RnoINT0119963 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7760124-7760474:-
Coord C1 exon
chr14:7760400-7760474
Coord A exon
chr14:7760305-7760399
Coord C2 exon
chr14:7760124-7760304
Length
95 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGC
5' ss Score
5.08
3' ss Seq
TGCTTCGTTTCTTTTTCCAGTTG
3' ss Score
10.37
Exon sequences
Seq C1 exon
AATTTCTTTGGCCCCGAGTTTGTGAAGACGACAGTTGAGCCATTTGCGTCTTTGGATTTGCCGCGCTCCATCCTC
Seq A exon
GTAAGCAGTAACTCCAGCCTCCACCCCTCTAGGAAGTGTGTCCAGTGATTCCCTAAGGCAGCCTAAACGTTCGCCTGCTTCGTTTCTTTTTCCAG
Seq C2 exon
TTGCAGACCAAGAAGGGGAAGAGTGAGGAGCAGAGGAAGAAAGTAAACATAATGCTTTTGAGTGGGCAGAGGCTCGAGCTCACCTGCGACACCAAGACCGTCTGCAGAGACGTCTTCGACATGGTCGTGGCTCACATCGGCCTGGTGGAGCATCACTTGTTCGCTCTCGCCACCCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:11
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=0.033
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF093795=FERM_N=PU(49.4=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCGTCTTTGGATTTGCCG
R:
GATGTGAGCCACGACCATGTC
Band lengths:
171-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]