HsaINT0188817 @ hg19
Intron Retention
Gene
ENSG00000121903 | ZSCAN20
Description
zinc finger and SCAN domain containing 20 [Source:HGNC Symbol;Acc:13093]
Coordinates
chr1:33955118-33957302:+
Coord C1 exon
chr1:33955118-33955202
Coord A exon
chr1:33955203-33956624
Coord C2 exon
chr1:33956625-33957302
Length
1422 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CATTTCTCTTCCTTTTGTAGGAG
3' ss Score
11.18
Exon sequences
Seq C1 exon
GAAGCCCTGGGCCCTGGCAAACATGCTGAGAAGGAGCTCTGTAAAGACCCCCCAGGAGACGACTGTGGGAACAGCGTGTGCCTGG
Seq A exon
GTAAGGAGACGTACCCTCTGAAGGTGATGTTGTCATGCTTCTGATACACCCAGTTCCCAAAGAGGGTTTTGCCGCTCCTTTAAGAATCATGGCTCTGCAGTCTCTGGAATTTCAGAAATAGGAAGAAGACTTGCCCTTTGTAGCCAGCACTCTCATGGCAGGGATGGAGTCTGCCTGGAGACGGGGTGGCAGGATGGCTTCCAAGAGCCTGCCCTCTCTGGGCACATTACCTTCCTTACCTCAGTCCATTCACCACAGTCCAGGGGCCAGGCCTGGACTGCCATCTCAGAAATCTGATTTTTTTTAGCACTGTAAATAGGATCTCTCTCTCAGGCAGACTTAAGTGAACTAAACCCATGAGACCAATGAATTAAACCCAATAGGAATAAATATCACAGAGCCCAAAATACCTGAAGCCCATATAAGCAGCACAGACTCCTTTCTATGTGGGCACTCCTATGTGGCAAGCCAAATAATAGGGAGCCGTTTCCCTGTGGAGCCCGGGATCACTGTGTGGGGAGTTAGACATGTGAATAGCTGAAATAGAAAAGACTCTGATAGGCCTGACTCATGGTAAGTTTAGATACCAGAAGCTCGCTGGCTACTTGCTTGACAGTGGAACCCCTTTTTACACATGATATCTGGGGGAAATAGTGTTCAAAGGAACAGATTTTGGGAAACGGTGAATTAAATTATCCTTATACCTCTTTAAACCCTTTTCATCTAGTTTTCTTCAAATATTTATTTCAATTAAAGGCTTCCTATTTTGTTAGGGCCGGGAGCTGTTGGGATAGCAGTCCATTAAACATAGCTAACTTTTAAAAATAAGGAAATTTATTTTCTCACATTATTAGAAGTCCAGAGGAGGACATGCTCCAGCCACAGTACAGACTAGCTGAGCAATGTCTTAATGGGTCTGTGTTCTTTATTTCTGTCTGCCATCCTCAGTGTTAGCTTCATATTAAAGCTGTTTTGTTTCATGGTCAAAAGATAGATGCCAATGGTGGCAATGGATGCCTAGCAGGACAGAGACTCACTACACACACAAACACACACACACACACACACACACACACACACACCACACACCCTTTTCCTCCAGCCATGGAGTTCAGTCTAATTGGGCCAATTTAGGCCATGTGCCCATCTGTGGACCAATGAGTTACTCTTATATGATGTTTCATGTTTCATAACAACAACAACAACAAACAAATGAACAAAGTAAACAGGTCACTTAACATTTCTCATATATTGGTCGTGTTACCTCTTCTCTCTCCCTATTCCTGTAAACATTTTATGGGATCAACTTGGGAATTTCTCGTTAGCCTCTTGCAAGGAAAAGATAGAAGTTTCAGGGAGATTTTGGACAAACATGCCGCTCAACAGACCATTTCTACTCTGTCATTTCTCTTCCTTTTGTAG
Seq C2 exon
GAGTTCCAGTTTCAAAACCAAGTAATACCTCCGAGAAAGAGCAAGGACCAGAGTTTTGGGGTCTAAGTCTTATAAATTCTGGGAAAAGGAGCACTGCAGATTACAGCCTGGATAATGAGCCAGCTCAGGCATTGACCTGGAGGGATTCAAGAGCCTGGGAGGAACAATACCAGTGGGATGTGGAGGACATGAAGGTGTCAGGTGTTCACTGGGGCTATGAGGAGACCAAGACTTTCCTGGCAATTTTGAGTGAATCTCCTTTCTCTGAAAAGCTCCGGACTTGTCACCAGAACCGCCAGGTATATCGGGCCATTGCAGAGCAGCTAAGGGCAAGGGGCTTCCTGCGGACACTGGAGCAATGTCGCTATAGGGTCAAAAACCTCCTACGGAATTACCGGAAAGCCAAGAGCAGCCACCCACCAGGTACCTGCCCCTTCTATGAGGAGCTGGAGGCCCTGGTCAGGGCTCGGACAGCCATCAGAGCCACAGATGGCCCAGGAGAGGCCGTGGCACTTCCCAGGCTCGGGTATAGTGACGCAGAGATGGATGAGCAGGAGGAAGGGGGCTGGGATCCTGAAGAAATGGCAGAAGACTGTAACGGTGCTGGCCTGGTCAATGTTGAGTCTACCCAGGGGCCCAGGATTGCAGGGGCCCCAGCTCTGTTCCAGAGTCGTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121903-ZSCAN20:NM_145238:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.828 A=NA C2=0.210
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138371=Myb_DNA-bind_4=WD(100=37.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AGGAGCTCTGTAAAGACCCCC
R:
GGTGACAAGTCCGGAGCTTTT
Band lengths:
342-1764
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)