GgaINT0071092 @ galGal3
Intron Retention
Gene
ENSGALG00000011078 | PTPN13
Description
NA
Coordinates
chr4:47284208-47285309:-
Coord C1 exon
chr4:47285253-47285309
Coord A exon
chr4:47284301-47285252
Coord C2 exon
chr4:47284208-47284300
Length
952 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TAGAAATGTTGGCTTTTCAGGTG
3' ss Score
7.45
Exon sequences
Seq C1 exon
GTGTTAGCATGAGTAGCTCTGGAAATCTTCCATCATCAACACCATTAAAAGAGAGCA
Seq A exon
GTAAGTTGATCAATAATAATACATCCATTCTGTTGGTTAAGTCAGTAACTTTTAATTTGTACTTGCTGAGAGCTTCAATGGCACTTGTTCTGTTCTTTGACTGTGCTTACATCAGACACCTCTGCCAATCAATCAGACCAAGTGGGACCTTTGTCCAAATCTATCTCAAATACTGGTTTGGGGTTGCTTACAGAGAGAGATTTTTACATCTGTATAATGCTATTCAGCTGCGGAGAGTGTCTAGTTTGACTCCTTTAAGGTGCTGTTACCTACAACAAAGTCTGCTCTTCAAAGCTCCTTTCCCATGCTTATGAGGCTGGTGGTTCTGCAGTGCCCCCAGATGACCATTTGCTGACTTTTGGAATGGGGAGGGGTGGGGATAGAAACCCTTTTCTGGTTGGGGCTGTCTGCTGTGTTCTCTTGCACCAGTTATTTTTGCCTGTTGCTGGTGTATAGAGTTCAGTTAATTTCTGTTGTTGTGGAAGTGCCTGTACCACTTACAGCAAAACTGGGCCAGGCACTCCAGTCCAAGTAGTTCCACCTTCTCGAGGTAGATAATTCATGAGTTCAGACTGTGACAGTATGCTGGCAATTTAAACAAGATAGGTTATAGTAGATATTTCTAACGTTGATTGTTTCAATTAAAGATTGTTGTTAAGAGAATTCACTCAGAAACCTTTTAGTAACTTAGAACCATATGGCTTGGGTTGGAAGGGACAATCGGGCTGGCAAGGGCCCCATCCAGCTGGGTCGTGAGCACCTCTAGGGAGGGGGCATCCACAGTTTCTCTGGGCAGCCTTCTCTTCACAGCTGGACCCACTATTTTAGAGAGCATTTTCAGGTTATCAGAGGAGTGATCTCTTCTATGGAATAGAACTTAAAGGCAAACTTGAAAGGATATCAGTGTGCACATGTTCATCTGGTGTCTGATTTAGAAATGTTGGCTTTTCAG
Seq C2 exon
GTGACTCTCTGCAAACAACACAGAGCAGAGTTTCCTCACCAGAAAGAGAGATCACTTTGGTGAACCTGAAAAAGGATGAAAAAATGGGCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011078:ENSGALT00000018046:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=0.781
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0059519=PDZ=PU(14.3=37.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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]