MmuINT0123151 @ mm9
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3515384-3516749:+
Coord C1 exon
chr8:3515384-3515556
Coord A exon
chr8:3515557-3516680
Coord C2 exon
chr8:3516681-3516749
Length
1124 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
TTTTGCTCCTCGATTTCCAGGAC
3' ss Score
10.01
Exon sequences
Seq C1 exon
AAAGGTGCCGCGTCTGAGGCAGCGGGCAGAAAACTAGGGGTGTTGGCCGAAGCTGGGTGGACCTGGTTGCAGCTCCTGAATGGTACGAGTTTCCATCGACCGAGCAAAGGTGTCCCTTCGAGGACTGTTAGAGAGCTTCAGCTTTGCCCCGGATCGATTTGTCCTGATTCCGG
Seq A exon
GTAGGTCCCGACTTTTTGATGCTCCAATACCACCCCACCCCCATTCCTAAGTTCCTTGTCCCGGTGTTTCCGCATCGGTAGTCAGATGCGACCTGGAGTACGGAATGGAAGTAGTCAATCTAACAATTTTCCAGGTAACATCTCAGGGCCCTGCGATCCTTCTAAATTCCCATTAATAATAGTCTAAAGGCATCAGAAAGATCTCCAGCGTCCCAGGAGAGTCCCGGTAGCGTTCCTACCTTCCCCGGTATCTTCCTGGAAGCTCCTAGACTCCTAAGTAGTTATGTGTATCTCCGGATCTCAGTAACTTTCCAGTGCGTCGTTCCTCCTACCCTCCCCCAATTCCGGCGTCCCTGGTTACACATCCTGCATCATTTCACTAATCCCAGGGATGCTCCGCACCGCGAGACCCGGTAACTTTCCTTTTACGTGACAGTTAAATCTCCAAGCCCGAGCCTATAACACTTTGGGAGCTCATCTTACTCCGATGGCCCTAGAGCCCCCTTTTCAATAGATTGCACAGCAGTGCTTCCAGTGCACGCCCCAGCTTCCTTGATGGGCCCAGGCTTGGGTCAGGAGCCCAAAGTCCAATTGTCCCTCAGCCTCCTGGCTTACAGGTCCTGGTTTCTTCTGGAGTGAGACATCGCGTCTTTACAGGGTGTAGGAAGGGGTCTCGCCTAAGGGTTGGTTAATCAAGAGTAGTCAGACATACGGAAGGCCAGGCTAAGGAAGGAACCACTGCCAGAAGAGATCATGGCTTAAGGGCACCTGCCAGCGAGCTGCTGACTGTGGGTGCCAGGACGGCTACCCTTTTGGCCACAGGGTGCAGATGAAAACGTTACGGAGTCTGGTCCGCCTTATGCATAAGTGAAGTAGGACAAAGAGCTGGGGGCTGGTCTCATCCCTTGATCTGGGCGGGGAAATCAACTTGCCCCTATCCTTCTGTCTAGCAGTACCCCTCTAGACGCTCTCACCCCAACCCCGGCGAATGGAGGAGTCACTCCAGCCAAAGGTATCTAGGGGGCGTGGCTTGTGAGACGAGCTAGGGGTAAGGAGCCTGTAGGCGCTGCTGGGTAGGCTTGATTGACATCTTGTTCTGGTCCCTTTTGCTCCTCGATTTCCAG
Seq C2 exon
GACTGCAGGCTACAAGACCTGCTACCTAGTCCGAAACAATCGATGGAGGCCCCACTGCAAACCGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565-Pnpla6:NM_015801:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
AAAGGTGCCGCGTCTGAG
R:
CATTCCGGTTTGCAGTGGGG
Band lengths:
242-1366
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: