MmuINT0127367 @ mm9
Intron Retention
Gene
ENSMUSG00000015476 | Prrt1
Description
proline-rich transmembrane protein 1 [Source:MGI Symbol;Acc:MGI:1932118]
Coordinates
chr17:34766631-34768116:+
Coord C1 exon
chr17:34766631-34766649
Coord A exon
chr17:34766650-34767577
Coord C2 exon
chr17:34767578-34768116
Length
928 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CTCGGCTTTTCCATGGCCAGGCC
3' ss Score
6.13
Exon sequences
Seq C1 exon
ATGTCGTCAGAAAAGTCAG
Seq A exon
GTAAAAAAAAAACTATATATATATATATCCCTCCCCCAACCCCCTCTGTCATCTCCTACCTAACCTCCACTTGCCCTAATCCCCTTCTTTGACCCCCTCTGGGATGTTGTGTGGCTCAGTTCCATTCCTTCTCTCCATGCATACCCCACCCCCTCCCCTTTCTATATCCCATCCTTCTCTTCCTTCGGGTCAGTCTGCCTCTGTCCCTTGGTCCCTTGTCAACAACATGGGGGGGGGGTGCAGTTTTGAAATGGAAAGGGAGGCAGAGCCAGGTTCTGCAGGGACATCATCCCTGGGAGTGACAGATGGACAGTCACCGGTTCAGTGGCATGGAGACACCCAGTGGAAAAATAACGGAGACTTAATCAGACTGGGTTGTTGGGAAAGTAATATCTAGAAGACAATTTTTTTTCTTCTTTGAGATGAGATTCCCCTCTGTAGCCCAGGCTGGTCTTGAACTTCCCAGTTCTTCACCCTTCCCCGGCTGCTTCACAAGTACAAGGATTACAGGCATGAACCACTATGCCTAGTCCCAGAAGCTTTGTCATGGACCTTAACGGAGGCCCATGAGATTCCCAGGTAACTCCACCTGAAGCAAAGTGGAAATGTTAAACTGAGCGTGCATGACCCCTGTGACACGACCACATGTGCAGGAAGAGGGGACAGCTGGCTCAGAGACAACCCTGAATGAGGGTTGTGGTTGACAGCAGCGGAGCCTGGGAGGAGCTGTGACAGTTGTGACGGCAAAACTAGATTGGGGCCAGGTGGCCTACATACAACCCCTTCCCTGACCCCAAAATGGGAGATGTCGTCTCGGCTGTATCTCCCTCGCTCTTTCTCCATCTCTTGCTGTCTCATGTCTCTTACCCTTCTGATCTCTGCTGTCTTCTCTCTCCCCTTATCCTCTCCTCGGCTTTTCCATGGCCAG
Seq C2 exon
GCCTTCCAGACTCGGTTCCCCACACTTCACCGCCGCCCTACAATGCCCCCCAGCCACCGGCCGAGCCCCCCATCCCGCCCCCACAAACGGCCCCATCCTCACATCACCACCACCACCACCATTACCACCAGTCTGGCACCGCCACCCTCCCGCGCTTAGGAGCAGGTGGCCTGGCCTCTGCTGCGGCCAGTGCTCAACGCGGTCCTTCGTCTTCCGCCACGCTACCGCGGCCCCCCCACCATGCCCCGCCCGGCCCCGCCGCTGGGGCTCCCCCACCCGGCTGTGCTACCTTACCCCGCATGCCACCCGACCCTTATCTGCAGGAGACTCGCTTCGAGGGTCCACTTCCCCCACCACCGCCTGCGGCCGCCGCCCCGCCCCCACCAGCGCCTGCCCCGACGGCCCAAGCCCCGGGCTTCGTGGTTCCCACGCACGCGGGGGCGGTGGGCACGTTGCCGCTGGGGGGCTACGTGGCGCCGGGCTACCCGCTGCAGCTGCAGCCGTGCACTGCTTATGTCCCTGTGTATCCGGTGGGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015476-Prrt1:NM_030890:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.800
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: