MmuINT0123200 @ mm10
Intron Retention
Gene
ENSMUSG00000036833 | Pnpla7
Description
patatin-like phospholipase domain containing 7 [Source:MGI Symbol;Acc:MGI:2385325]
Coordinates
chr2:25040946-25042207:+
Coord C1 exon
chr2:25040946-25041128
Coord A exon
chr2:25041129-25042088
Coord C2 exon
chr2:25042089-25042207
Length
960 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTTCCTTTGGCTCCTCTCAGGTC
3' ss Score
9.95
Exon sequences
Seq C1 exon
CTGGAGCAGATGTTGGAGAGCACAGCTGTGCGTGCCCAGAAGCAGCTAATCTTGCTGCACAAAGAGGACGGTCCAGTGCCTTCCCGCACAGTGGAGTGGCTCAACATGCGAAGTTGGTGTTCTGGCCATTTGCACCTCTGCTGCCCACGCCGTGTCTTCTCCAAGAGAAGCTTGCCCAAGCTG
Seq A exon
GTAAGACCTGGTGGGCTGGCTCAGTGGGACTTGGCCCTGACTACATCATTTCTGGCCTTCAGCTATATATTTAAAACTGTCTTCCTCCCCCTTTATGCAGCATCAGGGCTTGTGGGTTCTGGTTGGGCTTGCCTCTGCCTCTGAACTCTGACTGTGACCTTAACTCTTGTGCTACCTTGCAGATGAAGAAAGGCACAACATGGTGGGAGCACAAGCACAGAGGCCATCAAGACCTGGGAAGGCCAGGAGTCTGTGCTTGACTTAGGTTCAGGGTCCAAGGCTGAGAGCCTCACATTTAGCCAAAGCCCCAGAGAGATCTCATGATCAGGTCCCTACACTATCCCTTCAGGGCAGAAGCAGACACAATCCTGAGACACTTCTTCCTTGGGTCAGCTTTAGTTCTTCGGGCCCAGTGTGAAAACTAGGTGGTGCCCACATGCCATAGCTCATTCAACCCTCACAGCTCAATGGACAGCATCCTGTTAACTGCATCTCTGCTCCTGAGAATACTGTCTACATAGAGGGCCAGTGGAGAGACTCAGGTGGGACATCCTGGGGGGCTCTGTGGTCTTAGGTAGTCTATAAGCTCCCTCCAGGTTTGTTTGTCCTCTGCCAGCACCCACCAGGTAAGCTTGGACCTTTCCGGGCACTTGGGTGCTCATAGGACTGTGTTCTGGAAAGGATAGGATATGAGGCAAATCAAGACATGCAGAGTTAAAAAAACAAAAACAAACAAACAAAAAAACCAAATAGCTGGACGTGGTGGCACATGCCTTTAATCCAGGCAGAGGCAGGCGAATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAAGACAGCCAGGGCTATACAGAGAAACCCTGTCTCGAAAGAGCAAAAAGAAAAAAAAAAGACATGCAGAGTTTTAGCTGAAGAAATACACAGACCTCTGTCTTCCTTTGGCTCCTCTCAG
Seq C2 exon
GTCGAGATGTACACACGTGTTTTCCAACGACCACCAGACCGTCATTCTGATTTTTCCCGCCTGGCACGGATGCTGACAGGCAATGCCATTGCCTTGGTGCTTGGAGGGGGTGGAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036833:ENSMUST00000045295:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0173417=Patatin=PU(4.8=20.0)
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:
CTGGAGCAGATGTTGGAGAGC
R:
CTAGCTCCACCCCCTCCAAG
Band lengths:
302-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types