HsaINT0133737 @ hg19
Intron Retention
Gene
ENSG00000121390 | PSPC1
Description
paraspeckle component 1 [Source:HGNC Symbol;Acc:20320]
Coordinates
chr13:20248896-20251963:-
Coord C1 exon
chr13:20251864-20251963
Coord A exon
chr13:20249125-20251863
Coord C2 exon
chr13:20248896-20249124
Length
2739 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AACCTTCATTGTCTTCACAGTCT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GGTGATAAAAGAAAATGTGGCTGAAGTTACCCGAAGTTCAGCTTGCAGTGTAATTCAGAAGAGTTAAGACCAGAAGTACTGGAATCATACTTCCTTTCAG
Seq A exon
GTCAGTCCGTATCTGCTCATTATTTTCTAACAGATCCTTGAGTATTCGTTTCTTCCTAGTTTTTTCTAGTCAATTCTTCCTGATTCTGATTCTGTGGACTGTAATGAAGATATGTAATGGTCCCAGTGTTTTGAGTCAGTAGAATATTTATGAACAGTTTATAGGTGAAGCTGAAGCCTCTATAGCTTGGCCTGTCTTCGTAGGAAACCCTGGCATCATATCTCAGCAAGGCTAGAGGGGACTCTCAGCTTCGCCTTGCCCTCCTCTTTCCTCACTGGTGTAATGCGTATATTAATTTGTCTTCAGGTAAAACTGGACTAAGAGGGGAAATGACTAAGAGGGGAAATGACATAGAGGTCTTGGAGTGAGGAGAGAGAAAAAAAAGGTCTTTGTAAAAAAATTTCCTGTTGATTTTTAATGACCTCCAAACCTAGAATTTTAAACTTGTGTTCCTTTGGAAAATATGTAATCTCTTTTTTTTTTTTTTTTTTGAGACGGAGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCACGATCTTGGCTCACTGCAAGCTCTGCCTCCCGGGTTCATGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACCACAGGCGCCTGCCACCATGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACTGTGTTAGCCAGGATGGTCTCGATCTCCTGACTTTGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTAGAGGCGTGAGCCACTGTGCCCGGCCAGAAAATATGTAATCTTAAAAATGGATCCATTCCTCCTCCTCTGCTTTTTACTTTTTCGGAGAGGGGTCACAATTTTTCGGTTCTTTTGTTATGTCACTCTTAAAATATTATTGAAACATTAATGCAGTCTTTATGACAAAATTCCCATGGGTACATTGTCATCCTAATAGATCCAGAAAGTATTAAGTGTATGTCTTTTCTAGCTTTTGTCTGGTGATACTAAACATTATTGTGTCTTATTCTTGCTGCTACAAGTGGTTCTGGGGACTAGGAGTGACAGTGTTGCCTGAGAGCTTCTTGGAAATGAAGTGTCTCCCACACAGGACACAGAGTCCTGCAAGTCAAAAAGTCCGTTTTAACTGTGAAGATTAGGTCCTGTGTACTAATGAAGACGTTTCTTTCTAGGATTTGTGTGCACTTGGTTTGAGATGCACTGATGTATTCTGTAGTTTTGAGAAATTATACCTTTTCAAAGTATCTGACACCTCATGCAGCACAAAAATGTGACAGCTGTTTTGCATACTGTACCCAGCTCTAGAAAGTTAAATCTCAGGCTTTGGTTCTCAGGCCTAGACCAGCAGCATCGCCATCTGGGAGCTTCAGAATGCACATTCTCAAGCCACACCCTCAGCCTATGCAACAGAAATTTTGAGGATGGAAACTAGAGAATAATTTTCTAGTCTATGGAGATTTTATTGAAGTTAAACTTTTAAATTGCTGTATTATGTAGGTATCTGAAAATCCAAAGAACGAATCTCATATATGGGTAAGGAAATATATGGGAAAGGAAAAAAAATTGTGTACATAAGCTGTCTGTGGCATAGATCAAGCCTGTGGCATTCTGTGGCCTTCAAAGAGAGAAGGGGAGAGAGATTCTATAAGCTTATCAGGTAGATTTGTCATTGGAACTTTAGGATTTTAAAATTTTGGTTAAAATATGTGAATACTGTTACTTCAGTTAAAGTAACTCCTTTTATAGATTTTGCTTTCTAACAAAGTCAGTGAAAAGTAACCGAGGTTCACTCCAGAAACATGTAAAGAAAGTAAAATTATTAAAAGGCCAAATATTTAATTCTTGTGACATTGAATCTGCTTTTATTATAAAGAGTTAAGAAATTGCCATTTCCATGACAGTTTCCTCCATCAACAATCTTAATATTGAAGCTTGAATTTAGGTCTGCTGGTCAGTGATTCTAGTCTAGCAAATTACTTTAGGACTGAAAGCTCTTGTTTCTTTAGAAAAATATACTATGGAGATTAGATCCTGTTTACTAGTGAAGACTCTGTCTCTTTTCCAGGTCAAAACATTTTGTGGGAAATATCCTGTTCGTGACCTAGGAGAAACAAGACAGAAAACAAATCTTTCTTCATTTATGAATTTCTTACTCCATACAAGCAGTTTATGGATGTCTGGGCAATCATAGCACTTGCCATTTAAAAACATGCTACAGGGGCACATTTTCTGTGGTTAAAAATGATCTCCAGAATAAGTGTAAACTGCAGTTTTCCTTTGCATTGAGGGTTTTGGCTTTTTATTTGTAAATTAAATCAAGATGTTACCCACTCCTTGGTGTGGTGGTCTTGCTGGTTCGTGTTGGGAAGTAGTATGGCAGCAATGCACAAATTCAGAATAGCCAAGAAATCCCTCCTTTTCAACGCTCTGTGCCTGGGAACCATTAGAGGAGTTTTAAAAACCATCCCTCATAGCCCACAATTTTGGGTCAACTCTCAAAATTGGGAATAAGAAAACTGGCACTGTTGGGAGAAAAATCGTTCTTACTGAAACATGAACTGGCTCAGGCAAGCAAATAGCGGGAGTCGGCACAGGAAGGAGTGTGTGCTGCGGGGATGCGTGGTGGCGTCACCTTCAAAACTAAAGTGGTGCCAGGCGGACAGATGAGTCCTTGATCTTGTTTCCTGATCTTGTTTCCATTTGACTGAATTCTGAACCTTCATTGTCTTCACAG
Seq C2 exon
TCTTGCCACTTGCCTAGTGAGGCTTTTCCGAACCTGGAAGGAGACGTCTAGAAATCCCAACTTTGCTGTGTAAGGACCATTAGCTGCAAGTCAGTGGAAGTCTATAGAAAGCAGTGTGAATTCCATAGTGGTCTTGACTTCTTAGCAAGGATTTGGGATAAGTCTAAAACTTCAGACTTAAAGCTTTGAAGCATGTTAACTGCATGAAATATTAAACATTTCGAACTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121390-PSPC1:NR_003272:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)