BtaINT0062506 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032427 | FHOD1
Description
formin homology 2 domain containing 1 [Source:HGNC Symbol;Acc:HGNC:17905]
Coordinates
chr18:34980128-34980997:-
Coord C1 exon
chr18:34980593-34980997
Coord A exon
chr18:34980284-34980592
Coord C2 exon
chr18:34980128-34980283
Length
309 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CCCTTCCCACAATGTCAAAGAAA
3' ss Score
1.55
Exon sequences
Seq C1 exon
NATCTGGGGGAGGATGAAGACCAGGACATGCTGAACATGGAGTCTGTGGAGGCGGAGAAAGGGATCCCACCCCCACCGCCCCCCCCACCCCTGCTCTCTGGAAGCCTCCCACCTCCTCCACCTCCACCTCCCCCACCCCTCAAAAGCCCCTTCCCACCAACCCCACCCCCACCCCCTGCTGCCCCTCTTCCCCACTCAGCACCTGATGGCCCTGCCCTCCCCACCAAGAGGAAGACAGTAAAACTCTTCTGGCGGGAGCTAAAGTTGGCTGGAGTCCGTGGAGGCTCTGGCAGTCGCTTTGGGCCCAGCCCCACCCTGTGGGCCTCACTAGAGCCTGTCTCGGTGGATACAGCCCGGCTAGAACACCTGTTTGAGTCCCGAGCCAAGGACATGTTGCCTTCCAAA
Seq A exon
GTAAGCACATCCTCATCTGTGGGGTAACCCCAGGGGAGAGGGGAGGGAGCCAGAGCTCAAGGGTCTGAACTGCTGGGGAAACTGAGGCAAAGAAAGGAGGAGGGACTTGTCTGAGGTCCTTCAATGAGGGTTTAGCCCATCCCTAACTAGCATCTAAGCCCATCCCAAGGCCTTGCACATCCCAGAGCCCTGGCTGTGGGGTAATTGCACCATTTGGGCTACTGAGAGTGGGGCCTTGGTGTGCCCTCTTAGGTTGTTGCCCGTTAGACCCTTTCCCAGTCTTATACTGCCCTTCCCACAATGTCAAAG
Seq C2 exon
AAAGCTGGTGAGGGCCGCCGTACAATGACCACAGTGCTGGACCCCAAGCGCAGCAATGCCATCAACATCGGCCTAACCACACTGCCACCTGTGCACGTGATCAAGGCTGCCCTGCTCAACTTTGATGAGTTTGCTGTAAGCAAGGATGGCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032427:ENSBTAT00000063472:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.837 A=NA C2=0.269
Domain overlap (PFAM):
C1:
PF0218118=FH2=PU(17.7=48.9)
A:
NA
C2:
PF0218118=FH2=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAAGCCCCTTCCCACCAAC
R:
GTTAGGCCGATGTTGATGGCA
Band lengths:
342-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development