DreINT0121926 @ danRer10
Intron Retention
Gene
ENSDARG00000103699 | ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:ZFIN;Acc:ZDB-GENE-070410-72]
Coordinates
chr21:9382402-9382736:-
Coord C1 exon
chr21:9382662-9382736
Coord A exon
chr21:9382577-9382661
Coord C2 exon
chr21:9382402-9382576
Length
85 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTTCTGCATGTTTTGACAGAAC
3' ss Score
7.67
Exon sequences
Seq C1 exon
AATTTGTTTGGCCCTGAGTTTGTGAGGATGAGCAGCGAGCCAACTGTGGTATTAACCGTGCCTTCATCAATAATG
Seq A exon
GTAAGACAGCTACATGGCTTTGCTTTATACTGTTACATATTAGTGTATATACAGTATGCATGGACTTTTCTGCATGTTTTGACAG
Seq C2 exon
AACAAGCGTGGGAAGGTGGAGGAGAGTCAGAGGAAGGTTGGGGTGGTCTTACTGAATGGTCAGAAGCTGGAGCTGTGCTGTGATGTGAAGGCGGTCTGCAAGGATGTCTTGGACATGGTCGTAGCTCATATTGGATTAGTGGAACACCATCTCTTCAGCCTCGCCTATCTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103699:ENSDART00000162225:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.017
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF093795=FERM_N=PU(50.0=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGGCCCTGAGTTTGTGAGG
R:
CAGACCGCCTTCACATCACAG
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]