HsaINT0135642 @ hg19
Intron Retention
Gene
ENSG00000119943 | PYROXD2
Description
pyridine nucleotide-disulphide oxidoreductase domain 2 [Source:HGNC Symbol;Acc:23517]
Coordinates
chr10:100146958-100148265:-
Coord C1 exon
chr10:100148111-100148265
Coord A exon
chr10:100147065-100148110
Coord C2 exon
chr10:100146958-100147064
Length
1046 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CTCTGTTTTTGGCACCCCAGTGT
3' ss Score
4.54
Exon sequences
Seq C1 exon
GCCTGTGATTGAGCTCTGCATCCCTTCCTCGCTGGACCCCACCCTGGCTCCCCCTGGCTGCCATGTAGTCTCCCTCTTCACTCAGTACATGCCCTATACGCTGGCTGGAGGCAAGGCCTGGGACGAGCAGGAGAGAGACGCTTATGCAGACAGAG
Seq A exon
GTAAAGACAGCTGCACGTTCTGCCTCCAGAGCCACAGCCGGGCATGCGACCCAACTGGGCCTGCTCCTCCTCACTGCCCCATTCAGGATTGACAACTGCAGGTGCCATTCCAAAGGGAGGAAATAGTCAAGGGAACCTCAAGTCAACATAGTTGACTGCAGGGGTCAGGAACTGGGCTAAGAAAGTCAAGAAGACACAGTTCCTGCCCTCCAGTTGCTCACAGTCTAGCAAGGGATGGAGGAGACTAATTAAGAAACCTTTTATTACAGCACAGCTGACTGCACGAACCAAAGGAGACGCATGAGCCAGAGAGACAAGGAAGGCTTTCAAAGGAAGGGATGGTCAAGCTGGGTTTCCAAGGATGACTAGGAGCTGGCCAGGCAGCAAAGGGCATTCCAAGCAAGAGAAACAGCTTGATCAGGCCAGGCGTGGGGGCTCATGCCTGTAATTCCAGCACTTCGGGAGGCCGAGGCAGGCGGATCACCCGAGGTCAGGAGTTCAAGACCAGCCTGACCAACATGGTGAAACCCCGTAGCTACTAAAAACATAAAAAAATTAGCAGGGTGTGGTGGCACATGCCTGTAATCTTAGCTGCTCAGGAGGCTGAGGCAGGAGAATCGTTTGAACCCAGAGGCGGAGGTTGCAGTGAGCTGAGATTGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAACAGCTTGAGAAAAGTGAAGAGGTGAAAAAAGCTGCATATGCAAAAGGAGATCAGCAGCTTCGTGTTTAAGGTTGGGGTAGGGAAGTGGGGAAAACTGGGGACTGGACTGGCCTACCCATGCATCTTTGGGATGAATTAATCATTTGCTTGTGGACTGATTTTTGTTTTTCACCTATTGAGGTATAATTTGCATATGATAAAATAAGCCCATTTCTGTGTGTAATTTAATGACTGTTAGTAAATTTGCCAAGTTGTACACCCATAGTGCCTCCTCTTCTTCCTAACACCATCTCATTTCTCTGTTTTTGGCACCCCAG
Seq C2 exon
TGTTTGATTGCATCGAGGTCTATGCCCCTGGCTTCAAGGACTCTGTGGTTGGCAGAGACATCCTCACACCACCAGATTTGGAGAGAATCTTCGGGCTTCCTGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119943-PYROXD2:NM_032709:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTGATTGAGCTCTGCAT
R:
CCCTCCAGGAAGCCCGAA
Band lengths:
262-1308
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)