GgaINT0071091 @ galGal3
Intron Retention
Gene
ENSGALG00000011078 | PTPN13
Description
NA
Coordinates
chr4:47285253-47286850:-
Coord C1 exon
chr4:47286753-47286850
Coord A exon
chr4:47285310-47286752
Coord C2 exon
chr4:47285253-47285309
Length
1443 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGC
5' ss Score
4.81
3' ss Seq
TATGTGCATTCATGTTGCAGGTG
3' ss Score
9.98
Exon sequences
Seq C1 exon
TTCAAAATCTCATGCAGGTTTAAGTAGAAGTCCTGAAAGAAAGAAAAATGAATCGGACTCATCATCCATGGAAGATACCGGGCAAGCCTATGTTGTAG
Seq A exon
GTCAGCACACAAAAATACTGTTACTGTATTTACTAACAAACTCTACAGTTGCTTCAGATATAGTGCTTTGATATTTGTATTAACTGATGGTAACTTTTTGACTTGAAAATGGGATGAGGGCAGAGTTAATGCAGGCAAATTGCCCATGATTCCAGGTCAGTTGTAGCAAAGGAAAAAAATACTCCTATGGACAAAGTAACCAACTGTTCTAATGCCACAGGTGTCCAAAGTACTACACACAAGTAAGTCTTAGTAGCAGTAAAAAGGTGTGTTCACAAAAACAAACAAACAAACAAAAAATACTTTGGAGCAGAAAAAGACACCAGTGCTCCAGAGCAGCTGAATACACTTATTTCTCACACTGGGATATGGTGGTGTGTTAATTTTTAATATCTCTGTCATCAATTTTTGGTTGCTGGAGGTTCCCTGTTACAATAATAGAAACTAGGGTGACAGAAGCATTTGCAACATTTGCTTGCTTTTTGTATGTTTAATATCATAACTTTGGTTATTTACGTAGCTTTACAACAAGTGGGAGATGGGTAAGCACTCAGGCAATAACACAGAAACACTACAACTGCCTACACTACACTGAAATCAAGACTGAATGGGGAACTTGGGTTTTTCTGCATTATGAGCAGAGGCTACTGGAGACATAAGGCATGTAGTTTCTGTAGTGACTGAAGCCATTTGTCCAATGAATTTAGCTTTACCCATGATCCCTGGGGCAGCAATTCCGATCTTAGGTATATAGTGGGTAGTCTTGCTGAATTCCATTGCTCATGGTGGGGAACATAGCTCATCAGCTGAAACTTCAGGGTTCAGATGGTTGAGAAAGCCTGGGCTTGGCTTAACTAAGAAGCTTGAATTATCTTACCTCCTTTATGTCCGTAACTTAGTATGTTTTTTATCTCCTTTAAAATACTGTAATGTTTACTTAGCATTTTCCAAAGAAAATATGATCCTGTGTGCAAAGCAATTTAAATAGAAATATATAGAAATGCTTGTTACTGCCCAAAATTGCTTGTTACTGTATAAAAACTTGCAGGGCTGCTGTTTGATGCTTTATAAAGTTAGGCATATCCATTAAACCGTACTATAAAATTTAGTCTTAGGCTTTTTCTTAAAGCCTCACTGATTTCTTCTGAAGTTTAGAGTGGCTGAGAAGGCCATAGCTCTGTCCTTTCTTTAATTCTTTGCCTTTGCATGAGCTTCCACCTATCTGAACTTTGAATTGTGTCCAAAGCACATCAATGGTTGGAAATTGCTCAACCACAGCTAAGTTGGTGTTTGCTCATTTTAAAAATAAGCACTCTGCTGTTGTGATGGGCTCATGCATGTTCTGTGTAAAGTCTAATGTGTCTACAAAGTCTAATGTGTCTACATAGCTTTCTTGGGGAAAAAAAATCATATTGATGTCTAATATGTGCATTCATGTTGCAG
Seq C2 exon
GTGTTAGCATGAGTAGCTCTGGAAATCTTCCATCATCAACACCATTAAAAGAGAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011078:ENSGALT00000018046:19
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=0.900
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]