GgaINT0024820 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1331589-1332048:+
Coord C1 exon
chr11:1331589-1331708
Coord A exon
chr11:1331709-1331886
Coord C2 exon
chr11:1331887-1332048
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACTGAGCATCGGGGTTTCAGAGC
3' ss Score
2.58
Exon sequences
Seq C1 exon
GAAATTGCAGAGCCACTGTTTGATCTGAAAGTGGGCATGGAGCAGCTGGCCAGAAATCACACCTTCAAGTGCATCCTGGCCACGCTGTTGGCCATGGGCAACTTCCTGAATGGCTCCCAG
Seq A exon
GTGAGGAACGGGGTGCTGGGGGATGCAGCTTGGGTGCTGTGTGAACAAGACCAACCATGGCACGTGCGTGCCCAAGACCATGAGAAGCTCGGGAGGTGGTGTGGATGCTGGTGCTGGTCTTCTTGGTCAACGGGAGGGTGGCAAGTTGGAGAGGCCCCACTGAGCATCGGGGTTTCAG
Seq C2 exon
AGCAGAGGCTTTGAGCTGGGCTATCTGGAGAAGGTGTCGGAGGTGAAGGACACAGTGCACCGGCAGTCCCTGCTCCACCACCTCTGCCAGATGGTGGTGGAGAAGTTCCCAGAAACCACGGACCTCTACTCAGAGATCGCCTCCATCACGCGATCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:18
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:
PF0218118=FH2=FE(10.5=100)
A:
NA
C2:
PF0218118=FH2=FE(14.3=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:
ATCTGAAAGTGGGCATGGAGC
R:
TGATGGAGGCGATCTCTGAGT
Band lengths:
246-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]