MmuINT0127368 @ mm9
Intron Retention
Gene
ENSMUSG00000015476 | Prrt1
Description
proline-rich transmembrane protein 1 [Source:MGI Symbol;Acc:MGI:1932118]
Coordinates
chr17:34767578-34768900:+
Coord C1 exon
chr17:34767578-34768116
Coord A exon
chr17:34768117-34768714
Coord C2 exon
chr17:34768715-34768900
Length
598 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CCCCACTGTCCTTGCCACAGCCC
3' ss Score
7.63
Exon sequences
Seq C1 exon
GCCTTCCAGACTCGGTTCCCCACACTTCACCGCCGCCCTACAATGCCCCCCAGCCACCGGCCGAGCCCCCCATCCCGCCCCCACAAACGGCCCCATCCTCACATCACCACCACCACCACCATTACCACCAGTCTGGCACCGCCACCCTCCCGCGCTTAGGAGCAGGTGGCCTGGCCTCTGCTGCGGCCAGTGCTCAACGCGGTCCTTCGTCTTCCGCCACGCTACCGCGGCCCCCCCACCATGCCCCGCCCGGCCCCGCCGCTGGGGCTCCCCCACCCGGCTGTGCTACCTTACCCCGCATGCCACCCGACCCTTATCTGCAGGAGACTCGCTTCGAGGGTCCACTTCCCCCACCACCGCCTGCGGCCGCCGCCCCGCCCCCACCAGCGCCTGCCCCGACGGCCCAAGCCCCGGGCTTCGTGGTTCCCACGCACGCGGGGGCGGTGGGCACGTTGCCGCTGGGGGGCTACGTGGCGCCGGGCTACCCGCTGCAGCTGCAGCCGTGCACTGCTTATGTCCCTGTGTATCCGGTGGGCACG
Seq A exon
GTGAGTGTGGGGCTGATAAGATCTAGGAGGACAGGGAGGCAGGTGCAACAGGGACACGCGGGAAGCTGGGAGAGAGTGAAACAGAACCAGATCGACCGCCAGCCGTTCTGGTAACAACCCCTAGTCAGAAGAGTAGAAAGAGAAGAGACAGTGGATAGGAAGGTGGTGGACCTGGGGCGAGGGGTGGGGAGAGTGAGGGGGCAGGTTGTCAAAGGTCAAGGTTTGGGAGGTGGTTCAGAAGGCAAGAGGAGGTCTGACTTGACTTGGAGGGAGAGGAAGAAATGGATCCTGGGAAGCCAGGGGTAGAAGGGGGCAGAAGCCTGAGCCTGGAAATGCTAACGAGGATGGAAACAAGACCGGAAGGGCAGGCAGACCCAAAAGCTGTACCTTGTAAGACAGTGTGGGAACTTCCACGAATATAGAAGTTAATGATACCATGAAGGGAGGCCTAGGCCGATTTTACTGTCAGAAAGGATAGGGGGTGGATTCTAACCCCCTTTAACCTTAGAATGGTGTTTTTAAAAAAACCTCTCTGCCAATTGGCCAAGCAGCAAGACTGTAGTGTGACAGTCCCTTTCCCCCACTGTCCTTGCCACAG
Seq C2 exon
CCCTACGCAGGCGGGACCCCCGGGGGTCCTGGAGTGACCTCCACTCTGCCCCCGCCGCCCCAGGGCCCAGGATTGGCTCTGTTGGAGCCCAGGCGTCCGCCACACGACTACATGCCCATCGCTGTGCTGACCACCATCTGCTGCTTCTGGCCCACAGGCATCATCGCCATCTTCAAGGCCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015476-Prrt1:NM_030890:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.800 A=NA C2=0.403
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF045057=Dispanin=PU(54.4=79.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGACCCTTATCTGCAGGAGA
R:
GATGGGCATGTAGTCGTGTGG
Band lengths:
353-951
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: