RnoINT0119970 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7746818-7747471:-
Coord C1 exon
chr14:7747057-7747471
Coord A exon
chr14:7746913-7747056
Coord C2 exon
chr14:7746818-7746912
Length
144 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
CCTTCCTCTTCCCTCTGTAGTTC
3' ss Score
10.49
Exon sequences
Seq C1 exon
AGAGAGCTTCGTTTAGGAGCCTGAACCTGCAAGCAGAATCTGTTAGAGGATTTAATGTGGGCCGCGCCATCAGCACTGGCAGTCTGGCCAGCAGCACCTTCAACAAACTTGCCGTCCGACCCCTGTCAGTGCAAGCCGAGATTCTGAAGAGGCTGTCCTGCTCAGAGTGGTCGCTTTACCAGCCACTGCAAAACAGTTCAAAAGAGAAGAATGACAAAGCGTCCTGGGAGGAAAAGCCTAGAGGGATGAGCAAATCGTATCACGATCTCAGTCAGGCCTCTCTCTGTCCTCATCGGAAACAGGTCATTAACATGGAGTCCCTACCACAAGCCTTTGCGGAGCTGGTGGGAAAACCATTGTACCCGATGGCAAGATCTGACACAGAGTCACTGGCAGGACTCCCCCAGCTTAATAA
Seq A exon
GTAAGAGCATGACTGCCTACCCCAAAGTAGATCCTTCTCAGTCCCTCCTGCCATGCATTTGTTGTCCTTTAGACGTTTTATTATTCTCGCTGTGTTCTTTTTGCATTGACACCTTCCCCTCCTGCCTTCCTCTTCCCTCTGTAG
Seq C2 exon
TTCAAAGTCTGTTGCCAGTTTAAATAGAAGCCCCGAAAGGAGGAGCCATGAATCAGACTCGTCCGTTGAAGACCCTGGCCAAGCATATGTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.291 A=NA C2=1.000
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:
ACGATCTCAGTCAGGCCTCTC
R:
CAACATATGCTTGGCCAGGGT
Band lengths:
246-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]