MmuINT0128833 @ mm9
Intron Retention
Gene
ENSMUSG00000034573 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:MGI Symbol;Acc:MGI:103293]
Coordinates
chr5:103994134-103997203:+
Coord C1 exon
chr5:103994134-103994308
Coord A exon
chr5:103994309-103997044
Coord C2 exon
chr5:103997045-103997203
Length
2736 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
AATTTGTGTTTTTTCTCTAGGAA
3' ss Score
10.98
Exon sequences
Seq C1 exon
CCATCCTCCTCCACTGGACGTGAGCCCTGGACAGACGTGCCAGCCCCCGGCAGAGTGTGCTCCGTCTGACGCCACTGGCAAACACTTTACACATCTTGCCTCTCAGCTGAGCAAAGAGGAAAACATAACAACCTTGAAAAATGACTTGGGAAACCACCTTGAGGATTCTGAGCTG
Seq A exon
GTGAGCTTCTCTCTCTCTATTAAACCATAAAACAACTTTCGTTTTTCTCGGTGATGTTATAGCCATGTGCTGTTTCTGTTAGTTAGAGAGAAAGCTATGCTGTGTTACATTTGCTAAATGAGTAACACCCCTCTCTGATGTTTCCCTGGTGAGAAATTAGGGGACGATAAAAGCATTGTGTGTCACTCTGACTTTCTCACTTGACATAATTTTGGCAGCCGTCCACAGAGAAATCACCTACCTTTTGTGATTCCTAGTAGCTTTGGGAACAAAATGTGTGTGCATGTTCACACATTTGCATGAGGAAGAGTTGTCATGCAGGCACATGCGTGTGCATATGCATGTGGAGACCAGAGGTCAGCCTCAGACAGTGTCTTTCTAGAGCCATTCATTTTGACTTTTTATTAATCTTGATTGATTCTTGGGGTATTTATTTAAATTAATGAATTACATCCTGGCTGCAGTTTCCTCCCTCCTTTCCTCCTGGTCCCTCCCCCCAACCTCTCCTCTCCCCCAGTCCTCCCATCCTCTCTTCCCTTTCTCTTCAAAAAAGAGCAGTGCTCCCATGGGTGTCAACCACCCTTGGCATGCCATGCTGCCTTAAGACTAGGTCCCTCCTCCTCTCCTATTAAGGCTAGATCAGGCAACTCAGTAGGAGAAAAGGGTCCCAGAGGCAATCTCCAGAATCAGAGACAGCCCCCACTCACTGTTAAGAATCCCACTAGAAGACCAAGCTACACAACTGTAACCTATGTGCGGAGCGCCTATGCAGTCCCATGCAGGCTCCCTGGTTGGCAGTTTGGCTGGAGAGATGGCTTAGCCATTAAAGGCTCACAACTAGAAATAGAAGAGGACTTCATGCACGTATGAAATGTATCTTGACCACATTCACACTCCCTTATTCTTCACCCCACAATCCTCCCATCCCCACCTCATCCCTACCCAAGCTCAAGTACCCCTCTTTTTCTCTAGATAGCCCAAGTTCCGTTTATGCTGTGCATATATTCATGGAAGTGGGGCCAGCCACTGGAGCAGTTGACTATCAATTGCCACACCCATAGAACTAACTCACTACCCCAACAGCTGTCAGTGGCTTGGATGGGGCTCTTATGAGTCCCTCCCTCCATGCTGCAGTGCTGACTGGCTTGTCTTGTCAAGGCTGCCACAGCTGCATGAGCTCATGAGTATAGTAGCCCTGTAGTGCCCAGAAAACACAGCTTCATGCTGACCCTTCCTGACCTCTGGCTCTTACACTCTTTCACACACACACCCTTCCATTATGTCCACTGAATGGGGAAAGGGCAGTATAATATAGGTGTCCCATTTACTTCTGAACAGTCCACACACATGGTCTCAGTAATTGGCCAGTGGTGGATATCTGTATTAACTATTTTTCACAGTACAAAGAAACTTTCCTGTATGTATAGAGTTGGCAGATTTAGAGCGCAGGTTGTCTATTTACCAAAAATAACAGTAGTAGCTTGATGCCTGGAGCCTGTGAACACTCCAGCAATGTGTTCCTGGCCTGAGTTACAGTACTGGGCCTGCATCTCCTATTGCATGGACCCTAAATCCAATCAGAAAGCAAATGGCTGCTCCCATAATATTTGTCCCACTATCGTACCATAGTGTTTCTTGCCTTGCCAGTCACTGTTAGAACTTACAGAGTTCACAGTTGGGTTAGACTGCTGATGTCTTTTAACCTAGCACCCTGCCCAGCACCTTCCAGCTCTGTGAAAGCTAGCCAGCAGGGAGGAAACTCCTGGGCAATAACAACCTGGTTTTTCCATGCCCTGTGTCTAAGGTATGTGGTGTCTTCAGCAGTTGATCTTACCATTAAGTCCTGGAGGACAACCAAGAGCCATGGCAATAGCTTGTTGTTTGGGGGGTCTCTGGGACATGCATGACCAGCAGCCAACTCATTGGGGAAGTACCCCACCCTTGGCACTGATATCCTCTATAATTCCAATTAAAACTCTTCCTCATGAGAGAAAAAAAAACATACACATAAGAACTTCATAAAACAGTAGATTTCCATATGACTTTATTAACATCCTTGATGTTAGTGAGCGCTCTCAACCCTTTCAACCCTACCCTGCCATCCCTGTTCCCAGTTTAACCCACATGTATTCATTTTATTACAGCCTGCAAATCAAGCTTAGGAAACAATTTCAAGAATAAAATCTTTTGAGTTTGTTGCACGTCTTAGTTAGTGAAGCTGTGATCTTCAAGCATCCAGGCACTTCATTCATATTTTTACAAAAGCAGCAACAAACAAAAACTTCCTTTTGTATCTCCTGGTTTCTGTCTTGGTTGTTTAAAAACGTGAAGGATTTTTCTAAACCGTCCCCCCACCGCCCAAGTCTTTGTCCACGTGTCACCACTTGGCTGCCTTGTTTCTCCTGGCTATGCCCTGCTCGCTCTGGAGAGCCCTGCCCGGCGTGTGTGAGGCTCTTGATACAGTCCTGGCTCTTCCAGATAGGAAAAAAGTCTTATAAGATGAAGGAGAATGAAGAGGGGGAGTAAGCATAGAGGGAAAGACTGGAGACAACCATTAACTTTATACTTCATATGTTATATGCTTGGAAATAAAGGAGCTTCCTGTCTAGAGCTGAGACGACTTGGCCAAGTTAAGATTTGTGTTTCTTGTCTCTTAGCCAAGGGCAGCAATAATCATGTGTGTTTGTCTATAGGAGAAAGAGGACAACCTTATGTCAATTTGTGTTTTTTCTCTAG
Seq C2 exon
GAAGTAGAGCTTCTCATTACCCTGGTTAAATCAGAAAAAGGAAGTCTGGGCTTTACAGTAACCAAAGGCAGTCAGAGTATTGGTTGTTATGTCCATGATGTCATACAGGATCCAGCCAAAGGTGACGGAAGGCTAAAGGCTGGAGACCGGCTTATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034573-Ptpn13:NM_011204:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=0.057
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0059519=PDZ=PU(60.8=90.6)
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:
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: