HsaINT0188818 @ hg19
Intron Retention
Gene
ENSG00000121903 | ZSCAN20
Description
zinc finger and SCAN domain containing 20 [Source:HGNC Symbol;Acc:13093]
Coordinates
chr1:33956625-33959215:+
Coord C1 exon
chr1:33956625-33957302
Coord A exon
chr1:33957303-33958786
Coord C2 exon
chr1:33958787-33959215
Length
1484 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CAACTCTTCACTCCTGACAGCAG
3' ss Score
5.46
Exon sequences
Seq C1 exon
GAGTTCCAGTTTCAAAACCAAGTAATACCTCCGAGAAAGAGCAAGGACCAGAGTTTTGGGGTCTAAGTCTTATAAATTCTGGGAAAAGGAGCACTGCAGATTACAGCCTGGATAATGAGCCAGCTCAGGCATTGACCTGGAGGGATTCAAGAGCCTGGGAGGAACAATACCAGTGGGATGTGGAGGACATGAAGGTGTCAGGTGTTCACTGGGGCTATGAGGAGACCAAGACTTTCCTGGCAATTTTGAGTGAATCTCCTTTCTCTGAAAAGCTCCGGACTTGTCACCAGAACCGCCAGGTATATCGGGCCATTGCAGAGCAGCTAAGGGCAAGGGGCTTCCTGCGGACACTGGAGCAATGTCGCTATAGGGTCAAAAACCTCCTACGGAATTACCGGAAAGCCAAGAGCAGCCACCCACCAGGTACCTGCCCCTTCTATGAGGAGCTGGAGGCCCTGGTCAGGGCTCGGACAGCCATCAGAGCCACAGATGGCCCAGGAGAGGCCGTGGCACTTCCCAGGCTCGGGTATAGTGACGCAGAGATGGATGAGCAGGAGGAAGGGGGCTGGGATCCTGAAGAAATGGCAGAAGACTGTAACGGTGCTGGCCTGGTCAATGTTGAGTCTACCCAGGGGCCCAGGATTGCAGGGGCCCCAGCTCTGTTCCAGAGTCGTATTG
Seq A exon
GTAAGAACATGGGGGTTTAGTCAGATTCAGATTTCCAACCCTCCTACCAGCTAGACTGCTATTCCCTGAGGTCAGGGCACAGGCTGCAAGTCTGGATTGAAGCCACTAGAGTGAAGAGCTACATTCCTTAGGTCATCCTCAAACTCCAACTTTCTTTTCCCATGACCAAGTCTCTTTGCAAAAGTCTTCTTAGTTATAGAAGCAAACATTTTTAAAGCCTTAAGGGGCCTCAAAGAGTGAATCCAGTATTTCCAAAAGTGTGTCACTGGTAGTATGGGATGATCATCGACGTTACATGAATGAACTTTAAATTCTTGTATTTATATATTTCTCTTAATTTGTATGAGTGCATCAACCTGTGATTTCACAGATAACAAAGTTAGGTAAAGAGTGATGGCGAGTGAAATATTGAACAGATAATGGCAGAAATCCCGACAGTGTAGACTTGAATAATCAATGTCTGGGAAACATCCAATCATTGTAAAGGTGCAAACATGGAAGTCCATGAGATGAGGCGTCTTATAGACGCACAGGTAGGAGCAGAGCCCGGATCAGAGCCTGTGGCTCCTGCCTGCTGGTTTCACATGGTTTTCCCTCCACCATGTTGCCTTCCTGGGCTACATCACTTTCCTGCAGAGGAGCTGAGACTAGACCACCTCCTTTTCATTCCCCTGCAAAGGAGGAAAGTGTGTCCTCATTTGGCCTTTCTTGCAGGACTATTTGAAACTCATTTATGCCTCTAATCTTTAGGAATTCTCAGCTTTCATGTTTTGTTAAAAGGAGAATTTATGGCCAGGTGCGGTGGCTCACGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGCAGATCACGAGGTCAGGAGATCAAGACTATCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAAAAATACAAAAATTAGCTGGGTGTGGTGGCATGCACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGCAGAGATTGCAGTGAGCCAGGATTGCATCGCTGCACTCCAGCCTGGCGGCAAAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAGGAGAATTTATAAAATAAATAGAGTACAGGTATTGAGTGAATATGGGGAAAATCACATGCATCCCAATTACAGGCCTTTCCCTGAACTAATCAGCTAAAGCCAGGCACATGGGATCACCTGATATAATTGATATAACATGGCTACTTAAGTCCTCACCTTCAGCCAAGACTTGAAGTGTTAATAGAATCTCTTAGAAGAGGGTGAGGGTGGGAAGCTCTGGCTGGCTGTCCTAGCATGCCCCTGAGAAGCAAAGGGATATTCTCCAGGTACCTGGATAGTTTCTGACATGCCTATGTTCTAGGTATTTTGAAGGGCAGGTGACTTTATTCTCTGATGACCTAGGCACATCTCATTAAGTCTCACAGTTCTCAACTCTTCACTCCTGACAG
Seq C2 exon
CAGGTGTGCACTGGGGCTATGAGGAGACCAAGGCCTTCCTGGCAATTCTCAGTGAGTCCCCATTCTCGGAAAAGCTTCGTACCTGTCACCAGAACAGCCAGGTGTACCGGGCCATTGCAGAGCGGCTGTGTGCTCTGGGCTTCCTGCGGACACTGGAGCAGTGTCGCTACAGATTCAAAAACCTCCTTCGAAGCTACCGGAAAGCCAAGAGCAGCCACCCACCAGGGACATGCCCTTTCTATGAGGAACTGGACTCGCTGATGAGGGCTCGGGCTGCAGTCAGGGCCATGGGGACTGTCCGAGAGGCTGCAGGTCTCCCTAGGTGTGGGCAGAGTAGTGCTGAGACTGATGCCCAGGAGGCCTGGGGTGAAGTGGCCAATGAAGATGCTGTCAAACCTTCAACCTTGTGTCCTAAAGCCCCAGACATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121903-ZSCAN20:NM_145238:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.210 A=NA C2=0.229
Domain overlap (PFAM):
C1:
PF138371=Myb_DNA-bind_4=WD(100=37.9)
A:
NA
C2:
PF138371=Myb_DNA-bind_4=WD(100=59.7)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTCCCAGGCTCGGGTATA
R:
ATCTGTAGCGACACTGCTCCA
Band lengths:
342-1826
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)