HsaALTA1046106-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000172000 | ZNF556
Description
zinc finger protein 556 [Source:HGNC Symbol;Acc:HGNC:25669]
Coordinates
chr19:2876093-2877376:+
Coord C1 exon
chr19:2876093-2876276
Coord A exon
chr19:2877273-2877275
Coord C2 exon
chr19:2877276-2877376
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
AATGTGCTACCCATTTTTAGCAG
3' ss Score
6.07
Exon sequences
Seq C1 exon
ATAATGAGGCTCAGCTTAAAGCCAGTGGGTCTATTTCTCAGCAGGATACTTCTGGAGAAAAATTATCCCTCAAACAGAAAATAGAAAAGTTCACAAGAAAGAATATATGGGCCTCCCTTTTAGGAAAAAATTGGGAAGAACATAGCGTTAAAGACAAGCACAACACCAAGGAGAGACATTTGAG
Seq A exon
CAG
Seq C2 exon
AAATCCAAGGGTGGAGAGACCATGTAAAAGCAGTAAAGGTAATAAACGTGGAAGAACCTTCAGAAAGACTCGAAATTGTAATCGTCATCTGCGCAAGAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172000-4-8,4-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.294
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=7.4),PF134651=zf-H2C2_2=WD(100=7.4),PF134651=zf-H2C2_2=WD(100=7.4),PF139121=zf-C2H2_6=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.1),PF0009621=zf-C2H2=WD(100=6.5)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACAACACCAAGGAGAGACA
R:
GTCTTTCTGAAGGTTCTTCCACGT
Band lengths:
96-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains