HsaINT0186410 @ hg19
Intron Retention
Gene
ENSG00000132010 | ZNF20
Description
zinc finger protein 20 [Source:HGNC Symbol;Acc:12992]
Coordinates
chr19:12242803-12246375:-
Coord C1 exon
chr19:12246315-12246375
Coord A exon
chr19:12244801-12246314
Coord C2 exon
chr19:12242803-12244800
Length
1514 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTTCTCATTTTTCACTGAAGTCT
3' ss Score
4.22
Exon sequences
Seq C1 exon
GAAAAACATGGAAAGTTCAGAACATTGAAGATGAGTACAAAAATCCCAGGAGAAATCTAAG
Seq A exon
GTAATTTTCTCTCGCAAGACAAGGCAATGCCTCTAGAAAATCTTAAAATGTGAGAAAATAGGCCGGGTACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGTCGAGGTGGGTGAATCCCAAGGTCAGGAGTTCGAGACCAGCCCGGCCAATATGGTGAAACCCTGTCTCTACTAAAAATACAAAAAAATTAGCTGGGCGTGGTGGCACATGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAATCTGGGAGGCAGAGCTTGCAGTGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAGTGAGAAAATGTTAAAAAGAAGCAAAAGAAATAAGCCCAGTATCAAATTTATGTATTCATAGAAAGTTTTCCTAAAAACATATGTTTAAATGTAACATACGCTGGGCTGGGCACTGTTGCGCATACCCCCAAATGCCAGTCCTTTGGGGCTTTCAGACCAAAGGATTGCTGGAGGCCAGGAGTTTGAGGCTGCAGTGAGCCATGTTGGTACCACTACACTCCAATTTGGACAACAGGGTGAGTTGAGACCCCAACTCAAAAAAAAAGACGCACATGTTTAGTATTTGTAAAATAGTTTACTTGAAAATAGGATTACAAAGCCCCATAGAAATACTAATTTTAAAAAAATATATATACCCAGACCATCTTGTAGAGCATATAGTCCATTAATATTCAAATGATTCAGACAGAGCAGAAAGCTGACACTTTGCCGGGCAGTGTTAACAATGCAAGTGCAATAGTTGTTAATGATATAAATCATGTTTTTTTCTTCTTTTTTGAGACAAGAGTCTCGCTGTGTCACCCAGGCGGGAGTGGAGTGGTGTGGTTTTAGCTCACTGCAACTGCCACTGCTTGGGTTCGAGGTATTCTCGTGCCTTAGCATCCCAAGTAGTTGGGATTACAAGCGCACGCCGTCACACCTAGCCAATTTTTGTATTTTTAGTAGAGACAGGGTTTCGCCATGTTGGCCAGGCTGATCTCAAACTCCTGGCCTCAAGCCATCTGCCCGCCTCAACCTCCCATGGTGCTGGGATTACAGGCGTGACCCACCATACCCAGCCAATATAGATCACTTTTTTATTTTTTTATTTTTTTTTGAGACAGAGTTTCGCCCTTGTCACCCAGGCTAGAGCACAATGGCGCAATCTCAGCTCACTGCAACCTCTGCCTCTGGGGTTCAGGCGATTCTCCCAACTCAGGCTCCCGAGTAGCTGGGATTACAGGCACCTGCCACCACGCCCAGCTAATTTTTGCATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGATGGTCTCAAACTCCTGACCTCAGGTGATCTGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGAGTGAGCCACTGTGCCCGGCCCTATAAGTCACTTTTAATCAAACCGTTAATAATGTGCTTCTCATTTTTCACTGAAG
Seq C2 exon
TCTTATGAGAGAGAAACTCTGTGAAAGTAAAGAAAGTCATCACTGTGGAGAAAGCTTCAACCAGATTGCAGATGACATGCTGAACAGGAAAACTCTTCCTGGAATAACACCATGTGAAAGCAGTGTGTGTGGAGAAGTTGGCACGGGTCATTCATCTCTTAATACGCATATCAGAGCTGACACTGGACACAAGTCATCTGAGTATCAGGAATATGGAGAGAATCCATATAGAAATAAGGAATGTAAGAAAGCCTTCAGTTATCTTGACTCCTTTCAATCACATGATAAAGCTTGCACTAAAGAGAAACCCTATGATGGTAAAGAATGTACAGAAACCTTCATTTCCCATTCATGCATTCAAAGACACAGGGTAATGCACAGTGGAGATGGACCTTATAAATGTAAGTTTTGTGGGAAAGCCTTCTATTTTCTCAATTTATGTCTTATCCATGAACGAATTCACACTGGTGTGAAACCATATAAGTGTAAACAATGTGGTAAGGCCTTTACTCGTTCCACTACCCTTCCAGTACATGAAAGAACTCACACAGGAGTGAATGCCGATGAATGTAAAGAATGTGGGAATGCATTCAGTTTTCCTAGTGAAATTCGTAGACATAAAAGGTCTCACACTGGAGAAAAACCCTATGAGTGTAAGCAATGTGGGAAAGTCTTCATTTCTTTCAGTTCCATTCAGTATCATAAGATGACTCACACTGGAGAGAAACCCTATGAATGTAAGCAGTGTGGGAAAGCCTTTAGATGTGGCTCACACCTTCAAAAGCATGGAAGGACTCACACTGGAGAGAAACCCTATGAATGTAGGCAATGTGGTAAAGCCTTCAGATGTACCTCGGACCTTCAAAGGCATGAAAAGACACACACTGAGGATAAACCCTATGGATGTAAGCAGTGTGGGAAAGGCTTTAGATGTGCTTCACAACTTCAAATTCATGAAAGGACGCACAGTGGAGAGAAACCCCATGAATGTAAGGAATGTGGAAAAGTATTCAAGTATTTTTCTTCCTTGCGTATACATGAAAGGACGCACACTGGAGAGAAGCCCCATGAATGTAAGCAATGTGGAAAAGCATTCAGGTATTTCTCTTCCTTGCATATACATGAAAGGACACACACTGGAGATAAGCCATATGAGTGTAAGGTATGTGGCAAAGCCTTCACTTGTTCCAGTTCCATTCGATATCATGAAAGGACTCACACTGGAGAGAAACCCTATGAATGTAAGCACTGTGGTAAGGCCTTTATTTCCAATTACATTCGATATCATGAAAGGACTCACACTGGAGAGAAACCCTATCAATGCAAGCAATGTGGCAAAGCCTTTATTCGTGCCAGTTCATGTCGAGAACATGAAAGAACTCATACCATTAATAGATGAGAAATCCTTTTAGTGGAAGCAACGGGAGAAGCTTTCTGTTGTCCCACTTCCTTTGAAACACAAGAAAAGAGAGTGGTGAAAGAACCTCTGGATAACTGCTTTTTGAATTGAGAAGAGAGACTTGCGATAGGACAATAAAATCTAGAAGAACTTGGATGGTTTCGTAATACAATTCACCTATAGCCAATCTTGCATGAGATTTCAAAGGCACAGAAAAGGAAGGCATCAGTCACATATTAGAGGCCCCACACAGGGAGAGAGGTGTGTGGCTACCCGCTTCCAGCCCATTTTCCTGATTCTTTGGCTTGTTAATCGAGAATATCCCCCAAATCACTTGTCTCTGTTCCTCAGAGTTGTAGGTCTCCAGATATGTCCCCAGTGCTCCACATTAAAGATACATGCCCACTTTGCTGTTTCTTCAGAAATGTTAAAATGTTTACCAGAGAACTAATAAATGTTGTTATGGCTGGAAATACTCACTGATGCCCAACTCTTCTATAGATTGAGTTGGTTTAAGAGGTCTACTTTGTATTGCAAGCATTGTTGTTTCTACGGATTAGCGAGCCTGTTCTTGATTAAACCAACTAGATGGGAGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132010-ZNF20:NM_021143:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.254 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=4.7),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF132401=zinc_ribbon_2=WD(100=6.2),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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:
AGATGAGTACAAAAATCCCAGGAGA
R:
AGGGTTTCTCTTTAGTGCAAGCT
Band lengths:
344-1858
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)