MmuINT0123177 @ mm9
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3543067-3544267:+
Coord C1 exon
chr8:3543067-3543176
Coord A exon
chr8:3543177-3543953
Coord C2 exon
chr8:3543954-3544267
Length
777 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
TGTATTGCCTGTCCCTATAGGAA
3' ss Score
10.38
Exon sequences
Seq C1 exon
GGGAGGAGTCGGATTGCTTGACAGAGTATGAGGAAGATGCAGGACCAGACTGCTCAAGAGATGAAGGGGGCTCCCCTGAGGGTGCCAGCCCTAGCACTGCCTCAGAGGTG
Seq A exon
GTAAGAATGGACAGCCCAAAGATCACATGGCCCCAGCAGATCACATGTGCAGTGGGAAGGAACTAAATAAAGTCTTGGGGCGGGGGCAGTGCTGGATGGTATTCGAACACAAGTTTAGAGATGGGAGATTCATGTCTCCCCATCTTAGGACTATGAACTAAATCCACATTGGTTTACTTCTGTTGCTGTGACAAAATACTCTTCAGAACACCTCAGGAGAGAAAGGGTTTATTTATCTCATACTTTAAAGTTACACTCAATCTTTGTAAGAGAGTCAAGGAGTCAGGAGCTTGAGAGAACTGGTGACATTAGGTCTACAGTCAGAAAATAGCAATACGTGCATGTATGCCTCTACTCAGATCTCTTTCTCCACTCTACAGCCCCGTGTAGGGAATGGTGCCACCCACAGTAGGCAGGTCTTCCCACTACAATTAACTGCATAAAGTCACCCCTCCCCACCACATGCTCCCAGAACAACTTGATTTAGGCACTACTTCATTGAGACTCCACTCCTAGGGTATTCCAGATTATGTCAGGTTGACAATTAAAATTAACCATCACAGTGTGTTAATGGCCCTGGGGCAGGAAGTATGTCACAATGTACAAACTGGTTGTTTCTAAAGTGACATTTATCAAGCAAGGCTTGAGATGAAACTAGTTTTGAGTGGTGAGGGTTTGGCAGCTCTATTTGTGGCTATCATGTAGATGTCACGAAGTGGATACATGGCTGACGTTCACCCTGTCTGGATAACACACATGTATTGCCTGTCCCTATAG
Seq C2 exon
GAAGAAGAGAAGTCCACACTCCGGCAACGACGCTTTCTGCCTCAGGAGACTCCCAGCTCAGTCGCAGATGCCTGAGGATCTTGACAGGGAAGCCCTGTTCCTAGACTGGGTTATGGGTGAGCTTGTGGGGGAGCTCACACTATTATTCCCACTGCTGCTATACTTCAACACTCCCTGGGCCCTTCCCCCTTGGCTCCAAGGACCACACACTGGACTGACTTGCCCTGTCCCTAAGGGGAGGGCAGAACTGCACTGATAACCTTTGACCAACTATGTGACCTTCCCCCAAATAAACTCTTACCCCTTTCGAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565-Pnpla6:NM_015801:33
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.919 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGAGTCGGATTGCTTGAC
R:
TAGGGACAGGGCAAGTCAGTC
Band lengths:
342-1119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: