MmuINT1035641 @ mm10
Intron Retention
Gene
ENSMUSG00000045519 | Zfp560
Description
zinc finger protein 560 [Source:MGI Symbol;Acc:MGI:1915280]
Coordinates
chr9:20351838-20352841:-
Coord C1 exon
chr9:20352753-20352841
Coord A exon
chr9:20351965-20352752
Coord C2 exon
chr9:20351838-20351964
Length
788 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
ACAAGCGTGTGTGATTGTAGGAG
3' ss Score
3.8
Exon sequences
Seq C1 exon
GTTTATTTTCTAGGAACCCAAGCTACTTTCATAATGAAAAAACAGAGATGGAAAAGACGGTGTCTGACTGCTGGACAAGTAGTTACCAG
Seq A exon
GTGTGACTAAAGTATATCCTGTTGTTACATCCATTCGGCTGACATGGTTCCATGTAGGCAGACTTTCTTCTCTAGAGCTTCTGGAAGAAAGGAAACCTCATTCAAGGACTGAGTGATTAGTTGTATTTCTTCCTGACTATTTGTAAGCCAGAATAAATCCTTTCTCCCTGAAGTTGCTTCTTGTCATATATTTTATTGTATCAATGAGAAAATTAAAGTTTTATATTGGTTTACGATTATTGTGAACATCATTTCAACGTTTCAGTAATTTGTAATAGATTTCACCCTCAGGACATTTATTATATATTTCTGATCTTACTGTGCTTTGACAGTTGATAAAAGGGATGAATGTTCTCCTTTCTGGAAGACTTTCTCCACCTCTCACCATTTATCAAGTGTGTGCAGTGTGTTTAGTGTATTTAAATAGAAGGAAATAAATGAGAAAGCCCATGTGGTCAGGTAGTGGGTGAAACAGTGAGATGTGTCAAAAGACAGGGATGAAGTCCAGACATGATGGTGCATGCCTTTAATCCCAGCACTGAGTAGGAAAAGGTGGGAGGAGGATAGAGACTTTAGTGTCAGCCAACCTGGCCAACTCTGTCATTAAAAATAAGATCAGAAAGTGAGAATTAATAGATATAAAGAGCACCTATGGCTATTCGCTGAACTCTGCCGTAGGCTGCTAGAGAACTCCCAACTCCGTGTAGGCATTGAATTCCTATCCTCAGTCTCCTGTGACCTTGGAGGGAGACGTTAGTTGGCTCAAATACAAGCGTGTGTGATTGTAG
Seq C2 exon
GAGTCAGTGACCTTTGAGGATGTGGCTGTAGACTTCACCCAGGAGGAATGGATTTTATTGGACACAAAACAACGGAACCTTTACAGAGAGGTGATGCTGGAGAACTACCAGAACCTGGCTACATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045519:ENSMUST00000068079:3
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:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GTTTATTTTCTAGGAACCCAAGCT
R:
CCAGGTTCTGGTAGTTCTCCA
Band lengths:
207-995
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