HsaINT0135812 @ hg19
Intron Retention
Gene
ENSG00000116260 | QSOX1
Description
quiescin Q6 sulfhydryl oxidase 1 [Source:HGNC Symbol;Acc:9756]
Coordinates
chr1:180151309-180153185:+
Coord C1 exon
chr1:180151309-180151454
Coord A exon
chr1:180151455-180153050
Coord C2 exon
chr1:180153051-180153185
Length
1596 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
CTGGTTCTGTGCCCTCACAGGCT
3' ss Score
9.77
Exon sequences
Seq C1 exon
GTGGCTCTGGACCTGTCCCAGCACAAAGGCGTGGCGGTGCGCAGGGTGCTGAACACAGAGGCCAATGTGGTGAGAAAGTTTGGTGTCACCGACTTCCCCTCTTGCTACCTGCTGTTCCGGAATGGCTCTGTCTCCCGAGTCCCCGT
Seq A exon
GTGAGTATCCTGTCTCCTGGCGTCCCCTCTCGTCCCTCCCTGTGCTCATCCTTCCTTCTTGCCCAGAGGGGCTGCCCGCCTTTCACAGTGGCCAACATGTTCTTTCTGAAGAGCCCCCTCAGGAGAAGCTGCAGTCTGCTGTCTGCGGGGCCAGCGCCTCCACCGTCAGGAGCCTGGGCCTGAAACGCTAACCCTGTTCCGCAGCTCAGAGACCTCAAAGGCCTCAGCCCCCCGCACCCAGTGTCGCCTGCACCCTCATTACGTCCCCACCACAGCCCTGGCCCTCTTCTCCACCCTCTTCTGTTCGCAGGCAGACTCATTGGCAGGCTACAGGCCTGGCAAGCACTCGTATATGCCTGACCCTCCCTCCCTTTGGTTTTCTAATTGCAGAAAAGTTCATTAGCAGCCAGACAATAGCCAGTTCCAAAATGCCGAGAGAAAACAATCAGGCCAGCCTCAGCCCCTCTGCCAGGCTCCTGCTGCTGAATGGCCCGTTAATGGCACCAGATGGTGCCTTGGTGCCCTCCCTGGGCAGATGATTGATGTCAGCCAGGCCCCGCAGGCAGGAGCATTGGGCCAGGGAGGCAAGGCTTGCCTGTGGTGCCTGGTGAGCTGCTCCTCGGGGCCCTCAGTGCCGACCCACACGGCGCCGGGCAGGGTGGCCACTTGGCCTCACCCTGGCCCAGATCACCTGCTAGAGGGCCCAGGAGGTGCGATGCCACCAAGGACAGGGAGGCACTCGCTTTCCGGGCAGGCCCAGAAAGTGCCAGTGATGGTGGGGAGAGAAGGCATTGTCTCCTCTCTCCGAGTTGGTGGAGGGGAAAATTGTTTGTGACGATGCTGCCTCCCGAGCCATCTGCTCACCGAGAAACCCAGGATGGTGGAGTGGAATGAAGCCGTGCGTCCCATGCCAGCTCCCCCGGGGCAGCCCTCACGCTGCTGCTGGACCCGGCGTCTCTCTCTGCAGGTGCCCTGGCTGTGGGTGAGAGGGAATATGCACTCAGGAGGTATCCCGTGCCCTGGAGGACTCCTCCCTGTCGGAAAAAAGAAAGAAACCAAAAAGACCGTAAAAAGATTTAGAGAATTCTGGAGGCTCTTTGTCATTGTTGCTACCTGTTTTTTGAAAAATCCCATATCAAACTCCCTGGACTTCTTAGGGGGTAATGTCACTTATAGTACCTCAGGGCGAGCTTATGGATGGGCAGCTGCCATATTGAATCTCGGGGTCCTTGGGGAAGGGAGTCACACTCCGCCGTTCCTGTCTGTGGGCACCGGGCTGTCCCGTGCCTTTCCATGCCCTGCCTGGAGCCAGAGGGCCACTGGGGGAATTCTTGGGCCCAATTGCCTTACCAGGTGAGGTTTGACATCAGGCTGGTGTCAGAGAGGCTTTCCAGAGCATGTGCAGTGATTAGAAGGGTTACAGCGAGGCCTGGGTGCCGTCTTCTGGCCTCACAGAGGACAAGATGGAATCTCGTTCACATATTTAATAAACCTTCCTGTCCGATGAGCCACCCTTCTTCCTCTTCTGACATTGGTTAGCTCTAATCTTGTTCTCTGCACTTACTGCCTCTCCTCCCTGGTTCTGTGCCCTCACAG
Seq C2 exon
GCTCATGGAATCCAGGTCCTTCTATACCGCTTACCTGCAGAGACTCTCTGGGCTCACCAGGGAGGCTGCCCAGACCACAGTTGCACCAACCACTGCTAACAAGATAGCTCCCACTGTTTGGAAATTGGCAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116260-QSOX1:NM_001004128:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTGTCCCAGCACAAAGG
R:
CGATCTGCCAATTTCCAAACAGT
Band lengths:
272-1868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)