGGAACTGGAGTTATAGACTGAGAATCAATTACAGCGCTGAGAATCAAAGTCTTCTGGAAGAACAGCCAGTACTCAGCCTCTGAACCAACTGTCTCTCCAGCCCTTGAGTTGTCCTTTTGTAAAACAAATAGCTCGTTCTCTATCTAAACACAACTCACATTCTAAATTTGCATGTCATATTGACACATTCACTTTGATAGAATAATAGTATGACTCTAATTATAGTGTAACTGGCAGAAGTAGAATATAGCAAAACTAATATAATTGCTTGGGTCAAGAAGTTGTGTAATGATAGTTGATTCATGTTAAATGTAAAAAATATCATCACTTCACCTACTCTCTCCCTCTTTGGTTTTCTGAGGCAGGATTTTTCTGTGTAGCATTGGCTGTCCTAGAACTCACTCTGTAGACCAGGCTGTCCTAGAACACAAAAGATCCACCTGCTTCTGCCTCTCAAGTGCTGGGCTTAAAGGTGTGCGCCACCACCACCTGGCTTTCACCTACCTCCATTATGATGGTACATTCTCAGTGAAACTAATTTGGAGCTAGTACTGGAAAATGTCTTCATTTATTTTATACTAGGAATTCATTGTCTACCTTCAAGTATTAACATATTAAAGTTGCAAAAGTATGGACTGGTAGAGTGGGTTGTGGTTTTTCTTTTACACACGGAATGGGAATATGTCACTCATGTAACTGGAATCACTCAATATCTGGCTCCAGCTGGATTAAGTGATAAACCCTTTAAGGCATATACTTAAAATCATCTTATTAACAAGCAAAATGAAAAGTCCTCCAAGGATTTTATGCTTTCCTGTCAAGTCATCACTAAGTTGCATAGTTTTTATATGTTCTTGATCATGAATAATTAAGCCTGTAACAAATATTTTCTCTGATTCAACCTAATTATACAGGTTGTACTCTTCAGTAGGAAATTTTTACAAATTCAAGGACAACTTGACACACATACACATACAGAGGAATGAATGTGTGTGTATACATATATACATATACATATATGTAATTCCGTCTGTAGCTTGCTAAGCGAGCTGGCATGCTCAGGCCCTGGGATGCATCCCTGCACTGCACATACTGGGTGTGATGGACAGTGTCTGTAATCTCCTCATTTCACTTTGGGTAGAAGCAGACAGAACAGTTTAAGGTCATCATCTATGTAAATACAAATCAGTTTTGAAGCCAGCATGGGTTACATGGTACCCTGTCTCACAAATCAAAACAAGAAACCAATGCATCTCTACAGCACAAAATGTGTTATTATAAGCCTCTGGTGAAAGACTGTAAAACTGTGTAATTAAAAATGGTTTGGGGCAGATGAAGGCACTTGGAACCTGTCTGGTAACCTGAGAGCAATCCCTGGGACCCACATGGGGAAAGGAGAGAACTGACTTATCCAAGTTACACTCTGATCTCCACTCATGCTACACATGCACAGACAAGAAGCACAAAAACAACTTGCTTTTAATGAATTGTTGGTTGAAGGAACCTGCTCCGTTTTAAAAATGTATTATTGGTGTTAACAG
Seq C2 exon
AAAAAAGTAAATCCAGATTTGCAAGTAGAAGTGAAGCCCAGTATTCGTGCCAGAAAAATTCAAGAAGAGAAAATGAGAAAGCAAATGCAGAAGGAGGAATATTGGCGGAGACGAGAAGAGGAGGAACGCTGGAGGATGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022201-Zfr:NM_011767:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.633
Domain overlap (PFAM):
C1:
PF128742=zf-met=WD(100=62.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACGAAATGATGAAGGAAAAGTCA
R:
ATCTCCATCCTCCAGCGTTCC
Band lengths:
263-1960
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: