HsaINT0185872 @ hg19
Intron Retention
Gene
ENSG00000187626 | ZKSCAN4
Description
zinc finger with KRAB and SCAN domains 4 [Source:HGNC Symbol;Acc:13854]
Coordinates
chr6:28215845-28217612:-
Coord C1 exon
chr6:28217465-28217612
Coord A exon
chr6:28215928-28217464
Coord C2 exon
chr6:28215845-28215927
Length
1537 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
AGAGCTTCTTTCTTTCTTAGTTC
3' ss Score
6.64
Exon sequences
Seq C1 exon
GTTCCCGTTGGTGACCAGGGGCAAGAACTGCTCTGTTGCAAGATGGCACTATTGACACAAACTCAAGGGTCTCAAAGTAGCCAGTGCCAGCCAATGAAGGCTCTGTTCAAGCATGAATCTCTGGGATCCCAGCCCTTACACGATAGAG
Seq A exon
GTGAGTATTCTCTTCTGGGTTGTATGAATTCTATAGACTTCATCCAATTTCATTTAAGGATCACCTAAAAGATCCATTTACAGTTACTTTATATACTCATCACAGAGAGCTGTATTTTAAGACTGAGACTAAGAGAAATTTCAAACAATGGTGAAAAACTTTCCTAACCAAACTAGGACATAGTAAATCTGATTTTATTAAAATTGATGTCTAGAAAGAATCGGTTTTTTAAACAACATGGTGATCTCCATTCATTAGATATATTTAGGGAGCCTTCATCTATGGTAGCCAGTGTTGTAGGCACTGGGGAGAGAGCCACCAATAAGACAGAATTCTTGCTTTGATGGAGCTTACATTCTAGCAGGGAGGATAGAAAATAAATTAATAATATAATTTTAGATATTGTTAAGTGCTATGAAGAAAATAAGGCAGAATTTGTAAAGCCAGCCAGAACATTCCAGAGATAGTAGGACTGCTGCAAATAGAAGAGTGTAAATCTAAACCCTGTAAAGCCTGTGACTAGAAGAGTGAAAATCACTTAATAGGAAGCAGCTGTGTGTTCCATGCTGTTCCTCATCTGCTGTGAACATCTGGGCCGATTCCTAAGACATACAACACTTGGACATGCCATCCAACATGCAATCTTTATTTCTCAGCAGAGTTTCTGGCCTAAACCAACTTATTTTCTGCCCCTTGCAAATTGACTTATTGTAGGGAAACCTAAGGTTTCTTCTGCTTCTGAGTCTGAGCAAGTTCTATTTAAGCAGTCTTCCAGTCTTCCATTGCCTCCTTTCTGGACCCAGCCTTATTTGACTCCTCCTAGTTTTTCTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTGAGATGGGGGTCTCACTCTGTTATCCAGGCTGGAGTGCAGTGGTGAGACCTTGTCTCACTGCAACCTGTCTCCCAGGCTCAAGCAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGAGCACAGGCCCATGCCACTACACCTGCTAATTTTTTGTAATTTTGGTTCAGACAGGTTTCTCCAGGTTGCCCAGGATGGTCTCGAATTCCGGAACTCAGGCAACCCACCTGTCTCAGCCTCCCAAAGTGCTGCGATTACAGGGATGAGCCACTGTGCCTGGCCTCCTCCTAGTTTTTCATACCTGAAGTGGAAAGCATCCTAATATCTACTAAAGACATTTTAACCAAAACAAAACAAAAACAAAAAACCCTCTTTACTCCCCATCTCCTAGCAAAATTCAAAACCCAAAGGTCTTCAAATGGAAAGCTTTGTTATGTTGCATTCATTTCACCACTCCTACCAACGATTCTGCACGTGGTTTTTGTATATCTGCAGAGTGCACCAGACTTCTTTCGGCCCTAGGGCTGGAGCTGGTGGGAATCAGGCATTTTTGAAAGGAACACATTCTGTATAAACTTATTGGCAAGAACTTACTGCCCCAGTTTTTGAACTTGGATTTTGCAAGGTGGGGAGGCTGAATACTAGGGTAGTTCTCATCCAGAGCTTCTTTCTTTCTTAG
Seq C2 exon
TTCTCCAGGTTCCTGGGCTTGCCCAGGGAGGGTGCTGCAGAGAAGATGCAATGGTAGCTTCCAGGCTCACTCCAGGGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187626-ZKSCAN4:NM_019110:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PD(0.1=0.0)
A:
NA
C2:
NO
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:
GTTCCCGTTGGTGACCAGG
R:
CTGGGACCCTGGAGTGAGC
Band lengths:
231-1768
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)