RnoINT0119981 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7726009-7728361:-
Coord C1 exon
chr14:7728199-7728361
Coord A exon
chr14:7726224-7728198
Coord C2 exon
chr14:7726009-7726223
Length
1975 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TTCATTTTTTTTTTCTCTAGATA
3' ss Score
10.59
Exon sequences
Seq C1 exon
GTGGTCCATCTGTTGTTAGAAAAGGGGCAGTCGCCAACATCTAGAGAACGTGATCCTGCAAGCCCACGGTGTCCCACTCCAGACCAGGATGCCCAAAGTCAAGCCCCAGAAAAGATGGAGAAGCAAACAGCCCATGTCAAAGACTACAGCTTTGTTACTGAAG
Seq A exon
GTCAGGCCTTGAGGCTCAGGTCATGTTATTAAAATCTTAGCCTATTCAGTTTTTTCCGTGTTGAATAGGAGTTTGTACTTCGCTATCTCTGCCCTTGTCAGTTACAGAGCTCAGGTAGCATCACCGTGACCAGCACACAACATCCAGGGCCATGGAATCTGAGTGCAGTCACTTAGCACTGTAAATACCTGTCAGCTGTTTCCACACACACCAGTAATTTATTCAGAAATGGTCGTTTAGCTTCTCGAGACACAATTCACGTATCATTAATGAACAAGCAACCCTCACACCTCGAATAGCAGAATGCTAAACGGCAATAGTATACAGTTGTTAAATGTTAAGTGAAATTTGGTATGGATGAACTAAGATATATAATTAGGTGGCTTCAAATCCACTTGCACCTTAAATTTTGGTTCATTCTGGTTCATTTGATTCAGGATCTAACAGCTTAGCCCAAGTTGGCCTCAGTTTCCCGAGAGCTGGTATTAACAGGCACATACACTCACACCTAGCTGCTAACATTTTATATTTCTATTTGGGGTTACCCTAAACAGGAATCTATTTGGTATTTCACAAATGCTGTGGTCTTCTTAGAAATGTGCCAGCCGACATAGACTCAATAGTAATTGACAATTAGCAATTAGTAATTGACAATACACCAAGAAATGACGGCAGGTGTCATGTGAGCTCTCATGAGGTTGCTGTGCTTCCAATCCTGGTGTGCCCTTTGCTCCCGGGTCCCTTAAGCAGTTCACACGCTCTTACTAAGAATTGCTGGTACACGAGATGTTTTCTCTCTACTTAAATTTCTATTTCACAGATCTTACTAAACAGAATCAGCCCAGAGCACAGACCAGCTGTGTTTCTGTTCTGACATTGACTTGAAATAGGATGTTCCCACTCAGTTGTATTCTTCTTTTCTTCCTTCTTGAAATGTGTACTTTTTCCCCCCTGGTTTTAATTCTATTATTGAATTGAATTTTGTTGGAATGTCCTTATAGCTTACCCGGATGAAATTAGGCCTCGCCAAAACATTGCAATATCAACTTATTTTCCCTCACCCCACGCTAGCTTTAGTTTGGGCATTCATAACACCTCTCTTCATTGCATTGAATTTTCTTGTAATTCTCCTCTCCCCTTATAACTTGTTCTTCAAAAGCACGTGACGTTGAAGCATAGCTCCCCTTTGAGAACCCTGTTTATAAATGCCTCCCATTCTATCATCTTACTTCAGACAGTTAACTCAAGTTTATTAATGGGGTTGGAAAGATAGCTCAGTTGGTCTGGTGTCTGCGAAGCATGAGGTAAGTTCTCAGTTTGGATCCCCAGCACCCATGTGGGCCCATCTGTGTCCTTACAGGCGGCTGGGAAAGAATCAGTGAGCCCCGGGGACCACAGAAGACCCTGTCTCAGAGAATTTATTAGAATAGAATAGACGACAGGTGTTAAGAGAGGCACTTGGCACCAACATCTGGCTTTTGTTTACACACTCACACAGACAGGCACACACGCTTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACGGGCACACCCACACAAACACATTACACAGAGAATGAAAAGTAAGAAAGGTTTCCTTAATGGTAGTAAGAGAGTGTGCGAGAGTGTAGAACGTGCTGGAGAAACTGCCATACCTGAAATGGGCTTCCTTAAGAGCATGTCTAGGGCTGGAGAGATGGCTCAACGGTTAAGAGCACTGACTGCTCTTCCAGAGGCCCTTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATGCCCTCTTCTGCTGTGTCTGAAGACAGCTACAGTGTGCTCATATACATCTAATAAATGAGTAAATCTCTTTGAAAAGCATGCCTAAGAGTATGTGTGTTTGTGTGTTCATATGTACAGAGCTTAATAAAATTTAACTTTTTCATTTTTTTTTTCTCTAG
Seq C2 exon
ATAATACATTTGAGGTCAAACTGTTTAAAAATAGCTCGGGCCTTGGGTTCAGTTTCTCTCGAGAAGATAATCTTACACCAGAGCTAATAAATGGCAGCATAGTAAGGGTTAAAAAGCTTTTCCCTGGACAGCCAGCTGCAGAAAGTGGGAAAATCAATGTTGGAGATGTTATACTGAAAGTTAACGGAGCCCCCTTGAAGGGACTGTCTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.836 A=NA C2=0.069
Domain overlap (PFAM):
C1:
PF0059519=PDZ=PD(7.2=10.9)
A:
NA
C2:
PF0059519=PDZ=PU(77.9=93.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTAGAAAAGGGGCAGTCGC
R:
GGGGGCTCCGTTAACTTTCAG
Band lengths:
344-2319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]