HsaINT0187318 @ hg19
Intron Retention
Gene
ENSG00000178187 | ZNF454
Description
zinc finger protein 454 [Source:HGNC Symbol;Acc:21200]
Coordinates
chr5:178368194-178369825:+
Coord C1 exon
chr5:178368194-178368445
Coord A exon
chr5:178368446-178369685
Coord C2 exon
chr5:178369686-178369825
Length
1240 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
ACCCAGTTCTCTCCTAATAGCAG
3' ss Score
5.11
Exon sequences
Seq C1 exon
AGTTCGGCTCCCGGCTGCAGACTCCAGCTCATTGTGTTCTGACTGCGATGTGGCGCTTGCGATCTCTCGCCGCCGGCAGAGGCTCCTCGAAGAGCGACACGGGGCTGACCAGGCACGGTGGTCAAAGCCGCAGAGGGAGAGCGGGAGCGGTCGTGAGGTCGTCTGGGGAGAAGGGCGGAGGCAAAGCCGAGGAGGTGCGGGTTGTGGTCCATTCTGGAGGACGCTGATCGAATGCCCCAAACTTCCCGGAAT
Seq A exon
GTATGTCTGAGATTTGATCCCAGAGAGGGAGGACGGCCAGGGGTGGTCATCCTGGGCTGAGGGTCGAGTCTGTGAGTGCCTGTGGAGGAGATGGAGCCAGGGCCTCTGGCATGTGTCTTGGAGCGGACTCCGAGAAGCCCAGGGTTTCCTCTCAGGTGATAGATACACGCCTGGCGTGGTTCCGAGTCCTGCGCCAGGAACTCGCCAAGGCCGGAGGCAGCCGCTGCGCAGCCCCTGCCACAGCCCCCGAGGGACCTGGCGAAGCGGCAGGGGCGGGACGGGGCTGTGTGTGATTAGGGTTCCTAACCCTTCCCTCTCCCCTCCCGCCCAGCTCACACAAACGCCGCTTCTGCCCACCCGTGACTCCAGGCCACCCAGACTGGGCCCCAGAGAGTGAGAACACTGAGGCCAGAGAAGGGTTTGCCTGAGAGGCTTCGACAGTGAAGAGCCTTCTTAGCCTCCTTTCTGAGGAGGAAGAAGACCACCCTCCTTTTCCTCTTCTCCTGTCACTGCCAGATAAGGCAGCTGTTCCAAAGCCGCAGAGGGAGAGCGGAGCGGTCTTCCAATCCAGTCGAACCCAGACACTGCCCTCCGTTGCCTCTCCCCAGCGCTCCCACCTTTTCGGGTACATCCTGGTGGGTTCTGGAGCTGAATAACTTGTTAAAGAGATAATTCTCGGCCGAGTGCGGCGGCTCACGCCTGTAATCCCAGTACTTTGGGAGGCCGAGGCGAGCCGATCACCTGAGGTCCGGAGTTCGAGACCAGTCCGACCAACATGGTGAAATCCCGGTCTCTACTAAAAATATAAAAAATTAGCCGGGCGTGGTGGCGGGTGCGTGTAATCCCAGCTACTCCGGAGACTGGGGCGGGAGAATCGCTTGAACCCGGAAGGCGGAGGTTGCAGTGAGCCAAGATCGTGCCACTGCACTCCAGCCTAGGTGACAGAGCGAGACTCTGTCTCAAACAAACAAACAAAAAAAGAATTCTCTTGAGATCGCTCAGTGAGGCTGAAGGGAAAGACCAGAGGGTGGGTGGAAGGCATGAGAACTGGACCTGGAGCAGGCTTTCTGCAGGGAAAAGTCAATGTATAGTACCCTCAGAAGGAGGAGAGAGAATGGGGAGCAAACAGGAACCAAAACACTCACTGCTTGGGGTACTGGAGGCCTCCCAGGATGTGAATGCTCACTGCCTCGCTCTGGACTGCTGTATGAGAGCTTTTGACCCAGTTCTCTCCTAATAG
Seq C2 exon
CAGGTGTGTGGACCCTTCTAGCCTGAGGAGTCCTGCAGGTGTGAAGCTCCACACCTGCCTCCATAGCACTTTGCCTGTCCCTAAGAGGGCTCATCGGAGAAGAAAGAATGGCTGTCAGCCACCTGCCAACCATGGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178187-ZNF454:NM_001178089:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
CTGCAGACTCCAGCTCATTGT
R:
TTCTTCTCCGATGAGCCCTCT
Band lengths:
342-1582
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)