RnoINT0119964 @ rn6
Intron Retention
Gene
ENSRNOG00000002061 | Ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:RGD Symbol;Acc:1563360]
Coordinates
chr14:7759113-7760304:-
Coord C1 exon
chr14:7760124-7760304
Coord A exon
chr14:7759267-7760123
Coord C2 exon
chr14:7759113-7759266
Length
857 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
CCTTTCTCATTCTGTTTCAGAGA
3' ss Score
11.56
Exon sequences
Seq C1 exon
TTGCAGACCAAGAAGGGGAAGAGTGAGGAGCAGAGGAAGAAAGTAAACATAATGCTTTTGAGTGGGCAGAGGCTCGAGCTCACCTGCGACACCAAGACCGTCTGCAGAGACGTCTTCGACATGGTCGTGGCTCACATCGGCCTGGTGGAGCATCACTTGTTCGCTCTCGCCACCCTCAAAG
Seq A exon
GTATCTACCTCCGTGTTTGGATTCAGGGTTCCCAGTGGAAAGCCTGGCATCCATGGCATCCTGTGCCCCTTACCAAGCCAGGCTTCATCTGGGGAAAGAGGCAGGTCGGCCGGCGCTGAGAAACAGAAGGGACTTGGGGACTTTTCCTTCGTTGTGTTTGTGAGACTTCTTATCTATGGAGATTTTTTTTTTTAATGCTGGTGCCTTAAAATGAATAATTCATTCTGTAGAGTCACCCATTAAGAGTGCAATTAGTGCCTTTTTTTAAAAAAAAAAAAAATCCTGGTTTAAAATAAAGAAAAGTAGCCCCAGGGGTGTGGAAAGAGCTAGGACCTAGCTCTAGGGGCTTGCTCACTCCCGGCCCCAACCCCATCCCTAGCCCCTTCCCAACAAACAGATAGTGCGGTCTACCAAAAGATAGTTGTTTTTTAAACATTCTATACAAATCAGGCCTTGTAGAATAGCCATTCAATTAGTAAATAATAGTTAATACTTACTGCAGAACCGTGCTCTAAGGGTTACCTTCCCGCACACTTCGTTTTGTCATTTGATTATTCTAACAACCTGTAGTGCAGAATCCAGCATTATCCTGGTCTTCCAGACAGGGGGGTGGATGTCTGGGGTGGAAAAGGAATTTGTTCTCACAGGCAGTAAAGATGTGAGTGGGAGCTCAGTCCAGGGCTGCCGAGCTCAGCCTTGAAAAGGCTGGTCCGTGCTGAGGCCGGCCGTTTGGAGCACTCAGCCCCTGCTGTGTGCTTCTGACAGACCTTGTTCTTTTTTTAAAACATTCAACAGAAATGAAGACATCAAAGGAAAACCCTCCATGCTTTCTGAATGCCTTTCTCATTCTGTTTCAG
Seq C2 exon
AGAATGAATATTTCTTTGTCGATCCCGACTTAAAATTAACAAAAGTGGCCCCGGAGGGATGGAAAGAAGAACCGAAGAGAAAGGGCAAAGCCGCTGTTGATTTTACTTTGTTTTTCCGAATTAAATTTTTCATGGATGATGTTAGTCTGATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002061:ENSRNOT00000061162:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093795=FERM_N=PU(49.4=72.1)
A:
NA
C2:
PF093795=FERM_N=PD(49.4=84.6),PF0037313=FERM_M=PU(5.1=11.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGACCAAGAAGGGGAAGA
R:
TGTATCAGACTAACATCATCCATGA
Band lengths:
334-1191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]