GgaINT0059793 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25592645-25593165:-
Coord C1 exon
chr5:25593055-25593165
Coord A exon
chr5:25592772-25593054
Coord C2 exon
chr5:25592645-25592771
Length
283 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CAGACTGCCTATTTTTTCAGACT
3' ss Score
6.25
Exon sequences
Seq C1 exon
ACAGCTCGCTCGAGGATGAGAATGAACAGGTGGAGGAAATAGCGGGACGTACCATCTTTCAAGAGTTCAAAACCTTCTTTGATGAAAAAACTTTTGGTGAAGGTGAAGCAG
Seq A exon
GTGAGCAGAAAGTTTGTAGAGAATTTGCAGTTTCTTCTCTCAGAGCACTCATTGCCTGTGAAACACCAGCTTACCAACTGCTGCCAAAAGCAGGGGGTGGGAGACGCTTGTCTTAACAGGGAAGCTACTTAACTTCTGCTGCAGAAGTCAAAATCTGGCTACAATTTTAGAGCTAATAAGCACTCTCTTCCTAGGCTCTTCCAACTTAGCATGCTGACTTCAGATAAAATTGTGCTGCTGTGAAGCGGGCAGAGTAATGAAAACAGACTGCCTATTTTTTCAG
Seq C2 exon
ACTGTGGAACTCGCCCTTTATTCGAAAAGAAACAGATAACAGACCAAAGTGAGAAGGAGCTGATGGACTCCTACATGGGAGGCAGAGTTGTACACGGGAACGATGCAGAAGTTGGAAGCGCCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093965=Thrombin_light=PU(40.8=52.6)
A:
NA
C2:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(5.2=30.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCGCTCGAGGATGAGAAT
R:
CAGGGGGCGCTTCCAACTT
Band lengths:
236-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]