HsaINT0187978 @ hg19
Intron Retention
Gene
ENSG00000187815 | ZNF642
Description
zinc finger protein 642 [Source:HGNC Symbol;Acc:24708]
Coordinates
chr1:40943302-40945160:+
Coord C1 exon
chr1:40943302-40943566
Coord A exon
chr1:40943567-40945004
Coord C2 exon
chr1:40945005-40945160
Length
1438 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TCTGGCAATTTCCTCACCAGAAG
3' ss Score
6.14
Exon sequences
Seq C1 exon
GATGGGAATGTGGAGCAGACCCTCGTCCACTCCGGAGGCCGAGGGTCCTCCGGGCTTCCGAAGGAAGCCGACCTCAACGCTGGACGCTTCTTGGAGAATGATTGCGTTGAGTGGAGATGTGGTCTGTCTATAAAAGGCCGGGAGGGAACAATATCTGTTACCACTCAGTCCGTCTCTAAAGAGACACTCTTTACCGCTGAAAACCTCAAGAGTGAGCACTCCCACGCCCCCGTCTCTGGTCCTACCTGGGTCCAAGGCCGATGTG
Seq A exon
GTGAGTAGGAGTCTGTGTGCAGTCTTTGAGTCCGAGGGTGGCATGTCTGGGAGCACTGTGAGGGTGGGGCATCTTCGATATGAAGCTTCTCAGCCATTAACTGTTTCCCGAGTAAGATTCGAAAATTCGTGCACTTTGGTAACAAGACTTTTTATGTATTCAGGGGTGGGATATTTCTCACAAGCTCCAATTCCTAGAACACACGCAGCTCCTGTCTCTGCATATAGTCACACACACACACACACACACACACACGCCTATAAGTCACATACCCATCCTTCTCCAACAAACTTCAAAAAGTTGGGCCAGCTCCCTTCCCACGTAGCTCCGACTGTTCTTGGAGTGCCGTATACTTTGGACCTGGTCACGGTCAAAGCACCTGCTCAGATTCTAGGGTTTGGTTGAGATGATGGATTTGAGTTGTTTCCAAATTTGCCTATTACTATTCTGCAGTAGTCCTCATTATACTAAATTTACACCATTTGAAGACATACCCTCTTCCCCAATTTTAACATTTCTGAAACCAAGATGCATCTTCCCAGTGTGGTTCCAAGGAACTTGCCAGCTGCTGGGCATCTGCGTGGGTGGTGACGTGGCTGTCACTGCTTGTTCATGCCAAAATGCAGCTATGTCATTATTCTGTCAGTTGAGATATTTTGAACTTTAAATTCAGATTTAATGGTTTCTAAAAATAACTTTAAAAATTAATACTATGATTCAGCAATATGATAACAGGTTTATAACAATGTTCATTAAGGGTTTACTGTATGCCTAGCATTGTCTCAACCAACATTACAACTCTATAGAATACAATTATTATCTCCATTTTATAGATTAAGAAACTGAAGCTGAGAGTTGAAGTGTCATAGAGCTTTTAAGTGCAAGTGTCAGGTTTCTAAGCCAGGCTGTCTGATTTCAAAGCCTGCCCTCTTAAACCCCGTCTGTGTCCAGGCAGAAGATGCATGCAGCTTACAAGGAGGGAAGATGAGGCATGGTCTGTGCATGTTTGTACATCTTTGCATGTTTGTGTATGTATGTATAGAACTGGAGATAGAGCCACGTCCAGGAACATGTATTATATTTATTCCTGCATGGATATTTTTCTTTTGGGTATTTTGCAGTTTTAAATATATTTCTGCAGATTCTGGAGTTCTGGAGACAAGTGCTTCTGGATCCCTCTTCCCTTCCCTTTTGCTCCTCTAAAGAGTATGGAGACATGAACTCAAACCTAACTAACTGGCTGCCTCCCAAAGAAAGTGCTTGATTTAAAGGGGAGTTTGTTTTCCAGAATTGTTAAAGTCACATCAGTCTCTAGGAACCCCCAGGTCCTGGTGCTGCAGGGACACACCAGAGTCCTGAGGGCAGGTGATTGGAATCTGAGCAACACCCCACAACTGTGAAGCGTCTCATCAAGAGCTTCTGGCAATTTCCTCACCAG
Seq C2 exon
AAGTGGACAAGTCCAGTAAGGCAGGCATCATGCCACAGCAGCTCCTGATCACCCTGCCTACCGAGGCCAGCACCTGGGTGAAGCTGCAACATCCAAAGAAGGCCGTGGAGGGGGCGCCCCTGTGGGAGGATGTGACTAAAATGTTTGAAGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187815-ZNF642:NM_198494:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.166
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=PU(91.3=97.7)
Main Skipping Isoform:
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:
GATGGGAATGTGGAGCAGACC
R:
GATGTTGCAGCTTCACCCAGG
Band lengths:
358-1796
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)