GgaINT0024818 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1330839-1331371:+
Coord C1 exon
chr11:1330839-1330991
Coord A exon
chr11:1330992-1331188
Coord C2 exon
chr11:1331189-1331371
Length
197 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TATCCTTCTGCCTGCCTTAGAAA
3' ss Score
7.97
Exon sequences
Seq C1 exon
AAAGTTACTGATGGAAAGAAAGTGGTGGTGGTGCTGGATCCCAAGAGGAGCAACGCCATCAACATTGGCCTCACGGTGCTGCCACCTGTGCACATCATCAAGACAGCCGTGCTCAACTTTGATGAGTTTGCAGTCAGTAAGGAAGGGATTGAG
Seq A exon
GTGAGAACTGGAGGATCTAGGCCCACCAAGGTCCCTGTGGGGGTCGTTTCCCCTGGTCAGGAGGTCTCTGTGCCATGGTGCCCATGATGCCAGTGTGGCACACTGTAGGTGGCCCTGGTGTGACATGTCCCATCTCCCACCATCCTGGAGGAGCAGTGACATTGCTGATATCTGATGTATCCTTCTGCCTGCCTTAG
Seq C2 exon
AAAATCCTGACCATGGTCCCAACCGAGGAGGAGAAGCAGAAGATCCAGGAGGCCCAGCTGGCTAACCCTGACGTGCCCTTGGGCTCTGCGGAGCAGTTCCTGCTCTCATTGTCCTCCATCAGCGACCTGACGGCCAGGCTCCAGCTCTGGGCCTTCAAGCTGGACTACGAGAGCCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:16
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=0.115
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(13.5=100)
A:
NA
C2:
PF0218118=FH2=FE(16.2=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:
AAGAAAGTGGTGGTGGTGCTG
R:
TGGAGGACAATGAGAGCAGGA
Band lengths:
256-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]