DreINT0121961 @ danRer10
Intron Retention
Gene
ENSDARG00000103699 | ptpn13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:ZFIN;Acc:ZDB-GENE-070410-72]
Coordinates
chr21:9302067-9302393:-
Coord C1 exon
chr21:9302296-9302393
Coord A exon
chr21:9302216-9302295
Coord C2 exon
chr21:9302067-9302215
Length
80 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TCTGTTTCTGTGCGTTTTAGATG
3' ss Score
10.67
Exon sequences
Seq C1 exon
TGCTCCTCAGTCTTCGTCGGGTCCTCTAGATGAAGATGAGATCACATGGGGCAGTGATGATCTGCCCATAGAGAACATCAACTCCAAGTTCACTGAAG
Seq A exon
GTTTGTCAGTCTTGGCAGCTCAGAGACATCTTCATCTGTACATGGGAATGTCATTATAAGTCTGTTTCTGTGCGTTTTAG
Seq C2 exon
ATGGTCCAATTGTCACTGAGGAGGAGCTGACATCTCTGCCGCTGGTTAAAGTGGTTCCTGACGGTCACTACACGTCCACCAACCTCAACACGATCGTCCGCATGATGAGAGGCTTGATCGAGCAGAAAGTTCCTCTGCAGGAGTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103699:ENSDART00000162225:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.971 A=NA C2=0.260
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATCACATGGGGCAGTGA
R:
CTCTCATCATGCGGACGATCG
Band lengths:
173-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]