RnoINT0119975 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7738083-7738682:-
Coord C1 exon
chr14:7738575-7738682
Coord A exon
chr14:7738215-7738574
Coord C2 exon
chr14:7738083-7738214
Length
360 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTT
5' ss Score
4.74
3' ss Seq
CTGGATGATGTATTTTCCAGGAG
3' ss Score
6.5
Exon sequences
Seq C1 exon
GATTTCAGATTGTCGGTGGGGGGAAAATGGGAAGGCTGGATCTAGGAGTGTTTATCAGCGCCGTTACCCCTGGAGGGCCTGCTGACCTGGATGGATGCCTAAAGCCTG
Seq A exon
GTACTTGCCATTTTCATAATTTCCTAGGTGCTCTCTAATGGATGAATTTGCCCAAAGGACAAAATGTAGACAAAGCAAAATAATAGTAATAGTAATAATAATAATAGGTGATGGTGGTGGTGATGATGGTGGTGGCAGTGGTGGTGATGATGGTGTTGTTGATGATGATGGTGGTGGTGGTGATGATGATGGTGGTGATGATGGTGTTGTTGATGATGATGGTGGTGGTGATGATGGTGGTGGTGGTAGTGATGATGATGATGATGATGATGATGATGATGATGATGAGAAAGAGTCGAATGTGTAAGGTTGAATGGGTTTTGCTTTGTTCTTGAAAATACTGGATGATGTATTTTCCAG
Seq C2 exon
GAGACCGTTTGATATCTGTGAACAGTGTGAGTTTGGAAGGAGTCAGTCACCATGCTGCAGTTGACATTTTGCAGAATGCACCTGAAGATGTGACACTTGTCATCTCCCAGCCAAAAGAAAAACCAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.489
Domain overlap (PFAM):
C1:
PF0059519=PDZ=FE(42.9=100)
A:
NA
C2:
PF0059519=PDZ=PD(41.7=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTCAGATTGTCGGTGGGGG
R:
TTGGTTGGTTTTTCTTTTGGCTGG
Band lengths:
238-598
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]