RnoINT0119998 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7796209-7798366:-
Coord C1 exon
chr14:7798181-7798366
Coord A exon
chr14:7796297-7798180
Coord C2 exon
chr14:7796209-7796296
Length
1884 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGC
5' ss Score
7.79
3' ss Seq
TTTTGATCACCTGTGCACAGACG
3' ss Score
5.31
Exon sequences
Seq C1 exon
CCCATCAAGCTGGGAGACCATCTCAACAGCATTCTGCTGGGCATGTGCGAGGATGTTCTTTATGCTCGGGTGTCCGTCCGGACCGTGCTGGACGCCTGCAGCGCCCACATCAGGAACAGCAACTGTGCGCCCTCCTTTTCCTATGTGAAGCAGTTGGTAAAGCTGGTTCTGGGAAATATTTCTGGG
Seq A exon
GTAAGCTACAGTTCTGACTCGGAAGCACAGTTATGCTTTGAAAATCAGTAATCCCACAACCTCTCTTTAAATGTCCAGTGCAGCTTTTCAGGATAAAGAATAAAAAGTGGGATTCATTCTTTTATTGTTGATTATTTACTATAAGCAGTACTTTAAAAATTAGAATTCTACTGCAGTTAATTAGGCTCCCACATTTCATGAAAGCCTCTTTTTTCCCCCCCTCTATTATATATAAGTACACTGTAGCTGTCTTCAGATACACCAGAAGAGGGCATCAGACACCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACATCTGAGCCACCTCTCCAGCCCGAAAGCCTCTCTTTTAAAGAGCTTCATTCTAGGGGTTGGGGATTTAGCTCAGTGGAAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAAGAAAGAGCTTCATTCTAGGAGAGACCATAGAATGGTCACATTTTCAAGCTTCTCACAGTCTGTCCGCCATACTTTTCTCCACTGATCCTTCCCAGAGATCTCTAAGCAGACGACGGTGAGAAATAGACGCAGAGGTGTGAACTGTCTCTCACTAAACTCGTGCGGGCACCGTGATGGTCAAAGCACGCACTTCAGATTAACCAACCATGTCAGCAAGCCAGCTCAAGTGCCTTGGTTCCTCTAGTCCTACAGTGCCTTTACCTCAGTTTTGACTAACTGTAACCCATGGTTATTACTAGACAGCGTCCACCCGTGTCTCCAGGCAGCTGTGAAGGTAATGGAGTTGCTTCTGGTTCTCCACACGGGTTGGCACTTCAGAGCATCTCTAACAGTCACGACAGTAAGAATGGTGTGCACCACACCAGGTCGCTTTGAGAATTAGTGATGACGTTGATAACGCACTGTGCAGGGCCTGGCATGGCCGCTAAGTGGCAGTTGTTACTGACAGCTGCCTCAGAGCAGGAACTCACAAGTATCTGTAATAGTCACTCTTTTCCTGTTACTGTCGATGCAGTGTGACTGATGCCACTTATGCAGTTCAAGGACAGCATGGTTTCGGAAATGCTTCTTTTAACGCTACTTTTAAGTAGGAAATAAAATGCTTAGAACCACGAATTTGTCACCCGAGGCAGAATTTTGATCTATACTCAAACCTCAGTACTGGAGGCTTATTAAATGTGTGTGCATAGATGCAGGCGTGCGCCCATGCCTTTTGGACTACACATAGCCTCACTGTTCTCTTCAACTTTAATCTGTATTTATCCTGGGTTTTCTCATCCAAGTAGACTAGTGTTCCGACTATCATCCTGTATAGTAAGAGTCTGACCCAATTTGACATGGCTTATTTTATATAAGTATCTATGGTTAAAGTCATTGAAGTTTCAGACTACTGAAACATGTTGTTATAAGGAGGATCCCATACAGCATCGATATAAATTGTCACCCCCCAACATATCCAGTTTAAAAACTTAGCAGACGATGCAATTCTGGCAAGCAGTATCTAGGAAATGACTTCTGAGGTAGTGTATAGTTGCAACTGAGAGAAAGTCTTCTTATACAAAAATTATTCTAATTTGAGAGATTACAGCCGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAAAAGAGAGAGAGATTACAGCCAGACGGGGCGTCTCCTTACATGGTACTAAACCCTCGTGGTTGGGTAATGTGCTGTTCCGTGGACAGTCACTGACAAAAAATATCTATGTTTTATTTTATCAAACTTGACTTTTGATCACCTGTGCACAG
Seq C2 exon
ACGGATCCGCTTTCCCATAGCAGTGAAGAAAAGCCTGACCGGAGCCAGGCCATCCGAGACCGACTGAGAGGAAAAGGATTACCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:5
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=0.933
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATCTCAACAGCATTCTGC
R:
GGGTAATCCTTTTCCTCTCAGTCG
Band lengths:
254-2138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]