HsaINT0121826 @ hg19
Intron Retention
Gene
ENSG00000136940 | PDCL
Description
phosducin-like [Source:HGNC Symbol;Acc:8770]
Coordinates
chr9:125580376-125585476:-
Coord C1 exon
chr9:125585295-125585476
Coord A exon
chr9:125582916-125585294
Coord C2 exon
chr9:125580376-125582915
Length
2379 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
ACTTGCTGGTCCGCCTGCAGATG
3' ss Score
9.65
Exon sequences
Seq C1 exon
GCCCAAAAGGTGTGATCAATGACTGGCGCCGCTTCAAGCAGTTGGAGACAGAGCAGAGGGAGGAGCAGTGCCGGGAGATGGAAAGGCTGATCAAGAAGCTGTCAATGACTTGCAGGTCCCATCTGGATGAAGAGGAGGAGCAACAGAAACAGAAAGACCTCCAGGAGAAGATCAGTGGGAAG
Seq A exon
GTAATTAGCAGTACTCAGGCTTTTCTTAGAGTCTGCTGTGGCTGCTAGAGCTGGGTGAGTGATTCAAGAGGTGGAGGATGCTTGATTTGACCTCCAAGAAGTTGTGCAGTGCAGGAGAAATCATAGAGCCCTGTCAAAACTCAAACCCACCCAGCTTTGGATCTCAGTTCTGCTACTAGTGACTGTGGGAGAGTCTCTTCCCTTCTGAATCTGGTGTTTCAATGGTTAAATGATGTATCCTCCCCGTGCAGGGCTGTGTTGTTAATATGCCCATCACAGTGTCTGGCCCATTGAAAGTGCTCAGTAAATTTTAGTTTCCCTTCTTTTATTGAGGTTTTATCTTGGGCCAGAAATAACCCTCTTAGGGTGGTGGTATTATCCCCTTCTTACAGATAATGGAAGCAATGCTTAGAGGGCATTAGAGGCTTGTTCAGGGCAATGCAACTGGTAAATTCTAGTAGGCGCTAGGGTTCTAACCCAAATACTCCTGTTTCTTCCATGATGTTGCTATTTCATCTGAAGCCTATTCATGAGAATTTATTCTAAGGAGGCATTATAATAAGCAAACAGATACTCTGGAAGATATTTGGAAGTAGGCACCTGATGGCCTTTTTTTTTTTTTTTTTAATAGAGACAGGGTCTATGTTGCCCAGGCTGGTCTCGGAACTCCTGAGGTCAAGGGACCCTCCCACCATAGCCTCCCAAAGTGCTAGGATTACAGGCGTGAGCCGTGGTGCCCGGCCCGTGATGGCCTCTTATCCTATCAGTATTAAAAGGGATTCACTGTTTCTCTGGATGCCCTCTGAGTGTGGACGAATGTCTGTGAGTGCCTGAGATCATTTAGTTATGGCCCAAAGCTAAAATACCACACAGGATCAGGGAGCAGATAAGAGGATTAAGCTGGGAATCATTCACCTTGACCAGGAGGCTGATTTTAGGACATTACACTTAGCCAAAGACTTCAATAGGTCAGAAGAAGCCACTCTGGTAGACTGAGTTGAAGTGGAGGGCTGCAAGATGGGAGGAAAATTGGCAATAAGTAAAATAGTGAACTCAGAATGTTGCTGGTTATGATAAAGTAACAACGTGTTCTGATCTAGTGTGATCTCCCACTCCCTGTTCCCTAATCTATGCAACATTAGGCAGAGTTAGGTTTTATGAGAGGAGCGAGGATGTCTTGCTGCACCGGGGCAGGGGTAAGATGCTTTCGTAGCTTAAGCTGTCTCTTGGGCATTGTGCCTGCTGCTCACAGCTGCTTCCTGATACTGAGGTGAGAGGCCAGAATGAGGCAACATCATATCATCACATGGATCAGTCTTGTGAGAGGCTGTTCCCGTCCTGCTGATTTATCTGCAATAGAACAGAATTGGAAACTGTCTGGCAGAATTAGGGAAGTGATTAAGCAAAGTGACACATTATATATAATTTCATAAAAATATTTGGAAACATGAGGAAATACTTATAATCGTGCTAAGTCTCGAAAGCAGGTTATGGCTTAATTGGTACACCCACAGCTGCTGCTATAAAAGCAAAACTATTTTAGTATGACTGGTAATAAAAATAATTTTTAGAGTCCATATGACTCTGTGTGTGTGTGTGTGTTTGGGGATGGTGTGGGGCAGGGGTTATGAGAGTTTTTTCTAAAATTCTGTAATGTCTTGTTATCTTTCAAAAAAAAAGTAGATAAAATATTGTCAAGACTGACAAAAAGAAATAAGCTCATGAAGTGAGATTATATGATGCTGCCTATTTGGATTGAGAGGAAATGTGATATTGTAGTTAAAAACATGGGTTTTTAAAATCTAGTTTGAGTACTGGTCTTATGCTTACTGGGTGAACTTGTTCAAATAATGTCAAGTTTTGGAACCTCATTTATAAAGTGGGGCTATTAAAAGTCCCTTCCCGATGGAGTTATGGAATTCAGTGAGATATAATGCATGTAAAGTACTTAGCATGGTGCCTTATATATTATCAGCATGTAGTACATGTTAACTGTTTTATTTCTTTTTATTTTTTTGGAGACAGGGTATCACCCTGTCTCCCAGGCTGGAGTGCACTGGTGTGATCTTGGCTAACTGCAACCTCTGCCTCCCAGGTTCAAGTGATTCTTGTTGTGCCTCAGCCTCCAGTGTAGCTGGGACCACAGGTGCACACCACCATGCCCTGCTAACTTTTTTTTTTTTTTTTTTTTTTAAGGAGAGATGAGGCTTTGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAAGTGATCCGCTCGTCTCAGCCTCCCAAAGTGCTAGGATTACAGGCGTGAGCCACCGCGCCCGGCCCATATTAACTGTTATCACGAGTGTTCAGTTTTCATATTTATGCTCACTTGCTGGTCCGCCTGCAG
Seq C2 exon
ATGACTCTGAAGGAGTTTGCCATAATGAATGAGGACCAAGATGATGAAGAGTTTCTGCAGCAGTACCGGAAGCAGCGAATGGAAGAGATGCGGCAGCAGCTTCACAAGGGGCCCCAATTCAAGCAGGTTTTTGAGATCTCCAGTGGAGAAGGGTTTTTAGACATGATTGATAAAGAACAGAAAAGCATTGTCATCATGGTTCATATTTATGAGGATGGCATTCCAGGGACCGAAGCCATGAATGGTTGCATGATCTGCCTTGCCGCAGAGTACCCAGCTGTCAAGTTCTGCAAGGTGAAGAGCTCAGTTATTGGCGCCAGCAGTCAGTTCACCAGGAATGCCCTTCCTGCCCTGCTGATCTATAAGGGGGGTGAATTGATCGGCAATTTTGTTCGTGTTACTGACCAGCTGGGGGATGATTTCTTTGCTGTGGACCTTGAAGCTTTTCTCCAGGAATTTGGATTACTCCCAGAAAAGGAAGTCTTGGTGCTGACATCTGTGCGTAACTCTGCCACGTGTCACAGTGAGGATAGCGACCTGGAAATAGATTGAACTGATAGTCTAGTTGCATAGATTTCTCATTGTTTGGGTTGGAATACACGTCATTGTTTATTTTTGTTCCTTTGTCTTCTGGCTTTTCAGCTGTTCTTTGTAGTCCCTTTTATTATGCATAAAATAAAGAAATTCTTAGATTAAATCAGAATGCTGAATAACCTTGTAGCTAGCAATAAGGTGACTTACAGTTGTATAAACAGGAAGCCAGGCTTTTGAACTGTTTACTTAAGATTCTGTGGTGTGACATCTCTGTTATTGTTTCCAGTCAATATTTACAAAGCATCCTAAAGACAGGGTCTTGGAAATTGTCTTCAGATGATCTTAGAGGTCTCTGCCAAGTCTGAGAGTATAATTCTGTAGGTATTGTGTTATTTGCAACGTAAATAGTGCATTTTCTTAATCAAATGATTGTAAATTATATTTACTTGTAATCAGTTCCATAGCTTTAGACGGTGGTTAGATTTTTTTTTTCCCCACCAGGGTCTTGTTTAAAGGGGTGAGCCACCGCACCCAGTCCTGAGGGGTGGCCTCTGCTGCTGGATTTCATGTCTTCCTCCAGCATGACTAAGTCTGGAACAGCAGGAAGGGTTGATGCTTACTGACCTGGTGATGTTAGAAGACAAGTAGTTTATGGATTTAAACATTAGAGCTGGAGTGGGGCTGGAAATCTTTGTAAAGGAAGTTCTTTCAGTAAGATGCCCCTGCTTGTCTTTGTCTCTTTTTTGTTTAACAAGGTAACTTTTTGTTTAACAAGGTAACTTTTTGTTTAACCTAGATTTTTTTTAAAACTTTTTTTTTTTTTCATATTGGAAAAGTAATTCATATTCAGTAGAGGAAAACTGACCAAAACAGAAGCAAAAATAAGAAAATTAAAATAATCTCTAATCCTACTACCTAGAATAAAACACTATTAATATTTTGGTCTGTTTCCTGCCAAGGTGTTTTCTGTGTATACATGGATATTTTGTTTGTTTTTAAACAAAACGATGGGATCATTCTGAACATACTGTTCTATAGTATGGTCAGCTAATAATATATCAGACCTTTTTTTATATTATTAAATATTCTACAACTTTTTAAAAATGTCTATTAATATTCCATCGTATAGATGTGATATAATTTGCTTGATGGTTGTCTCTTAAAAAGAAAGATAGCAAATACTTTTTTTAAATTACAAAAGTGATAGATGTTCATTGTAGAAAATGTAATAAACACTGTTAAGACTTAAAAGCCATATAATTCCACCAACCAAAATTAATCCCTTTTGTCATATTTCTAGTCATTTTTATAGCCTTTTTTTCTATGTATTTATAATAATTATCATTTGCGTTTTTTTCCTTTTTTTAACTTTAAAAATGTATATTCTAGGGTCAGGGGAAATGTAATCTGGAATTAAATATTAGCCTTAAAATTCACAATTTTGATTTTCCTGGCTTTTCAGGAATTGACTAACTGTAAAAGAGTCTTGAAAGTATTTAGTCAACAAACAGAGTGCATTTTTTTTTTTTTTGACTAAGAAAGCTCGTTGTAGTAGAAAGGGTGGAATGTATTGAAAATTATTAGAAGCAGGGAAGTATTGTTAGTCTAGCTTATTTCCTTTCAGTCTTTTTTCAATATTTTTATAAACATTGAGTACTTACTGAATTTAGTTCTGTGCTCTTCCTTATTTAGTGTTGTATCATAAATACTTTGATGTTTCAAACATTCTAAATAAATAATTTTCAGTGGCTTCATAATATTTCATCATTTGGATATATAATAATTTATTTAACCAGTCTCTTTATTTTTATTTATTTATTTTGTTTGTTTTCTTTGAGATGGAGTCTCGCTCTGTCACCCAGGCTGGAGTACAATAGCGTGATCTCGGCTCACTGCAACCTCCACCTCCTGGGTTCAAGCAGTTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCACATGCCATCACGCCTGGCTAATTTTTGTATTTTTACTAGAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136940-PDCL:NM_005388:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.577 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(22.6=100)
A:
NA
C2:
PF0211411=Phosducin=PD(67.9=97.8)
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:
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)