MmuINT0179459 @ mm9
Intron Retention
Gene
ENSMUSG00000045519 | Zfp560
Description
zinc finger protein 560 [Source:MGI Symbol;Acc:MGI:1915280]
Coordinates
chr9:20154976-20156408:-
Coord C1 exon
chr9:20156282-20156408
Coord A exon
chr9:20155057-20156281
Coord C2 exon
chr9:20154976-20155056
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-Zfp560:NM_001004190:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]
Other AS DBs: