GgaINT0024823 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1332408-1333208:+
Coord C1 exon
chr11:1332408-1332600
Coord A exon
chr11:1332601-1333033
Coord C2 exon
chr11:1333034-1333208
Length
433 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
TGCCTCTTGTACTGCTGCAGACC
3' ss Score
7.93
Exon sequences
Seq C1 exon
GTTCCACTCCTTCCTGCTCTACCTGGGGTACCCGGCAAGCGCTGCGCGGGATGTGAAGGTGATGCCCATCTGCAAGCTGCTGCGGGAGTTCGCCCTGGAGTACCGCACGTGCCGGGAGCGCGTCCTGCAGCAGCAGAAGAAGCGTGCGGCCCACCGTGAGCGCAACAAGACGCGTGGCCGGCTCATCACAGAG
Seq A exon
GTATGGGGCTGACCATGCCACCACTGTGCCCTGTGCTGATAGAATGAGAGGGAATGGCCTCACGTTGTGCCGGGGGGTGTTCAGATGGGATATTAGGAACAATTCCTTCTCTAACAGAGCGGTGAGGCGGTGGCACGGCTGCCCAGGGAGGTGGGGGAGTCACCACCCCTGGAGGTGTCCCAGAGCCATGGGGATGTGGCACTGAGGGACGTGGGCATGGTGGGAGTGGGCTGGGGTTGTGCTTGGGGATCTGAGAGGTCTTTTCCAACCTGAATGATTCTGTGATTCTACAATCCTATGATTCCATGAGTGGTCATAGTGGTGATGGGTTGATGGTTGGACCTGATCTTGGAGGTCTTTTCCAACCTTAATGATCGTGTGATTCTGTGATTCTGAGCTGTGTCCCCAACGCCTGCCTCTTGTACTGCTGCAG
Seq C2 exon
ACCGAGAAGTTCTCTGGCATCACCGAGGCATCACCACCCGCCGTGGTGTCAGCCAGCCCCACGCAGCAGGAGCAGGCAGAGGTGGGCCACGAGAGCATGAAGAGCGTCCTGAGCTCGCCCACGGATGTCCCTGCCCGCCGCAGTCGGGGTGGCCGCGGTAGGAGCACATCACCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.966
Domain overlap (PFAM):
C1:
PF0218118=FH2=PD(9.5=53.8)
A:
NA
C2:
NO
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:
TTCCTGCTCTACCTGGGGTAC
R:
TAGGTGATGTGCTCCTACCGC
Band lengths:
358-791
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]