HsaINT0187642 @ hg19
Intron Retention
Gene
ENSG00000167785 | ZNF558
Description
zinc finger protein 558 [Source:HGNC Symbol;Acc:26422]
Coordinates
chr19:8920382-8923319:-
Coord C1 exon
chr19:8923237-8923319
Coord A exon
chr19:8922740-8923236
Coord C2 exon
chr19:8920382-8922739
Length
497 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
ATTCATCTCTTAATCCACAGGAA
3' ss Score
9.62
Exon sequences
Seq C1 exon
ATTTGGAGACTCTACTTAAAGCCAAATGGTTAACTCCTAAGAAGAATGTTTTCAGAAAAGAACAGTCTAAAGGTGTAAAAACG
Seq A exon
GTAAGACTAACATGGGTGATTTCTGGTTTTCTACAGTAGGAGAATGCCTTAAGTTTAGAAAGGGCACAAAATAACCAGGAGAGGCATTAAAGGAAAGTGTCATTTATAATTGAGAATGCTGTGTTCCTGGAGAGACACTGTGAAAATTATAAATATTTAGAGAAGTGTGAGTTAGCTCCAAACTTATTTCTTCACGGAGAGTTCCCACAAGTAAATATTTCCTATCTGTGGCTCAGATATTGACTGTTGGAACAAAACTTCATCCACACGTTATCAGAAAATGTTTTGTGCATCTGATAAGGACTTGTGGCAAAGCATCTATGTTTTTTAACTTTCTTAGAGCTAAAACTGGGCAGAAATCACATACAACCACTGAAAGTAGCCAAAATATCAATTATAATAATGTAACAGAATTCCTGGGAGAGAAGATTCCTAGGAGAACATTAAGTATTTCAAATATTATAAATTATAGTTATCATTCATCTCTTAATCCACAG
Seq C2 exon
GAAAGAAGTCATCGTGGAGTGAAACTCAATGAATGTAATCAGTGTTTTAAAGTCTTCAGCACGAAATCTAACCTAACTCAGCACAAGAGAATTCATACTGGAGAAAAACCCTATGACTGTAGTCAATGTGGGAAGTCCTTCAGTAGCAGATCTTACCTTACTATTCATAAGAGAATCCATAATGGGGAGAAACCCTATGAATGCAATCACTGTGGGAAAGCATTTAGTGATCCCTCATCCCTTAGACTGCATTTGAGAATTCACACTGGAGAAAAACCCTATGAATGTAACCAGTGTTTTCACGTTTTCCGCACCAGTTGTAACCTCAAAAGCCACAAGAGGATTCACACGGGGGAGAATCACCATGAATGTAATCAGTGTGGAAAAGCTTTCAGCACAAGGTCCTCTCTCACTGGGCACAATAGCATTCATACAGGGGAGAAACCTTATGAATGTCACGATTGTGGGAAAACCTTCAGGAAGAGCTCCTATCTGACACAGCACGTAAGAACTCATACTGGAGAAAAACCCTATGAATGTAACGAGTGTGGGAAATCCTTCAGCAGTAGCTTTTCTCTTACTGTGCACAAGAGAATACATACCGGAGAGAAACCCTACGAGTGCAGTGACTGTGGAAAAGCCTTTAATAATCTCTCAGCTGTGAAGAAACACTTAAGAACTCACACTGGAGAAAAACCCTATGAATGTAATCATTGTGGGAAATCCTTCACAAGTAACTCCTATCTTTCTGTGCACAAGAGAATACATAATAGATGGATATGAATTACTGCAGGAACTTCTGGAGGAAAGCACTCATTGATCTTTCATCCCTAAGATAGTTTGAGAGAGCTCACACTGGATATATAAGTTATTTGTTGCAGCATAACAAATGATCCCCGCAAATTTTGTGGCTTCAAACACGAAATGTTTATTCTCTAACAATTTCTACAGATCAGGAATTCAAGAACAGCTTATCTCTGTAGTTACACTGCAGGATCTCTCATGCCTTTACTTACAATCAAGATGTCAGCCAAAGCTATAGTCATCTAACATCTTTACTGATGAACAGTCCACTTCCAAGATGACTTATTCACATGCCTGGAAAGTTGATGTTGGTTGTTGTCAGGGGACCTTCAGTCATTACCATGTAGGCCTCTTTACAAGGCCCAGCTCCTTGACAATTTGGCAATAAGTTCTCGCCAAGGTTAGTGATCCAAGAGAGGACCAATACAGAGGCCAAAATGGCTTTTATGACCTATCCTCAGGAGGACTGCTAAGCTTTCACTTATTTCCTATTGTGTTGGTCTCACAACACACCAATCCTGATACAATGTGAGAGACTGCAGAAGGTATGAATACCAGGAAACAGATAACTCAGAAGCATCTGGGAAATTTGCCATGGAATTAATGAAGAAAAGCCCTCAGCACATCATCCTTCTACTCTAATCAATATGAAATAGCATTCAGTAACTCCTATTAATTCACTCTGAAGAGAAACCTTTTGAGGACAATCTGTATGGTAAAGCTCTCAGCTCGAATTCTCACCTTCATGGGCCCAGAAGATTATGTACTGAGAGAATCCTGAAGAATGGAACAGCTGTAGAAAGCCTTCAGTGCTATCAGCAGGGATTCATGTGACAGCTCACACTAAGGGAGAAAACCTGTGAAGGTCTCAGAAGGCTTCAGTGACAGTCATCCCTTAAGACGCACTGGAAATCACACAATGGAACAACACTCAGAAATGCGGAATACCCTACAGCAAAAGTGTTCACATTACTGAGCAAACTATAGTGTGGTATTCTGCAGTGACTATGGGAAAGCCTTGAATGTTCTATCGGTTTTTAAGGGACTTGAGAATTAATTCTGGAGAGAATGCCCCATTGAACATCATCAATATTGGAGAGCTTTCTGTTTTTCTACATTTGTTAGGAAACTTGTGAGCATTCACACTACAGAGAAACTTGAAATATAAAGAAGAAGAGAAAGCCTTCAGTGATGCCTCTGTGTTAGGGAAAATATGGAACTTCTCCCTGGATGCAAAACCTATGAGTATATTAATATTGGAAAATTTTTCAGTGATTCTTCTCTTTCTTGTATATGAGAGAACTTATATGGAGAAACCCCTAGGAATGTAATCAGTGTTAGGATGCCTCAGCCTGAACTCTTCACTGAGTGGCCACAATTTTCACTGGGAACAAAAAGTATAATCACTGTTTTGAGTGTGGGATATCCTTTATCAGTGTCTCATCTGTAGATTGGACTGCTGGCTCATTAATTTTTTTAGTCTTTTTTTCTTTTAATATAAACATTTGTGTATAGCTGTTCCCTAAAATAAACATTAACATATTTCATAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167785-ZNF558:NM_144693:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.038
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAAAAGAACAGTCTAAAGGTGT
R:
TACAACTGGTGCGGAAAACGT
Band lengths:
354-851
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)