BtaINT0062511 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032427 | FHOD1
Description
formin homology 2 domain containing 1 [Source:HGNC Symbol;Acc:HGNC:17905]
Coordinates
chr18:34978145-34978619:-
Coord C1 exon
chr18:34978429-34978619
Coord A exon
chr18:34978338-34978428
Coord C2 exon
chr18:34978145-34978337
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
TTCCCATTCCACCCACCTAGGTT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTGGACTTTGAGCAGCTGACTGAGAACCTGGGGCAGCTGGAGCGCCGGAGCCGGGCAGCTGAAGACAGCCTGCGGAGCCTGACCAAGCATGATCTGGCTCCAGCCCTGCGTGCCCGCCTCACCCACTTCCTGGTGCACTGTACCCGCCGTGTTGCCATGCTGAGGGTCGTACACCGCCGTGTCTGCAACAG
Seq A exon
GTGGGGGCATTGCAGAGAGAGGCAAGACCGCCACCACCATCCCTCAGACCCCAAGCAGGACTCAGACCTCCTTCCCATTCCACCCACCTAG
Seq C2 exon
GTTCCATGCCTTCCTGCTGTACCTGGGGTACACGGCAGAGGCAGCCCGTGAGGTCCGCATCATGCAGTTTTGCCACACGCTGCGGGAGTTCGCACTGGAGTATCGGACCTGCCGGGACCGGGTGCTGCAGCAGCAACAGAAGCGGGCCACATACCGTGAGCGCAACAAGACTCGGGGACGTATGATCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032427:ENSBTAT00000063472:18
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=0.331
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(16.9=100)
A:
NA
C2:
PF0218118=FH2=PD(9.4=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTCCTGGTGCACTGTACC
R:
TCCGATACTCCAGTGCGAACT
Band lengths:
175-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development