HsaINT0187589 @ hg19
Intron Retention
Gene
ENSG00000240225 | ZNF542
Description
zinc finger protein 542 [Source:HGNC Symbol;Acc:25393]
Coordinates
chr19:56880235-56884652:+
Coord C1 exon
chr19:56880235-56880305
Coord A exon
chr19:56880306-56884525
Coord C2 exon
chr19:56884526-56884652
Length
4220 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GAAGTGTTTATCATTTTCAGGGA
3' ss Score
7.52
Exon sequences
Seq C1 exon
CTCTGCATTTCCAGGACCTGGTCACTATTCAGGACACGGTTCCAGCGCAGTGCGCGTTAGCCATGTCTCAG
Seq A exon
GTAAGTTTTTGTCCTGCAACATCATAGGTTTTAAGTCCTGGGCACATCTAATTTTGCTTACTTGGGTGGTAAAGACTGACACCGGTACAAGGCTCAGGTCTTTTCATTCAGCAACACGTGGGACTATAGCAACCTCTCTTCTCAGAGTCCATGTCCTGTACTTTAGTGTTCATTTATTCACTGAATGAATTAATCTGAGTCTCCACTGTCACCAGTCTTCTTTTAAGCACTGTGTGGTGGGTCAGAGATACATTCCCTGGAGAAGACAAGAGCCTTTATCCGGGGACTGTCGTCTTCCTGAAGTAGGGGTGAATACTCAGTCATCTTTGAATTCCTTTACAGCTCCAGACTGAGAGGACGCAGCATAGAAAATGCTTATGAGTGGTTCAGACTCAGTAATGGTAATCTGCCTTTGGAAATTTTGGGGAATGGGAATGTGATTGATATCTTAAGCATGAAAGTCCAGGTTAACAAAGTCAGGCCATTTACTAGGACATTAGTGAAAGAGAGTGTTGTGGATCACAGGTTCCAGTTTGACGTTGGGCAGCTTAAAGTCACAGGCTTCATCTGTGGAATTCCGGAAAATACCTATTGGCTTTCTGTAAATGAGGAACAAGAAGTATGCTGCAAGGGAGAAGATGGATGAGCTGGCTATATTTCCCAAAAAAGGGTTCTCTTCAGGGTGTTTGCATGGTCTCTGAAATTTTGTGCAAATACAACCAGATTTGATTCTTAGCCCGCTAAATGTAGTCACCAAGACATTTTGTTTGAAAAATAGATTTTCTTCTCAAAGGGGAAACTTACATTTTCTTTTAGGGAAACAGGCAGTATTTTCCCTACACATTCTGTTTGTTATGATGACTCAAGCTGTTCATGAAGTTGTTAAATTATATTTATGTATTTTAAAAGAAAAGTTGTTAAAAAAATTTCAACCGTCATATAACAACCATGCAGAAAAAAACATTTTTACCACTTTATTGTTTCTGTATTTTGATGTGAAGTATTTGAGCTTAAGGCTTTTTTTAACCACCAGTTCTTATCCCATTTCCTCCATACTTCCAATGCTTCCTTAACTCTGTTGATATTTTCACCATCAAGATAGATTTCCATCACTTCTGCAAGTATTTTTCATGTAGTTTTCCCTGCCCTGGCCCTCAGAGGAAACTAATTTCTTGTTTTGATGACAGTGGATTTGTTTTGCTTGGCTTCACGTAAATGGAGTCAAGTAGTCAGTAGGTGTGTGTCTGGCTTCATTAACTCAACATAATGATTTTAATGTTCATTAATGTCCATTATTTGTTGTTGTTTTGCTGAGTATTCCATTGTGTTAATATATTACAGTCTACTTACTCATTTTCCTGTTGATAGACATTTGGGATGTTTCTAGATTTTTGGCTATTATTAGTAAAACTGCTATGAATATTATTGTGTAGGCTGAGTATCCCTTATCCAAAATTCCTGGGACCAGAAGTATTTCAGATTTTGGATTTTTTTTGTTTTGTTTTGGAATATTTGCATTATACCTACTGGTTGCGCAACCCAAATCTGAAATCCAAAATGTTCCATGAGCATTTCTTTTGACTATTACATCAACACTTAAAAAGTTTTGGATTTTGAAGCATTTCAGATTAGGGATATTCAACCTGTATATGTCTTTTTGTGATCTTTTAGAAGATGTAGTGGTAGAAAAAATACTGGCATCTGGGCACAGTGGCGCACACCTGTAGTCCCAGCAACTTGGGAAGCTGAGGCAGGAGGATCACTTCAGCCCAGCATTTCAGCACCATAGTGCAGCACGATCACACCTGTGAATAGCCACTGCATTCCAGCCTGGGCAACATAACAAGACTGCTGTCTCTTAAAAGAAAGAAAATACTGGCATTTGAAGAATATCAAGAAAAAATATTCATTTAAAATATTGTAGTCTGCCTCATTTATGGTGACAGAATTCAGGATAGCAAGAGGTGTGTCTTGAAGCAATCTTGGGGAATCTTGGAGGTGTTGGTAATATTCAGTTTCTTGATCGGGGATCTGCTGATGGGTGTATTGCGTTGTGAAAATTGATCCTATTGGACATGAATTCATCATATTGATCATGGCTTACTGCAGCCTCAACCTCCTAGATTCAAGCAGTCCTCCTGTCTCAGACTCCTGAGTAGCTGGGACTATAGGCATGTGCCACCATGCCTGGCTAATTTTTTTATTTTTTTGTAGAGACTAAGTCTTGCTGTGTTGCCCAGGCTTGTCTTGAACTCCTGGCCTGAAGCAGTCCTCCTGCCTTGGCCTCCCAAAGTGCTGGTGTGGCAGGCCATGTCTCACCAAATGCAGGTGTCCATAACAGCTGTTTCAGTACTGACTGAGTGGTTAAATATTAAAAGCCACTACCCTTACAAAGAGGCTGGAATGTAACAAAAGCCCACCAACAGTTTTGCCTCGGCCTTTCCTGGGCCTTAAAGCATGACAAAATAATGAAGGAGTTCTTAACTGGACCCATTTAGGATGAAACAAGTTTTACTGGGGGTCTGAAGAAACCCCCCACGCCTCCACAAACAAATTTATTGGAGGTCTGAAGGAAATCCCCAAACCACCGTGGTTTAGCAGGAGACAAGATAAGGGTAATCACTCCAGCACCCTACACCCATTTAGATTAAGTAAATTTGCTGAGGCTCCTGAGGAAGGTCTTCAAGACTCAGACCTTGGTTATAGATTAAAAGAAGTTAATCACTTGTCTTTAGATGAATGCACACCTACACATAGACATATAGCTTAGAAGGTATATAAGCTCTGGAAAACTTTGTAATTGTGAGTTGGTCTGGCAGTAATTTCCAGGCCTTCTCCCTGTAACCGGCTACAGAAATAAAAACTCCCTTCCTCCCCAGTTAATCTGCATCTCGTTATTGGGCCTCAATAAATAGCAGCCTGACCCTCAGCTTGGTCCAGGAACACTGGGATTATAGGCATGAGCCACTGCACCCAGAGATCCTTAAGATTTCTTAAACCCCACATTCAAGTGAGAAAAGAGGAACCTTCTCTGCCCCATGTTTAATACAATTAAGTTTCAATAGCTTTTGACCTATGTACTGTTGTTACAGATGGTGCAAGGGTGTATTTGGAAAGGACAACACAGGGCAGCTGTATATGATTGGAGTGATTGGGAATCATAGTTGTATTATGAGTTGATGAAGTCCCAGGATATTGGAAAGGAAAACTAACCATAGGCTGGGCATCCTCAGTTCTTCCCACCTTCTTCCTAAGTAGCTGAGGATGAAACCTTATTCTTTGCTCCTGTTGCACAGCCTGATGGAGGCAAATAAGGTGAAATAATAACACATCTGCTGCAGTTTTCAGACCATTACATCTACTACCCTAAAATGTAGCTGCTAGAGCAAAGACTACTTTATTTCCTATGATTCTATGGGTGAGGAATTCACACTGAACTCAACAGGGTGGGAATGATTAATCTCTGATCCTATGATGCCTGCCAGGGCCTGAATCCCCAAGATGTCTTCTTCATTCATGTATTTTATATTTAGCTAGAATTGCTGGAGTCATGTATCTGGGCCACTGTTCTTTGCTGCTAGCTGAGTTACTCAGCTTTACTTGATGTAGTCTCAGAATGTCTCACTCTCCATTGGCAACGTCTCATTGTCTTTTCTTATGTGTCATGAGCCCCTATGAGGGCAAAACAGAAGATGCCAAGCCTTCCTGAAGCTTTCATCTGGAACTAGTTAGTGTTAGTTCTGTCATATTCTGTTGATTAAAGCAAATTGTAGGTCCGATCCAGATTTAAAGAAAGAGGACTACACTTTGTTTCAGCAAAAAAGTAATTTGTAAGTTATTCTGATACACTACAGATCCATGGTAGAATTGATCATGACTGGCTTTCAACAAAGTCAATGTGTGGTCATACTATGAATATGTAAGATTATAAAATCAACTATGCTAGTTCCTTTACAAATTGGTTTTGAATACGTGGATACACAATCTCTGAGCAATACATTTCTTAAATTATTCAGTGTTTTTTGAATCACCCTGTTCATCTTGAATGTTTCCCTTATTAAGTATTTTTCTATACCCAAATTTTAATAAACACTATTTCACAGTATTGCTCTTTAGTAACTTAAATAAGCTGCTTTTATAAGACAAAGAGTCCTTATCAGCTCCTCCCAACTTCCAGTTATTTCCTTGGGCTCTTCTAAGGAAGTGTTTATCATTTTCAG
Seq C2 exon
GGATGAGTGACATTCCAAGATGTGGCCATTGACTTCTCCAAGGAAGAGTGGGGATTCCTGAACCCTGCTCAGAGAGATTTGTACACAACTGTGATGCTGGAGAATTATCAGAACCTGGTCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000240225-ZNF542:NR_024057:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)