HsaINT0187002 @ hg19
Intron Retention
Gene
ENSG00000178338 | ZNF354B
Description
zinc finger protein 354B [Source:HGNC Symbol;Acc:17197]
Coordinates
chr5:178286954-178288081:+
Coord C1 exon
chr5:178286954-178287128
Coord A exon
chr5:178287129-178287997
Coord C2 exon
chr5:178287998-178288081
Length
869 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GGCTCCCTTTTTCTTCTCAGATC
3' ss Score
9.73
Exon sequences
Seq C1 exon
AGCGGCCGCCTTGCTCCTCTAGGTCCCAGGCGCTCTGCGGAGCTTTCGCTGCCCGGTGAGCGGCGCCGGGCTTGAGGTCGCCCAGACGTCGGAGGAGCCGGGTCACGAGGCTGGAGCTTCCTGCTTGCAGAGTGCGGCGGGGAGGCGCGGCCCGGGAACGCGGGATCCTGGGGAG
Seq A exon
GTGAGCGGCATGGCTGGCTGTGCCGGGAGGAGGCGGCGCCTGGCGCCAGGGCGACCTGAGGCCGCGGGGCTCCGAGGGCCTCTGTGGGCGCGGGGGGGCACCCCCGCGTCTGTCACCGGCCCCCGCGCCAGGACTTGGACTCTCGCCCCTCACGGGCCGCTCCGGTGCCGCTGCCGACGCCCCTGCCTCTGGCTCGCGCCGCCCGCCGTGAACGCGGGGCCAGGCGTTTCCTCCCGGGCCCACCCTGCGCGCGCCGTGTGGGCCTCGCGGACTCGGGGCGCCGGGACCCCGAGCGCAGGGCAGAGGCAGCCGGGCCCGGTTTCTGAGTCAGTCCCCAGGACGGCCACTCCTCCTGCCTCGGGACACCCAGCGCTTTCCTCTTCAAAGCCGTTTTCCGTGGAGTCGGGAGACGATTCGTTGGCGGGAGAGAGAGGAACCGGCTGGGAAAGGCTTGAGGCGGAGGGAAGTCGTCCCGGGGCCGTCGTGGTGGGAGTCCCGGCCCGCCTCGCAGCGGCGTGAACGGGGCAGGTGCCCCGGCGCTGCCTCAGTTTCCTGAGCGGTGCAGTGGGTGCTGGCAGTGCCAGCTGGCGCCGAGGAACTCAGCGGCGTGGGGCGAGCCCTGGCCCTGGTGGGCTCAGCGGGTCGCTGCTGCCACTGCGGGTCCAGCGTCCCCTCCGTAAGCCCCAAGCCTGTGGGGCCTGGGCCTGGCCGGGCGGCCCAGCGCTGCTCTGGTCCGCGGGCTCCTGGCTCCTCCCGAATCCCTGTGAGGGCGCGCGGGGTCCTTCTCAGCGGGAGTCGGGGTTTTAGAGCTGCGGATTCCAGGGCTGGAAAGCAGAAGGGGTTCTTCCTGGCTCCCTTTTTCTTCTCAG
Seq C2 exon
ATCTGCCTTCTGGAGACTGCGCCGTCCTCCCGGGAGAGCCAGAAAGAGGACATGGCTGCTGGGCAGCGGGAAGCGAGGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178338-ZNF354B:NM_058230:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.455
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF139001=GVQW=PU(5.3=18.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
GCCTTGCTCCTCTAGGTCCC
R:
CCAGCAGCCATGTCCTCTTTC
Band lengths:
230-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)