HsaINT0187656 @ hg19
Intron Retention
Gene
ENSG00000198028 | ZNF560
Description
zinc finger protein 560 [Source:HGNC Symbol;Acc:26484]
Coordinates
chr19:9577031-9579863:-
Coord C1 exon
chr19:9579781-9579863
Coord A exon
chr19:9579011-9579780
Coord C2 exon
chr19:9577031-9579010
Length
770 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
GTTCATTCCTGTGTTAACAGGCA
3' ss Score
6.47
Exon sequences
Seq C1 exon
AATGGAAAATGTGCCTGAAAACCAAAGGGCCAGCCCTTTGGCAAGATAATTTTTGTTTAAAAACATTAAATGGGATACAGTTG
Seq A exon
GTAAGATTAACAAAAGAACTTTCTTATTTTTCACATTCAGAGAAGACTGGTATTGCATTATAGAAATCAGCAGAAATGGCCAGGCACGGTGGCTCATGCCTCTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCGGATCATGAGGTCAGGAGTTCGAGACCAGCCTGGCCAATATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGTGTGTACCTGTAGTCCCAGCTACTTGTGAGGCTGAGGCAGAAGAATTGTTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACTGCACACTACAGCCTGGGCAACAGAGCGTAACCCCATCTCAAAAAAAAAAAAAAAAAAAAGAAATCAGCAGAAATGATAGATATTTGAGAGAAGTGGCATTCACCCAATTCACCCAAGGGGAGAAATATCTGGAGAGAGATCCCATACCTTGTGTGAAGCTTGGTACTTAAGACTTCCCATGAATGTTCATTCCAACATGTATAACTAGACATTTGAGTTTTTAAAATAACTTCATGAAAAGCTACAGGAATCTTGCCAAGATTAGAGCAGATGACATAGGATTCTTACAGTAGGGTTCCATTATTCAAGTTGAAGGAAATCCAAAAGGTAGAAACTATATGCATGTTATAAAAGTGGCAAAAATAATAATTATCATGTTTCTTAGAAGAGTGGTATCTATTAATAAGTCTGCTAAAATGCTTCCTTTATTGTTCATTCCTGTGTTAACAG
Seq C2 exon
GCAAGAAACCAAAATGGAGAGGAACTCTATGACTGTAAGCAATGTGAAGATGTCTTCTGTAAACATCCATGCCTTAAGACCAACATGAGTACTCAAAATAGAGGCAACACGTCTGAATGTATTCAGTATGCAAAAGACCTCCTTTCTCTATACAATAAAACCTCTACCATAAGGAAAGTTTCTGTGTTCAGTAAGCATGGAAAATCTTTCCGCCTGATTTTAAATGTTCAGGTCCAGAGAAAGTGTACACAAGATAAATCCTTTGAAGGCACTGACTATGGGAAAGCCTTCATTTATCAGTCATACCTTGAAGCACACAGGAAAACTCAGAGTGGAGAAAAACTCAATGAATGGAAGCAATGTGGGGAAGCATTTACTCACTCCACAAGCCATGCTGTAAATGTTGAAACACACATTATTAAAAACCCCTATGAATGTAAGGAATGTGGAAAAGATTTTAGATACCCTACCCACCTTAATAATCACATGCAAACCCACATTGGGATAAAACCTTATAAATGTAAGCACTGTGGCAAAACCTTCACTGTGCCGTCAGGCTTTCTTGAACATGTACGAACTCACACTGGAGAGAAGCCCTATGGGTGTAAGGAATGTGGTAAAGCCTTTGGTACATCTGCAGGCCTTATTGAACATATAAGATGTCACGCCAGAGAGAAAACCTTTAAATGTGACCACTGTGGGAAAGCCTTTATTTCTTACCCATCTCTTTTTGGACATTTGAGAGTTCATAATGGAGAGAAGCCATATGAGCATAAGGAATATGGGAAGGCCTTTGGTACATCCTCAGGTGTTATTGAAGATAGAAGAAGTAACACAGGACAGAAACGCTTTGATTGTGACCAGTGTGGGAAAGTCTTTGTTTCTTTCTCATCTCTTTTTGCTCATTTGAGAACTCACACTGGTGAGAAGCCCTTTAAGTGTTACAAATGTGGGAAACCATTTACCTCTTCTGCCTGTCTTCGTATTCACATGCGAACTCACACAGAAGAGAGACTCTATCAATGTAAGAAATGTGGTAAAGCTTTCACTAAGTGCTCATATCTTACCAAACATTTACGAACACACGCTGGAGAGAAACCCTATGAATGTATGAAATGTGGGAAAGCCTTCACTGAGCGCTCATACCTTACTAAACATTTACGAAGACACAGTGGAGAGAAGCCATATGAATGTAAGAAATGTGGAAAAGCCTTCACAGAACGCTCAGATCTTACTAAACATTTACGAAGACACACTGGAGATAAGCCCTATGAATATAAGGACTGTGGGAAAGCCTTTGTTGTCTCCTCCAGTCTAGTTGATCATTTAAGAACTCACACTGGATATAAACCCTATAAATGTAATGCATGTGAAAAAGCTTACAGTAGGTCTTGTGTACTAACTCAACACTTAAAAACTCATGCAGCAGAGAAGACCTCTGAATGTAACGCATGTGGAAATTCCTTTCGAAATTCCATGTGCTTTCATGATCGCTTAAAAACTCTCACCAAAATAAAACCCTATAAATGTAAGGACTGTGGGAAAGCCTTCACTTGTCATTCAGATCTTACTAATCATGTGCGAATTCACACTGGAGAGAAGCCCTATAAATGTAAGGAATGTGGGAAGGCCTTCCGTACATCCTCAGGACGTATTCAACATTTAAGAACTCATATGGGAGAGAAACCCTTTGAATGTGACCAGTGTGGGAAAGCCTTTGCTTCTTTCTCAGCTCGTATTGCACATTTGAAAACACACTAGAGAGAAGCCCTGTGGATGTGAAGAATGTGGAAAAACCTTTGCTGTTTCCTCAAGCCTAACTGAACATGTAAAAATTCACAGGAGAAAGTAACACTATCAATGTAAGGAATGTGAGAAAGCCTGAACAGTTGAATCTTTCTAGATATGTACAAACTCACACTGTAGAGAAACCCTGTAAATGTAAGGGATGTAGGAAAACACTAGTTCTTCTCTCTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198028-ZNF560:NM_152476:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF139121=zf-C2H2_6=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=3.7),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAAACCAAAGGGCCAGCC
R:
GGCTTTCCCATAGTCAGTGCC
Band lengths:
357-1127
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)