MmuINT1035642 @ mm10
Intron Retention
Gene
ENSMUSG00000045519 | Zfp560
Description
zinc finger protein 560 [Source:MGI Symbol;Acc:MGI:1915280]
Coordinates
chr9:20350532-20351964:-
Coord C1 exon
chr9:20351838-20351964
Coord A exon
chr9:20350613-20351837
Coord C2 exon
chr9:20350532-20350612
Length
1225 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
GCATCTTTCCTCATGTGTAGGAT
3' ss Score
9.14
Exon sequences
Seq C1 exon
GAGTCAGTGACCTTTGAGGATGTGGCTGTAGACTTCACCCAGGAGGAATGGATTTTATTGGACACAAAACAACGGAACCTTTACAGAGAGGTGATGCTGGAGAACTACCAGAACCTGGCTACATTAG
Seq A exon
GTGAGATTCTTCTCATTCCCTGTAGACTCTTATAAAAACCAAATTATTTATATTTTTCTAATTACATTTTGTTATTTTATGCTGTGTGTGTGTATGTGTGTTTCTGTGTATTATAGTTCACAAATGGAGTTCAGGGGACAACTTTTGGGAGTCATCTCTCATTCTACCATTTGAGTTCTAGGGACGAAACATGAATTTTCTTTGTTTTAGGATTTGTGATAGCAGCTCTAAGGACAGTTGAAAATAACAGAGATCTGGGTGTGGTGGTGGATGCCTTTAATCCCAGTACTAGGGAGACAGAGGCAGGAGGATCTCTATGCATTTGAATATATAGAGACTCTTTTAAAAAATAAAACAAGCAAAAAACAGTCAAGAAGAAGAGAGGAAGGGAGGGGAGAGGAGGGGACAAAGAGAAAGAGAAAGGCCTCATACTCTCTCTTATTATGTTTTCATCTGCCCTGTTGTGTCTTAAGATATAGCCCTAAAATCAAGTATTGCTATTGTGCTCCATTAAAAGGAAATTATCAGGCTATCTTTGACAAACTGAGTCAGAAGTATTATCTGGTGTCCTACTCGTCTCTGTTTTGATGGTGCTTCCATAGGATTTGGATGCACTGCATTATTTAACTACTAGCATCATTTTTTTTCTCCATGATAACAAAGATCTTGTGGATGTGGTAGCACATGCCTTTTATCTTAGTACTCCAGGAAGTACAGACAGGCATATCTGAGTTCAAGGCCAGTCTAGTTTACAGAGTTTTAGGCCAACCAAGGCCATACAGTGGAAATCTGTCTCACTTTTATTTTCTTTTATATTTGATTATGTTTGATTAGTACTTAAAAGTGTTTTGTTTGCATTAATTTTATGTTTGTCATAGTGTATACCTAGAAGTCAGGAGACAATTTGTGGGAGTCAGTTTATTCCTTCCACCATGTCCCAGGCATATAAACAGGTGGTCAGGCTTAGTGGCAAGCGTTTTACCTGGTGAGCCATCCAACTGGCCCAAAATTAGTGTTTTGTCTTGTCTTTGTTACTATCACTTTAGGCTTTAAAGGTATGAAGAAGTCAGTACCTACCAACACATATAAGGTCTGTTTACATATTGAGGTCTTTAGCAGTATTCCATTTTATTGTCATTGGAACGGAAGTTTCTAAGTCATGGAAGGTATATATACCCTTTCTTGCATGATCTGCTTTCACTAATGCATCTTTCCTCATGTGTAG
Seq C2 exon
GATGTCAGCTCATCAAATCTAGATACAGCTTTTGCTTGGAGGCTGAAGAGTTGAGAGTAGTCAAGAAAAGAGTTCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045519:ENSMUST00000068079:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GTCAGTGACCTTTGAGGATGTGG
R:
CTTGGTGAACTCTTTTCTTGACTACT
Band lengths:
206-1431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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