HsaINT0128289 @ hg19
Intron Retention
Gene
ENSG00000165688 | PMPCA
Description
peptidase (mitochondrial processing) alpha [Source:HGNC Symbol;Acc:18667]
Coordinates
chr9:139313496-139316428:+
Coord C1 exon
chr9:139313496-139313558
Coord A exon
chr9:139313559-139316283
Coord C2 exon
chr9:139316284-139316428
Length
2725 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
TGACTGGACCCTGGCCCCAGGTG
3' ss Score
6.87
Exon sequences
Seq C1 exon
GTTCGAGAAATGGTAGAAATCATCACAAAGGAGTTTATTTTAATGGGCGGAACCGTGGACACG
Seq A exon
GTAAGTGCAGTGTGGCGCCATTTCCAGGCGTACCTGTGGTGTCTGACAGGAGACAGCCACGTTGTAGGAGTGGCCACCTGTGGGCCTGGTCCCTGAGCCTCAGGGCCAAGGTCCCGGCAGGGCAGGGCAGGGCAGGGCGGCCAAGGAGGCACAGCCTGGGGCTGAGCTGCTCCACCTGGGAGCCCGCTGAGGCTGTTCTTCCCTGGTCCAAACCCCGAAAACAGAAAAACAGACCACCGCCCTCCCCCAGTGCTCGGTCCACTACTTCTTTCTCTGAGCCACTGGGTGAGTCGTGGGACTGACCATGTGACTCTCTCAGCTTTGCTGGCGAAACGCTGCAGGAGTTTTTGTGTCCTTCTCAGCCGCCTCTGTGAGGTGACTGGGGTGAAGCAGCTCGCACAGGTGGGCTGCAGCGTGGGGTGTCTCGAGCCTTTCCCTGGCTCCATTCTATGTTTGAAACTGTATTTGTTTACCAATTTTTTTTTGTTCTTTTTAAGATGGAGTCTCACTGTCTCACCCAGGCTGGAGTGCAGTAGCTCAAATTCGGCTCACTGCAACCTCCACCTCCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCCAAGTAGCTGGGATTACAGGCATGCGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGGTGGTCTTAAACTCCTGACCTCAAGTGATCCGTTGCCTTGGCCTCCCAAGGTGCTGGGATTACAATTACAGGTGTGAGCCACCATGCGTCCCTGTTTACTAATTTTTTAAGCTTAGTTTTTGATGCTTTACACATTTGGGAACCTCGTTACTTCCTGGACCAGAAGTGGTACAAATAAGCAAGTTTTATACACACACTTTTTTTTTTTTTTAGACAGAGTCTTGCTCAGGCTGGAGTGCAGTGGCATGATCTCAGCTCACTGCATCCTTCCACCTCCCGGGTTCAGGTGATTCTCCTACCTTAGCCTCCTGAGTAGCTGGGATTACAGGCATGTGTCACCACCCTAGCTAATTTTTTTGTTTTTTGTTTTCTGTTTTTTTTTTTTTTTTTTGAGACGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCGGTGGCATGATCTCAACTCATTGCAACCTCCGCCTCCCGGGTTCAGGTGATTCTCCTACCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACCCACCACCACACCTGGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAAGTCATCTGCCCATCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCATTGCACGCAGCCCCATGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCACGTTGGCCAGACCGGTCTTGAACTGCTGACCTCAGGTGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACTTTGGGATCCCGGTGTGAGCCACCGTGCCCGGCCAGGAAAAAAAGCATTCAAGAAATAAAGTTGTGGTTAAATTAATACGCTTCAGTTCCACTAGTGCACTGCTAGAAAAACAGTCCTCCACTAACGTGAAGTCAACTTGAAATAAATATGAAGTATTTAGGTATTTGCCTAAAGTTGCAAAAAGACCTAAGAATTGTTTTACTTAAAAGAAATGGTATAGAGGCCAGGTCCGGTGGCTTATGCCTGTTTTCCCAGCACTTTGGGAGACCAAGGTGGGAGGATCACTTGAGCCCAGGAGTTCAAGACTGACCTGGGCAACATAGCAAGACCCTGTGTCTATTTAAGAAAAAAAAAAAAAAGTGTAGCATCTCTGCGGCCCATCAGTTTTTGGTGTTTGTTTTTCAGTATGCTGGCTCCTAGATCTGCATGTCCTTCTCACAGCACCCCTGCCTGTGCCCTGAGACAGTCTGAAGGCAGCCTAGGACCCGCACTGCCTCCCTCAGAACCTCCCAGGGACTTTGCTAAAACCAGCTGCCTGGGCCCTGCGCCGGAGGCGTCTGGGGAAGCCCCAGAACCTGTGTTTCATTTGTTTTCCCCGATTTTGCCGTGTGGCCACTTTGGGGCCCTGGCATTTGGGAGTTAACTATTTTACCTTCTCCCGCTGCATGTCACACAGACAATGAAGAACTCAAGGGAGGCACATTGCTCCTGTATTTCAAGTGTGGTAGAAGCCGGGTAACACGTAGCACAGCCCTTCCCTAAAAAACCTGAAGGGGAGACCAGCAGGGTTGCCTGTGACTTGGGCCTGGGTTCCCGTTTTTTTTTTTTTTTTTTTTTTTGAGACAGAGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGGTGCGATCTGGGCTCACTGCAAGCTCCGCCTCCCGGGTTCATGCCATTCTCCCGCCTCAGCTTCCTGAGCAGCTGGGACTACAGGCGCCCGCCACCACGCCCAGCTAATTTCTTTTTGTATTTTTAGTAGAGAAGGGGTTTCACTCTGTTAGCCAGGATGGTCTCAATCTCCTGACCTCGTGATCCGCCTGCCTCAGCCTCCCAAAGAGCTGGGATTACAGGCGGGAGCCACTGCGCCCGGCTGCCCTTCCCTTTCTTATGTTCAGCTTTGGGCACAGAGATGGCGTTTTGCCATTGCTCGAGTGGGGGGTGGAAGGTGGCACGGGGCGGGTGTGTGCTCACCTGACTGGACCCTGGCCCCAG
Seq C2 exon
GTGGAGCTGGAACGAGCCAAGACGCAGCTGACATCAATGCTCATGATGAACCTGGAATCCAGGCCTGTGATCTTCGAGGATGTGGGGAGGCAGGTGCTGGCCACTCGCTCCAGAAAGCTGCCGCACGAGCTGTGCACGCTCATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165688-PMPCA:NM_015160:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.158
Domain overlap (PFAM):
C1:
PF0519316=Peptidase_M16_C=FE(10.0=100)
A:
NA
C2:
PF0519316=Peptidase_M16_C=PD(4.5=18.4)
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:
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)