GgaINT0071113 @ galGal4
Intron Retention
Gene
ENSGALG00000011078 | PTPN13
Description
protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase) [Source:HGNC Symbol;Acc:HGNC:9646]
Coordinates
chr4:45231405-45232293:-
Coord C1 exon
chr4:45232238-45232293
Coord A exon
chr4:45231509-45232237
Coord C2 exon
chr4:45231405-45231508
Length
729 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CTGTTCTTTGTTCTCTTTAGATC
3' ss Score
11.87
Exon sequences
Seq C1 exon
CCCATGCACATAAATGGTTGTGAAGACCATGGTGAGGAAGGAGCTATGCCAGAAAG
Seq A exon
GTAACATTTCTTTTCCAGTCTTTCTTGAAAGTAAACCTGTGAGATTTGAAGTAATTAGTAGAGATTTGTTATAATGCAAATTGTGTGTGTGTGTAGGACATATATATATATATATATGTGTGTGTAATATCTTGTCAAATTGCTCTCTGTCCTTGTTCTTTAAAAGGTTATAATTCACCTGAATATTAGACAGCTTTATGTGTTTCACCATGCCCTGGTTGCATTTTTATTCCTTTGATATGCAGTTATAACAAGGAAGTAGGACATTTGTCAGACGGTTCCAAACAGCTTCATTTGCACTGTACTAACAGTTTGTTTCTTCCAAACAAAAAAGAAATTCAAACTATCTTGTCTTCAATTTGAATCTTCACAAGGTTCCCTAATGTGATTTCTTCAGGTCTTAAAGTGCCCTTGTAATTCCACTGATCAGTCTATATCCACTTGGGTGCTTGACACTTACTGTTTGTACATGGAAAACTAAAAGCGTGCCTGACCACGTTATTAGCTTTTGCTTTGACCTGCCTGGAGTCCTGGAAATTCCCATGATATTATTTCTGTACTAAATATTAAAAAAGGAAAAAAGAATGTGGGTTTTTGAGGTCACTGCTATGGATCTGGTCCACAGGTACCTGTAGCTGTAAATGACTTTTTGGCGATGCTTCATGAGGTTGCAAGTGCATAGGTTGTCTGTAGGTGTCGCTTCTTACTTCTGTTCTTTGTTCTCTTTAG
Seq C2 exon
ATCTCCTCCACAGCCTCCCTCGAGTCAAGCAGATGAAGATGAAATCACGTGGGGAAGTGATGAATTGCCAATTGAATCAATCAGCCAGGAACGTGTAAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011078:ENSGALT00000018050:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.806
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]