HsaINT0187647 @ hg19
Intron Retention
Gene
ENSG00000188321 | ZNF559
Description
zinc finger protein 559 [Source:HGNC Symbol;Acc:28197]
Coordinates
chr19:9451778-9454521:+
Coord C1 exon
chr19:9451778-9451860
Coord A exon
chr19:9451861-9452370
Coord C2 exon
chr19:9452371-9454521
Length
510 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCATTAATTTTCACCAACAGGAG
3' ss Score
9.68
Exon sequences
Seq C1 exon
ATTGGGAGAGTCATATTAATACCAAATGGTCAGCACCTCAGCAGAATTTTTTGCAGGGGAAAACATCCAGTGTGGTGGAAATG
Seq A exon
GTAAGATTCAGAAGGTATAATTTATTGTCTTCCATGTTAGAGGAAGATTGGAAATTCCTTAAAATGGAAAAGCAGCACAATAACCTTGAGACATTTGAGACTAGTGTTTTTCACCCAAAAATAATCTGTCTCTTGGAGAGACTATGGATCATGAGTTTGACAAACACTCTAAACATCCCTCAGAATATATTTGTTTACATATTTCCTTCAACATTCCCATATGTATCTCAGATGTTTTTGATAAATAATTCACTCTTGGGCCGTTATCAGCTAAGCTCTATTTAGAAGCCCTCTGAAAGTAAAGAATATAACAGAACTTCCTGCAGTCACTTTGTTCCACTTGAAAACACTCAGGTCTGAACCATGCCTTGCAATGAAAATGGCAGGAACAAACAGTTTCAATTATACTAACTTATTTTCCATGTGTAACAGAATTCAGAGTAAAAGGGAGAATCTCAATGAAATAAATTTGGAAAACTTCTATGAACCATCATTAATTTTCACCAACAG
Seq C2 exon
GAGAGAAACCATTTTGGAGAGGAACTGTTTGACTTTAACCAATGTGAAAAAGCCTTGAGTGAACACTCATGCCTTAAGACTCACAGGAGAACTTACTTTAGAAAGAAAACCTGTGAGTGTAATCAATGTGAAAAAGCCTTCAGAAAACCCTCTATCTTTACTTTACACAAGAAAACTGATATCGGAGAGGAACTTCCTAACTGTAATCAATGTGAAACAGCCTTCAGCCAACATCTACATCTTGTTTGCAAGAAAACTAGCCAAAATCTACATCTTGTTTGCAAGAAAACTCACACTCAAGAGAAACCATATAAATGCAGTGACTGTGAAAAAGGCTTACCTTCCTCCTCACACCTCAGAGAATGTGTAAGAATTTATGGTGGAGAGAGACCATATACTCATAAGGAGTATGTCGAAACCTTTTCTCATTCTACAGCCCTTTTTGTACACATGCAAACTCAAGATGGAGAAAAATTCTATGAATGTAAAGCATGTGGGAAACCCTTCACTGAGTCGTCATATCTTACTCAACATTTAAGAACTCATAGTAGAGTGTTACCTATAGAACATAAGAAATTTGGCAAAGCCTTTGCTTTTTCCCCAGATCTTGCTAAACATATAAGACTTAGAACTAGAGGAAAACACTATGTTTGTAATGAATGTGGCAAAGAATTTACTTGTTTCTCAAAACTCAACATTCACATAAGGGTTCACACTGGAGAAAAACCGTATGAGTGCAACAAATGTGGGAAAGCCTTCACTGATTCATCAGGTCTTATAAAACACAGGCGAACTCACACTGGAGAAAAGCCTTATGAATGTAAGGAATGTGGGAAAGCTTTTGCTAACTCTTCACATCTTACTGTACATATGAGAACTCACACTGGTGAGAAGCCTTATCAATGTAAGGAATGTGGAAAAGCCTTTATTAATTCCTCTTCCTTTAAAAGTCACATGCAGACTCATCCTGGTGTAAAACCCTATGACTGTCAACAGTGTGGGAAAGCCTTCATTCGATCCTCATTTCTTATTCGACATTTGAGAAGTCACAGTGCAGAAAGGCCTTTTGAATGTGAGGAATGTGGGAAAGCCTTTAGATACTCCTCGCACCTTAGTCAACATAAAAGAATACATACAGGGGAGAGGCCATATAAATGTCAAAAGTGTGGGCAAGCCTTCAGTATCTCATCAGGCCTTACAGTACACATGAGAACTCACACTGGTGAACGGCCCTTTGAATGTCAGGAATGTGGGAAAGCCTTTACTCGGTCCACATATCTTATTCGACATCTAAGAAGTCATAGTGTGGAGAAACCATATAAGGAATGTGGGCAAACCTTTAGTAATTCCTCATGCCTTACTGAATGTGTGTGAATTGGGGCTGATACTTGGAAAGAATGTGGTAAAGCCACTACTTCCTCACACTTACTGAACATGTACTCATTCATAGTGGCAATGTACACAGTCATAAGGAATGTGGGAAGCCTTCCTTGGTGTCTCAGATCTTAACAATTCCAATAGAAGAGAAGACATATGAATGTAAGGAATGTGGGAAAATCTTGGCTCCTTCCATAGGCCTTACTATTCATGTGTCTGTGCATCCTAGGAAACAAACTGAACGTAGGAAACCTGTCGATGCTTACATCTTACTGAGTCTGTTTGAACTCATGCTGGAGAGAAATGCTATGAATGTGAGGAAGGTGGAAAAGCTTTCATTATTTTCCTCGGGCCTTACTGAGCTTGTGAGCACATTGGATATAAATGCACGTCCTCTGGCTGTAAGGAATGTGTTGAAACCTTTCACTCTGCCTTATACCTTAATATTCAGCTGTGATCTCACAAGTGTGAAAAATCTTATGAATGTAAAATGTGTGGAGATTCTTCTTTGTTTTTAGCTTCCACTTTGGGAACATGTCAAAGCACACATTGAGAAGTCCCATGAGTGAAAGAGATGTTGGAAAGCCCTTGAACTTGGTCGTTAGGAAACATCCACACTGAAGAGGAACCTGACTGTATGGAAGGTCAAAAAGGCTGTATTAATTTACATGCAAAAAGTCACACTAGAGGAATGCCATATCAGAATGCTTTTGGTAAATATACATGTTTTAAAGAGGTTATATATCATTAATAAAAATATCTAGCTGGTCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188321-ZNF559:NM_032497:5
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:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.2),PF0009621=zf-C2H2=WD(100=5.0),PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=5.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GGTCAGCACCTCAGCAGAATT
R:
TGAGTGTGAGTTTTCTTGCAAACA
Band lengths:
355-865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)