MmuINT0128850 @ mm9
Intron Retention
Gene
ENSMUSG00000034573 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:MGI Symbol;Acc:MGI:103293]
Coordinates
chr5:103918627-103921329:+
Coord C1 exon
chr5:103918627-103918812
Coord A exon
chr5:103918813-103921241
Coord C2 exon
chr5:103921242-103921329
Length
2429 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTTTGATTACCTGTGTACAGACG
3' ss Score
4.67
Exon sequences
Seq C1 exon
CCCATCAAGCTGGGAGACCATCTTAATAGCATCCTGCTGGGCATGTGTGAGGATGTCATCTATGCTCGGGTGTCGGTTCGGACCGTCCTGGATGCTTGCAGTGCCCACATCAGGAACAGCAACTGCGCGCCTTCGTTTTCCTATGTGAAACAGTTGGTAAAGCTGGTTCTGGGCAATATTTCTGGG
Seq A exon
GTAAGTAAGCTACAGTGCTAACGTGTAAGCATAGTCATACTTGAAAATCAGTCATATCACAACTTCTCTTGACATGTACAGTACAGTTTTTCAAGATAGAGAATGAAAAATTGGGACTTACTGTTTTAATGTTGATTGTTTACTACAAACAATACTTTAAAATTTAGAATTCTATGCAGTTAATGAGACCTCCGTGTTTTACGAAAACCTCTTTTTAAAGATCTTTATTCTAGAAAAGATTGTAGAAGGGTAACAGCTCTGTCCACCCCTACTTTCCTCCTCTGAGCCTCCCCAGAGATCTCTGAGCAGAGCACTGTAAGCACCCTCAGGGGGATGCATTCACCCAGAGTGATTTCAGAAACACTTACCGGACCTACTGTTCCCAGACTTCTTTCTCGCCCTCATGTGTCAGGGTCCCCCGTGAACTTCTCAACCTTCTTCTCCTCTGGTGTGAAAAAGAATCCATGGTCTGCTGCTTCCTGACACTTGAACGTCGCCACTCTCTCTCATCCAGAATGAAAAGAACTTGAGAATAAAACCTGTATCTAATAACCCGACCTCTGCTCTTCTTCCCTCCAGGTGTGCTGCCCCGTTCTCTCTGGCTGGGCCTGCCACTTTCTGTGGCTTTCTGATTGGTACACACACACACACACACACACACACACACACACTCTCTCACACTTACCCACTCTTGCTGCATGATGGCCTTCATCCAATGCTTGTCCCTTCTCCATGTGAGATACAATCTTGTTCTGTCACGTGGTGTTCTTCCTGGTTTCCTCTTAATTCTAAGTATATACGTATTCCACATGCTTTGCCATATGGTAAGAAATAGGCTCAGAGGTCTCCTAGTAACATTGTGAACTAAACTTTAGTGATGCTCTGTTGGGGCTGGGGGATTGTAATGGGGCTGATGGATGGAGTTTTCTTGCTCCGGCTGCTCCCATTTTATGCCCCGATGTCCCTTTTGGAAGGAAAACTACTAAAACTGTGCTGTGATATGTAGTAAAGACACAGTCAGAAGCTGCACATCTCTGACCACAGGGCCTTGCTGTTCCTGCCTCCAGTGGCCACTGTGATGGTCAACGCACTTACTTAAGATTAGTCAGCCGTGAGCCAGTCAGCAAGCCAGCTCAAGTGCCTTGGATCCTCTAGTCTTCAGGGCTTTGACCCTAATTTTGACTAACTGTAAGAGCTATGGTTATTACTAAACAGCATCCATCCATGTCACCAGGCCTTGTGAAGGTGACAGAGCTGCTTTCAGGCACTCACACGGTGCTGCCACTTCAACGAGTCTATAACAGCTATGGCAGTAAGAGTGGTGTGTACTACACCGGGTACGCCGTTGATAACACACCGGGTTGCTTTGAGAATTAGGTATGGTGTTGATAATGCACTGTTCAGGGCCTGGCATAACTGTTCGCTAAATGGCAGTTGTTACTGATAGTGGCCTCAAAGCAGGGATTCACATTATCTATAATATTCACTGTATTCCTGTTTCCATCGGTGCAGTATGACTGACTAGTTATGTCATTCAAGGACAGCATCATTTCAGAAATACTTCCTTTTAAATCTTCTTTCAAATATGAAATAAATTTCTTTGAGCTGTGAATATGCTAATAGAATTTTGATCTATACGCAAACTTCAGTAATAAATGTTAAAATGTGTGTGCACAGATGCAGGCGAGGGCACATGCCTTTGAACTACACTTTTAGCATCATTGTTCTCATCAACTTTAATCTGTATTTATCCTGTTTTTCTCATCTAAGTAAGCCAGTGTTCTAACTTTCATCCTATGTAATATGGAGTTTGACCTAATTTGACATGGCTTACTTTTTATAAGTATGGTTTCAGGCATTGAAATTTCAGACCACTGACACATGTTGTTACAGAGAGGATTTCGTAATGCATCAGTTTAAATTGTCACTTGCCAACATACCCGGTTTAAAGATTTTAGCAGACTATCTCATTCTGCAAGCAGTATCTACGAAATTACTTCTGAAATAATTTAAATTAGTATTCTCAACGTATAGCTGCAACCAGAGAAAGTTTTATTATACAAATTATTGTAGCCTTAAAATTATGTAAGTCTCATTTGAGAGATGAAAGTAGTTATCAGAATGAGGAAAACAGAAGGCCGCAGTTACTGCCTTCAAATGGAGCCACTTTTAATCTCGAGTCCCCAGGTACAGCTCGCTCTGTGTTTTGTTGCCTTGTAACTTTCTAAAGATAGACTGGCCAGTCCTGGTGCATATAAGCCTTACCCAAGCCATAGAGATTACAGTCAGATGTGGGGGTCTCCTTACTTGCTACTAAACCCTGAAGGTTGGGTAATGTGCTATTCTGTGGACAGTCACTGACCCCCCCATCCCCGCTCCCCCCCAAAGGATTAATTTATCAAACTTGATTTTTGATTACCTGTGTACAG
Seq C2 exon
ACGGATCCACTTTCCCGTAGCAGTGAACAAAAACCTGACCGGAGCCAGGCCATTCGAGACCGACTGAGAGGAAAAGGATTGCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034573-Ptpn13:NM_011204:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.887
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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: