GgaINT0024817 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1330241-1330991:+
Coord C1 exon
chr11:1330241-1330613
Coord A exon
chr11:1330614-1330838
Coord C2 exon
chr11:1330839-1330991
Length
225 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
GCTCCCTGTCCTCTTTGCAGAAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
CATCGAGGCAGCGAGTGCGGGAGTTCTCATGGCTCCCCCTCCACTTCCTATGGTTCCCGGTTGCCCACCACCTCCACCTCCTCCCCCAGTGGTCCCTGGTTGCCCACCACCTCCACCTCCACCACCTATGGTCCCTGGCTGCCCGCCTCCCCCAGGGTTCTCAGGCCCCTCCGCCATGGATGGCCCTTCCCAAGCCAAGAAGAAGAGGACAGTGAAGCTCTTCTGGAAGGAGCTGAAGCAGCTGGATGGCACTGTGGGGTCAGGCAGGTTTGGGCAGGCGACACTGTGGGCATCCCTGCAAAACGTTGAGGTCAACACTGCCAAACTGGAGCATCTCTTTGAGTCCCGTGCAAAAGAGATGCCAGCTTCCAAG
Seq A exon
GTACCGGCAGGCCAGAGCTTTTGGGGGCTGTTGTAGTCTCAAGGCATTGTCACCCCCATGCTGTGTTGAGGATGGGTAGCTAGAGCCTTGAGACTCAGTGGGGAGGATGGGGTGGGGGGTGATGATGATCAACGCATAGGTGTGGTTCACCCCCACATCCCATGGTGTATTCACAAAGGTGAGCCCCCTGCCTGGCTGCCAGCCTGCTCCCTGTCCTCTTTGCAG
Seq C2 exon
AAAGTTACTGATGGAAAGAAAGTGGTGGTGGTGCTGGATCCCAAGAGGAGCAACGCCATCAACATTGGCCTCACGGTGCTGCCACCTGTGCACATCATCAAGACAGCCGTGCTCAACTTTGATGAGTTTGCAGTCAGTAAGGAAGGGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.648 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=PU(17.3=51.2)
A:
NA
C2:
PF0218118=FH2=FE(13.5=100)
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:
CCTCCACCTCCACCACCTATG
R:
CAGCACCACCACCACTTTCTT
Band lengths:
300-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]