GgaINT0024814 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1328656-1329377:+
Coord C1 exon
chr11:1328656-1328801
Coord A exon
chr11:1328802-1329097
Coord C2 exon
chr11:1329098-1329377
Length
296 bp
Sequences
Splice sites
5' ss Seq
GAGGGAGGT
5' ss Score
2
3' ss Seq
TGCCGAAGATTTTGTTGTGGATT
3' ss Score
-4.41
Exon sequences
Seq C1 exon
GCTGGATGCTCCCAGTCATGCAGGGCAAGAGGAGCAGGAGGGTCCCACGTGTCCCAGCTCCAACACTCGGTGCCCTTCTGGGAGCTTGGTCTTGCAGCTTGTTGCGGTGGATATCAGCTTGGGTCCAAGTGGCAGAGGTGGTGGAG
Seq A exon
GGAGGTGGTGGAGTCTCCATCCTTAGAGATGCTCAGAAGCTGCCTGGACATGGTGCTGGGCAAAGCTCAGGGTGGCCCTGCTGGAGCAGGGTGGCACCAGATGACCTCCAGAGGTCCATGCTGACCTCAGCAATTCTGTCCCCATGCTTTCCCTGCCTCCCGCTGGGCCATTACATCCTTGTCTTGCTATTCCCAAGCCATGGTGGCCTTACCCATCTCTCTGAAGTGCTTGGAGATGGCTGGGGCCATGGGTGGATCCTGCTACGGTGTGGCTCATGCCGAAGATTTTGTTGTGG
Seq C2 exon
ATTGGCCCCATGCGGGGCTCGTTGTGTGGTGCTGTATGGTGTGGTTTGTCCATCCCCATCTTCACCATGCTCCCAGCCAACACCTGTCCCTGTCTCGCAGAGCTCGCTTCTTGGAGAACCTGGCTGCTGCCCAGAAGGAGAAGATGTCTGCCATGGCAAAGGGACGGATCGACATCCTCAGCGATGTTGCACCACTGGAGCATCCCGTCACTTGGGATGGGGACGGCAGTAACCCTGATGCTGGCACAGAACCACCCCGCATGAGTACGTGCAGGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.560 A=NA C2=0.309
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCGGTGGATATCAGCTTGG
R:
CTGTGCCAGCATCAGGGTTAC
Band lengths:
294-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]