HsaINT0187591 @ hg19
Intron Retention
Gene
ENSG00000240225 | ZNF542
Description
zinc finger protein 542 [Source:HGNC Symbol;Acc:25393]
Coordinates
chr19:56884900-56891196:+
Coord C1 exon
chr19:56884900-56884992
Coord A exon
chr19:56884993-56888235
Coord C2 exon
chr19:56888236-56891196
Length
3243 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GATTTTTTTTCCCCTTTCAGATG
3' ss Score
12.4
Exon sequences
Seq C1 exon
GACTTTCCATTTCTAAATCTGTGATTTCACTGTTGGAGAAAAGGAAACTGCCTTGGATAATGGCAAAAGAAGAGATAAGAGGCCCATTGCCAG
Seq A exon
GTGAGTATGAAGAACCAACTAGCGGGGGTAAGCCATGTATATGAAAGGCATACCAGGTCTAGAGGGCAAAGCACCTTTAAGATGTGAAAGATGCTCTCTTCCAATGTTCCATACGTATGTAGAAATTGAGGCTCCTTGAGTTTGAGTTCCTAAAAGGGTACTGATCACCCACCATTTATATCTGCTTTTATAAATGCCTGTGGGCTCAGAAATTACAGGTGTGTCTTTCCTCTTTGTCTATGGTAAGCTTCCTTTTAAATTCAGGATCCTGTTTCTCATGACTTTTTTTTTATTTGACTCTTTGATATTGTTTTCTTTACTGTAAGATGACTTATATAGTGGTCTGATTGTTTGAATGGGTGTATTCATTGGTCATTTATTCATTAACATTAATTCCATTTTTAAAACTAGTCAACTGTTGAGAGTCCCCAAGACCACCCCCAGGTTCAAGGACTTACTAGGAGTCGTCACAGGAGTCATCATATCATTGTATTCATGCCTGCAAAGTTAGTGAATAGTCCAGAAGAACACCATCATTCTGATGCCAGCTGCAAAGTATGGGGGTCCCCAAGACCACCCTGAATTCTGACACGAATTGCAAATCCAAAGGTCCCCAAGATGACCCTCAGGTTTGATAATTCACTAGAAGGATTCACAGAACTCACTGAAAGCTGTTACACTCATGGTTAGAGTTTATTGCCATGAAAGGATACACATTAAAAATCAGCCGAGGAAAAAGACATGGGGCAGAGTCTCGGAGGACTTCCATTTATGCCCCCACAGTGGAGTCATGGACAGTGTTAACTCCTCCCAACAATGATGTGTGGCAGTATGCACAGTGTGTGGCCAACCAAGGAAGCCTATCTGACCCTTGTTATCCAGACTCCTCATTAGGGCACCATCATGTAGACATGGCTGACTGCTAATGTCTCACCTCAATCTCTAGCTCCTCTGAAGGTCACCCTAATATCATGTGACCCAAAGCCCCACATAAATCACATAGTTTGATTATCTGGTGTGGTCCAACGCCCATAGGTAAATAGAGACACTTTTATCTTGCAGGATATTTCAAGGTGTCAGAGATGACCATCTCCCAGGAGCCAAAGGCAAAGACTAGAACTCTCTTTGGAAAAGGTTAAATTATTTACTACACAATGGCTAAGATTTATTTTAGCAAAAGATATAAAACAAAATCAGCAAAGGTAAGCTCATAAGGCAAAGTCTGGAGGAAATCAGGAATGTGCTTCCGAGATTCCTCTCCCAGGGGAGTCACACAGGAGGTACTTAATTCCTCTAGCAGCAACTTGTGTGGTATGTGTGAGATAATAGCAGCTAGACAACATTAGACTTAGTGCCAAGGAATTTACTTAGGGAAGCCATAAAGGTACCCTCTGCCGAGTATATGCTAAAAATCCAGAATCTCAGAAGGAAAGTAGGTGTTCCGCATAAACCACATCATCTGCACAAATAGCTTAGGCACAGTAAGCCACTTGTACCAGTTCCGGGAATGGTAGAAACCCTCATGAAATCCAAGTTCCTTAGAGGTCAGTCAGGGGCCAACGTTGTAAGCACACCTTTCTAAGGAGAACAGTCTCAAAGCCTGCTGTGTTCTTTTCTGAGTTTGTTTAAAAGTATAGAAACTTGCAGTGAGTTTACATTTGAGTGAGGGGATTAAGACTTGCTTCCACAAACCTTGTGCAAAGTAGAAACTAATTAACTAGTAGAAACTAATTAAAATGGTTTATTTTGATGTGTGGGAGTTAGTAAAGTTTTAGTTTCAAAACTGGGTGATATTTAAAGTTATAGAAAGTGAGGAAATGAAGTACATTTGTGATATATTTATTTAAGGAATTGTTGGAATTAAGGTATGTCTTGAACTGTGAGTTACAAATATGTAGCTGGATCTCAATAGTAATTCAGAATTGGAGATGAATGTGTTTTTTATATGTTTTGTGGTGATGGACCCTTAGGAATGGAAGAAATGAATTGCCTATAGATAGCAGAGAAGGACTGATTGATTGGTAGCAAGAGAAACAGGAAACATCCTGTGTTAGAATTCCAGGGCCTCACTATTCATGAAGAAAAGGTAACCAAAGTAAGACCAAGACGTTAGGATAAGACAACGTTGAAAGGTAGTTTATATCTGACTAATTTATGGTTCTTGCTAAAGTGGATATTTCTATGGTGAAAAGGATGTAGAATAATGAGCTTGAATCGTCACATTTGGTAATAATCTTTTATTTGAGTTCATTTTCAAAACCATTAGGCCTTCGTAGTAGAGGCCCCCTGTAAAACCAGCCCCTCTTGCACCCTTAATGAGGTTAGCCCTCTCCACTGTCTACATACACAGTATAATCTGGAAAAAACAGTGGGATTCCCACATGTTTAGTGCATGAAAAACAGGCCAGACTCAGTCATTTTCCATAATTGACCGGGGTTCTGTTCTGTTCTTTTACAGCAAGCACAGCCAGCATCTCTGCCCCTCTGCCCTTTAGCTCCTAAACAGTAAAAACAACTACAGGTTAGAAGGGTATTATGTTCGTCTTTGTAGCAAGTCCTATTGCCTTTCTTTAATTTTTGATCCTGTTGATCAGTCTTCCTGTAATGCCATTTTGGCCCCTGCAATTCCCCATAGTACATGTTTTCTTAAGCTCTAAATCTGTTTCCTTGCTGCCTTCACTTGACCCTCTTATTTTTCCTGTTTGCTTAGCGATCTCTTTAATCTCAAAATGTCTATATCAGTGAGAATTCATACCCTATCTGCCCCTGATTATATGATTGATTTTATTGTTTCTATATTATGTCAAATTGTTTCTGCAGTAAAATAATTGGAGATGCCTTCTGTCTGGACACATTAATTCCTCTGGTTAATGCATACATATACATACAGAAACTATCATTTACCTTTTTGTGTTTTGAAACTTGTGGTATAACTTAGCACACTGCATCTTGTCCTTTTCACTTAATACATTATCCTGCAGCTCAGAAAACAGCTGAAGTTCACTCTTTTTTTAGTAGCTAAGTAATACTACAGATAGAGATATACCATGGTTAATGATGAGGGACCCCTAGTTTGTTTCCAATATAAAGCCTATTTCAATAAGCATTCTTATCAATATAACCTTAAAAACTGGTATCTTAGTTTCTTGAGTAGGTGCCTAAAGTGGGATTGAAAAGATAAAAGATAGGTATATTACATTAGTTTAATTTGCTTCTGTTCATTGATTTTTTTTCCCCTTTCAG
Seq C2 exon
ATGTGCCAGGTGCAGAGATTAAGGAGTTATCTGCAAAGAGGGCTATTAATGAAGTATTATCGCAGTTTGACACAGTGATAAAATGTACAAGAAACGTATGTAAGGAATGTGGAAATCTATACTGCCACAATATGCAGCTTACTCTCCATAAGAGAAATCATACACAAAAGAAATGCAATCAGTGTTTAGATTGTGGGAAATACTTCACTCGTCAATCAACTCTCATTCAGCATCAAAGAATCCACACGGGAGAGAGACCCTATAAATGTAACGAATGTATTAAAACCTTCAACCAGAGGGCACACCTTACCTAGCATGAGAGAATTCACACTGGTGAGAAACCTTACAAATGTAAGGAATGCAGGAAAACCTTCAGCCAGATGACTCATCTCACACAGCATCAGACTACACATACGAGAGAAAAGTTCCATGAATGCAGTGAATGTGGAAAGGCCTTCAGCCGTGTCTCAGCTCTTATAGATCACCAGCGAATTCATAGTGGAGAAAAGCCGTATGAATGTAAGGAGTGTGGAAGAGCCTTCACTCAAAGTGCCCAGCTCATTAGACATCAGAAAACTCATTCTGGAGAAAAACCCTATGAGTGTAGTAAGTGTAAGAAATCTTTTGTGCACCTGTCTTCCCTGATTGAACATTGGAGAATTCACACTGGAGAAAAACCATATCAATGTAAGGACTGCAAAAAGACCTTTTGTCGTGTGATGCAGTTCACTCTGCACAGGAGAATTCATACTGGTGAAAAACCCTATGAATGCAAGGAATGTGGAAAGTCCTTCAGCGCCCATTCTTCTCTTGTTACTCATAAGAGAACACACAGTGGAGAAAAACCGTATAAATGCAAGGAATGTGGAAAAGCCTTCAGTGCGCACTCTTCCCTTGTTACTCATAAGAGAACACACAGTGGAGAGAAACCCTATACATGCCATGCCTGTGGGAAGGCCTTTAATACTTCCTCCACACTTTGTCAACATAATAGAATTCATACTGGTGAAAAACCCTTTCAGTGCAGTCAATGCGGGAAGTCCTTTAGCTGCAGCTCTCACCTTACTCGACACTGTAGAATGTGTAATGGAAAATTTAGCAAATAACCAAAACTCAAAATGTTAATTCTGATTATTCTGTATCATCACCAGTACTTTGTACTTTGAGTCTTTTTAAATATGCTCTGTTAGTTTGTATGGAATGATATTTCATTGCACTTTTAATTTAACTTAAAAATGCCTTCCCTTGACTGTTGATATGTATTTTTTGTGAAGTGTGTGTTGAAGCCTTGCAGATTATTTTTTAAATTAGAGGTTTATCACTAGGTATATCTCCTAATGCTATCCCTCCCCCCTCCCCCTAATGTAAATGACGAGTTAATGGTGCAGCACACCAACATGGCACATGTATACATATGTAACAAACCTGCACGTTGTGCACATGGTACCCTAAAACTTAAAGTATAATTAAAAAAAAAAATTAGAGGTTTTTCTTCGGGTGCATTTATGAGAGTTCACCAGATTTTGGAAATATTTTCTATTCTGTAACCTACCTTTTCATTTACATAACAGTGATAAAAGCTTTAAGTTTGATCACATCCAATTAATCACATTTTTTAATAGTTATGCTTTTATTTGTTTTTCAGACAGGGTCTTACTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCATGGCTCACTGCAGTCTCTGCCTCCCAGGCTCAAGTGATCCTCCCACCTCAGCCTCTCAAGTAGCTGGGACTACAGGCATGTGCCACCACACCTAATTTCTATATTTTTTGTAGAGACTAGGTTTCACCATGTTGTCCAGGCTTGTCTTGACCTCCTGAGCTCAAGCAGTCCATCTGCCTCAGCCTCCCAAAGTGCTGGGACTACAGACATGAGCCATTGTGCCTGACCTAGTTCTGCTTTTTATGTTCTAAGAAGTATTATTTATTCTATGCTGAGCTTACATAGAATTTCTTCCATGTTTTCTATAGCTATAGTGTATTTTTACCTTTTACTGTTAGATCTATTTCATGTTTTTATTATGGATAATGGAGGAGGTAAAGGTTGAATTATATTTTCCCCCATATTATTGACCCATAGTGACACCAGTTTTGGGAGATGTCTTTCATTTTCGCCCTTACGTTGTTATTGGCACCTTTTGCAAAAATCAATTATTTATCATGAGTATACTTCTGAAATGATCTGTTTCATCAATCTATTTGTCTTCTCAGTAGTTCCACATTGTCTTAATTATAGCTTTAGAGGAAGTCTTGAAATTTGGTAGTAAGTCTTCCAGTTTTGTTATTTTAACAAATTTCTCTAGGCTGGGCATGGTGGCTCATGCCTATAATCCCAGCACTTTAGGAGCCCCAGACAGGAGGATCACTTAAGCGCAGAAGATCAAGACCAGCCTGGGAAATATAGCAAGACCTTATCTCTACAAAAAAATTTAGAAATTAGCTGGGCATGGTGGCACCCATCTGTAGTCCTAACTGCTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGTCCAGGAGTTCAAGGCTGCAGTGAGTTGTGATCACACCATTGCAGTCCAGCCAGGTTGACAGAATGAGACCCTGTCTCTTAAAAAAAAAAAAAAAAATCCTGGTGATGCTTTTCTGGATTAAAAAATAAAATAAAATAAAAATTGGCCTCACTACTCTAGCTTATTTGCATTTTCTAATAAATGTTCAGAGTCACCTTGTCAGTTCCTACCAAAAAGCCTGTCGGTATTATAATTGAGATTGCATGAAGTCTGTAGACAAACTTGAAGAGAATTGACACTTAACAGCAGTGACTTCCAGTCTGTAACCTTAGCATAAGTTCTATTTGTCTCCTTTAATTTTTCTCAGAAATACCTGTAGTTTTCTGTATAGAGATCTTGAATGTATTTTCTTAAGTTTATTAATAGACATTTTCACAATATGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000240225-ZNF542:NR_024057:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NonCoding
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
Chicken
(galGal3)
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)