HsaINT0187658 @ hg19
Intron Retention
Gene
ENSG00000171469 | ZNF561
Description
zinc finger protein 561 [Source:HGNC Symbol;Acc:28684]
Coordinates
chr19:9728767-9730258:-
Coord C1 exon
chr19:9730108-9730258
Coord A exon
chr19:9728856-9730107
Coord C2 exon
chr19:9728767-9728855
Length
1252 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CCTTCTTACTTTTCCACTAGGGT
3' ss Score
10.52
Exon sequences
Seq C1 exon
GACCGCAAATAACCCTGTACAAAGAGGAATGGAGATTGCCTCTATCCACCTAGATTCATAAGCTGGCCTGAGGTGATCTTGGCATCAAGGAAGGGATGCACATCATCACACCATCAGCTTCAGAGAATGGCAGCCATTTATTTGTCCCGTG
Seq A exon
GTAAGTCTTTGTTGATGCTCTTTTTCAGAGATTCTGCTTTAGGTCACCCTCCACAACACAAGCGTCCAGTGAGCTGAGCCTGAGCAGGCATGCAGCTGGTTCTTTTAGGAGGAATTGAAGTGAACCACAGAACAGAATGCTGTTTTATTATTTATTTATTTATTTATTTATTTTTGAGACAGAATCTTGTTCCGTCACCCAGGCTGGAGTGCAGTGGTGCAATCTTAGCTCACTGCAACCTTCACCTCCCAGGTTCAAGTGATTCTCTTGCCTCAGCCTCCCAAGTATCTGGGACCACAAGCACATACTGCCAGACCTGGCTAATTTTTGTTTGTTTGTTTGTTTTTGTTTTTGAGACAGAATCTCACTCTGTCTCCCAGGCTGGAGTGCAGTGCCTGTGGTCTCGACTCACTGCAACTTCTGTCTCCTGGGTTCAAGTAATTCTCTGCCTCAGCCTCCCATAATTTTTCTATTTTTAGTAGAGATGGGGTTTCATAATGTTGGCCAGGCTGGTCTCAAATTCCTGACCTCAAGTGATTTGCCCGCCTTGGCCTCCCAAAGTATTGGGATTACAGGCATGAGCCACTGTGCCCAGCCAGAATGCTGTTTTAGAATTCAGCCCTGGTTTGTGTACCTTAGGAAATGCTACATAAGCTTCATGAGTGTTACTACTATGGGCAGATAGAGAGTCACTTTTTTTTTTTTTGAGACGGAGTCTTGCTCTGTCACCCAGGCTAGAGTGCAGTGGCACGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTATAGATGCCCACCACCACATCTGGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCGTGTTAGCTAGGATGGTCTCGTTCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGGCACCGCACCTGGACGAGAGTCACATTTTTCAGGGTGTAAGTTTCCTTGAAAAATGAAACTATTACCCTTTACCCAACAGGCAGTTTGGCCCAAGTCTGCTTTTGTGTCTAGCTGACACAGGACTTACTATGGCATTTCATGGAAGTGTTGTGTGTGTAGTTTTCTCGAGTGTGTAGGAGCATATCGGAATTTCAAGCTAGGATGGAATGACTTCTAGGCATGAGAATGTGGGAAGGATGGGCAGCTCTGGCTTCTCATGCCTTCTTACTTTTCCACTAG
Seq C2 exon
GGTTTTTTTCCAGGGAACCAATCTGCCCTTTTGAAGAAAAGACAAAGGTAGAAAGGATGGTGGAGGACTACCTGGCAAGTGGTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171469-ZNF561:NM_152289:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF080087=Viral_cys_rich=PU(7.5=44.4)
A:
NA
C2:
PF080087=Viral_cys_rich=FE(54.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GACCGCAAATAACCCTGTACA
R:
GATAACCACTTGCCAGGTAGTCC
Band lengths:
238-1490
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)