HsaINT0133729 @ hg19
Intron Retention
Gene
ENSG00000121390 | PSPC1
Description
paraspeckle component 1 [Source:HGNC Symbol;Acc:20320]
Coordinates
chr13:20279802-20283739:-
Coord C1 exon
chr13:20283682-20283739
Coord A exon
chr13:20279972-20283681
Coord C2 exon
chr13:20279802-20279971
Length
3710 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
GTATAGATTGTTTTACATAGATG
3' ss Score
3.28
Exon sequences
Seq C1 exon
AGAGAACAGGAAATGAGAATGGGTGATATGGGTCCCCGTGGAGCAATAAACATGGGAG
Seq A exon
GTAGGGATTTGAAGCAAAAGGCTTTTGTAATTTATCATTTTTGGGGGGACTGTTTATGCTGTTTGTGGTATCTACATATCAGTAAGAAACTAAAATACAGAACCAACATTTCTAAAGGTGAAATCTCTTACATCCATTAAACTGGAATACAATACAATTATATTAAAAATATATGTCTGGGAAGAAAATTCTCATTTTGTTTTTGTTTGAAGGCTAAAAGATGTGTTATACATTCATAGGCTTAATGAAAGAAACATATAAACCAGGTTGCAATACAGCCTGAAGGTAGTTTAGTCATTGCATTGTGTAATACAGCTCTGTCTTTGCAGTTTTAAAATCAAATTTTATGCCTTCTATTTGGCTTTTTTTTTTTTTTTTTTTTTGAGGCAGGACCTCACTCTGTTGCCCAGGCTGGAGTACAGTGGCACAAACTTGGCTTGCTGAAACCTCGACTTCCTGGGCTCAAGTGGTCCTTCCATCTTACCAAGTAGCTGGGACTACAGGCATGTGCCACCACGCCTGGCTTATTTTTTGTATTTTTAGTAGAGACAGGATTTCGCTTTGTTGCCCAGGATGGTCTCGAACTCCTGGGCTCAAGCAGTTTACCCCCATCAGCTTCCCAAAGTGCTGATATTCCAGGCATGAGCCACCTCGCCTGTCCTAATTGAACACTGGAAATTGATAGTTTCCGAGTTGGAAATTGATAGTTTCTGAGTTGTGTTTTTAGGTGGAGAGCGTTTTATACATTTCTATCTTAAACTAGCTTTTTGTGTAACTTTGAAGCTGTTTTCCTTCACTTTAATGAATATTGAACTTTTTTCCTTTAACCTACAGTGTTGTGCACAGAAGTGCACTCAGTGTTTGTAGTCTATAACTCATCAAGGGAATTATGTGTGTCGCCAATGCATGTTTTAGAGTTGACTAAGCTTTTAAGAAAGCATATTAGCAACTTTAGTATGGATTTGCTCGTATAGCCAAGTTGCAAGGGAAATAATGCCAAGTAAATAACCTGAAGGAAAAGCAAGTGTGGCATATCGTAGGCCTTACTAAATTTGAAATTTGAAATGTCATACATTTAAAAGTTGGATAAGGAATTAAATTTTATTAAATTAATTGTCCCACAAAAGCTGTCCCACATTAAATTGTCCCACAAAAGGTGTTATGAAGCTAAAAATCTTTATATAACTTAAAAGTACATAGTTTCAAAGATTACACTACCATGGCAAACAATGTACTTAACATGCACACCCATTTACAAAATCAAGTGTGTTCTCAGCATATATAGTCTATCAAATGAAACTTAAGTCATGTGTGGAATGAACATTTTCCATGATCAGCTTTTTTTTCTTAAACTTCTGTTGCCAGTTTTTCAATACTACTAATCAGATAATGTAGAGTCATATATTGCTGTTTTACTTGGTCACTTTTTACCAACAAGTAGTTAGTGAATATCTCTGATATATGCAGGAAGCAAGAAACATGGCCCTCGCCCATAAAGAACTTAATTGTGAAATTACTGCAGTGGATACGTGAAATAATTAATGAACCAAGAGTGTTCTAAATTATGAAGCATAATTGAGTATAATGATGTCCAAGTGGTCCAATATTTATGTCTTTTTTTAAGAGTAAATGCTGGGGTGCTATTTAATATAATCCATGTAATTTTAAGGATTTTAGGAATAAGGTTATTGTAGATTATAGGCAGTTTAAAAGGCTGTTATCATTATTAGAATGACATTAACATCAGAGCTAAACTTTAAAATAGTATAAAACTTAAAACCATTTCTGATGGTGCAGAGATACTCTGCAATTTTATCAGAAGAAATATCAGAATATGCCTTTAGAGTCCTTATTTAGTTAGGAATTGAAGATAACTTAAAATTTTTGTGACATTTTATTCACCAGAGGACTTACTTACATTTTAGCACTTAACTCTCCTAAAGCCCAGTTTATCTAATTTTCTCTTCAGTCTTCATTCAATGTGAGACTTCATCATAATGGTTTTGTAGAGCTATTAATCATTATCATCCAGTTGGGTTGTTGAGAAGTTAAAACTGTCATAACTCATCAAGTTACATTGATGGAAAGTGGCAGCAGATTTTCTGGTGTATCACTAGTGTGTATAACCAAACGAAACCTACATTATAATGCTACCTTTCTAGTAATCAGATAATGCTAACATTTTTTATATCTTTAAATTTATTTATAGCTATGTGGTGGAAGATGTGAATACTAAAAGTAAGGCTCTAAGTTAACTGCTGTTAGTTGGAAATATTATTTTTGATTTTTTATACCCATAGTTGTATAGTTATATTCTGAACCCACCATTGTTAAATTACATTCTATTAAAGAGAAAGAGAGGAAAAAGAAAACTTCCGAACCCACCATTGTAAAATTACATTCCATTAAAGAGAAAGAGAGGAAAAAGAAACTTAGTTTGTTTTCTGGGGGATTGTTGAGGTAAGACGCCTCTTAGATACTGTTCTTATATTCTCTTCATGTCTAGATTGTAGAAATTATTAAAAATAGCTATTTAGGGCTATACTGAGGGAGCGGAAATATTCTTGGTTAAAGTCTGTTTATCGGCAAGAGCATTTGGGGATGAAGGAAATAATTCCTTCCTATGAATTTGCTAGGTTTCTGGGGATTGGATTCAAAGAGCAGAAGTATGATGCCAGGGGCTGGTAAGGACTCAGCCATATAGAGATTTCAGCTGCATTATAATGTATATTTGAGAAATTGAGTTCTTATTATCAGAAAATTGACCTATGTAATGAAATACTAGAAGAAAACTCTAAATTAGAATGGCTTTGTTATGAATTTTTAATGATAAGTACTAACACTTAAAAGGGAAAAAATTTTTCAAAGAAAATGCCTAAAAATGTGTTGTATCTGAGATCATCATATATGTAGTATTACAGTGCAAACACTATTAATGTTAATGAGGTAGGTGGATTTTTTTAATGAAAAAACTTGAAATATTATCAGGTTGTCCCCATTTATGGAATTTAAGCTTGTCAGAAAGATCCAGATAGCTATATTAATATTTTATCTGTATTTGGTTGCGGTTGCTTTTAAAAATAAGTTTTCTTATAAGTCATTTCAATTTTTTGGTTTAGAGTCCATATTTCAAAATAAAAAGTTAAAAAAAGAGTACCTTATGTAATTTAGCAAGGTATTCCATAAACTCAGGGAGGAAAAAAAAAAAACTAAGATGAGAGGCTAGTTATAATGATCTTTATTTATATATTGCAGGAAATGATTTCCTCTCTCACAACTTAGCATAATTTACTGCTAATATTTTTAGCCATGGGTTGAAAAAAATTAAGTGGTTTTGTAAGTGCTAATCCTTTGTTACTCATTTAAACTGGTAAAATGTAGTCCCCATTGTTAGGGATTCTTTGGTTTAAAAGCCTGCTATTACAAAATAATAGTGATGTCTCAAAGCTTGCAAACTGTTAGTCTCAAATGCCCTAAAATGATTGATAGTTTCCTCCTTGATTTTATGTACGTTTGGCTTGGGGATGAAAATTCTAATTCTAGAGTGTAGGTAATACCCTATTACAGAGTAGATAACGCATATCGCATTCTTAAGGAGCGAAAATAATTTTGATAATGGTCTTGGTATATAGATTGCATAAATATTGTTAAATTGTTAATGTTTACTAAACTAAGATAGGACAGCTCTAAGTATAGATTGTTTTACATAG
Seq C2 exon
ATGCGTTTAGCCCAGCCCCTGCTGGTAACCAAGGTCCTCCTCCAATGATGGGTATGAATATGAACAACAGAGCAACTATACCTGGCCCACCAATGGGTCCTGGTCCTGCCATGGGACCAGAAGGAGCCGCAAATATGGGAACTCCAATGATGCCAGATAATGGAGCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121390-PSPC1:NM_001042414:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
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]
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)