GgaINT0071113 @ galGal3
Intron Retention
Gene
ENSGALG00000011078 | PTPN13
Description
NA
Coordinates
chr4:47264827-47265715:-
Coord C1 exon
chr4:47265660-47265715
Coord A exon
chr4:47264931-47265659
Coord C2 exon
chr4:47264827-47264930
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:ENSGALT00000018046:41
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=0.903
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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]