MmuINT0064466 @ mm9
Intron Retention
Gene
ENSMUSG00000014778 | Fhod1
Description
formin homology 2 domain containing 1 [Source:MGI Symbol;Acc:MGI:2679008]
Coordinates
chr8:107856810-107858702:-
Coord C1 exon
chr8:107858587-107858702
Coord A exon
chr8:107857505-107858586
Coord C2 exon
chr8:107856810-107857504
Length
1082 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GTCACTTTATTTTTTCCTAGGCA
3' ss Score
8.15
Exon sequences
Seq C1 exon
AGCCCGGTTCCTGGAGAATGTGGCGGCAGCAGAGACGGAGAAGCAGGCTGCTCTGGCCCAAGGCCGAGCGGAGACGCTGGCTGGAGCCACGGTAGATGACACTGATGGATCATCAG
Seq A exon
GTGGGTGATGCTCAGGCAGAATCCAGCCGCTAAAGAAACCAACCCTGGGGACCGGAGAGAGGGCTCAGTTGGCAGCCGAGAGAGGTCCTGCATTGGGTTCCCAACACTCACATGGAAGTTCACAAGGGCCTAATAACTCTAGTTTGGGGAAATCCCATGCTGCCTTCTTAATAATTGTTTCTGTTTTTCAAGAGTGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGTCTTCACTCTGTAGACCAGGCTGACCTCAAACTCAGAGACCTGCCTGCCTCTGCTTCCCAATTGCAGAGATTAAAGGTCTTTATAACCACCACCAATTGATACATTTTTATTAAAATATAATTATATCATTTTCTCCTTCTCTTTTCTCCTTTCACCCCTCTCCCATGTATCCCTCATCTGGCTTTTTCAAACTCATAGCCCTCCCCCCCCTTTGTAAAATTTTATAGCTTATTACCTCTATGGGTACTGGGCATGCACCAGTTCACAGACATACATAAAGGCAAAACATTCATATACATAAAATTAGTTTGTTTTTTGAGATAAGATTTCACTGTGTAAGGCCGGGCTTGGTGGCGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCCGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGGTCCAAGACAGCCAGGGCTACACAGAGAAACTCTGTCTCGAAAAAAAAGAAAAAAGATTTCACTGTGTAGCTTTTGCTGTCCTGGAACTTGCTCTGTAAACAAGGCTGGTCTCGAACTCATAGAGATCTGCCTGCCTGCAGACTAAAGGTGTGTGCCACCACCAGCCGGCACATTAAATGTTTTTTAAGAGATACTAAAAACAAACCACCAAACCTCCTTTCATTTGTGTATCCATGGGGAAGGGGCCTTAGCGCTCTGAGACTGGAGTTCTGGGTGCTTGGTTATAACCACCCAGGAGTAGTGCTGGGAGCTGAACTCAGGGTCTTAACAGCTGAACCATCCCTCTTGTCTCTCACTGTCATGTTGCTTTAGTGCCCCACAGAGGGCCTGCGGCTGACAGTCACTTTATTTTTTCCTAG
Seq C2 exon
GCACAAGGGAACTGTGGGACTCCCCAGAGCCAGCCTCTGCACCCAGGACACCCCAGAGCCCTGTTTCCCGAATCCTGCTGCGCACCCAGCGGAGTCTTGAGCCAGAGCCCAAGAAGCCAGTGTCACCACCAAGCCCTAAGGCTGAGCCTATCCAGGAGCCTCCCACCTGTGTCCCCAAGCTCTGCATTGGGGACTTGGACTTCTCAGACCTAGGGGAGGATGAAGACCAGGACACACTGAATGTGGAATCTGTGGAGGCTGGAAAAGCATCTCCCTTCCTGTCATCTCTATCGCCCTCACTCTCTGGGGGTCCCCCTCCTCCGCCCCCACCTCCTCCACCCATCACAGGCTCCTGCCCCCCACCTCCGCCCCCACCTCTCCCCCCACCCGCCACAGGCTCCTGCCCTCCACCTCCGCCCCCACCTCCCCCACCCATCATAGGCTCCTGCCCACCGCCTCCACCCCTGGCTGCTCCTTTTACCCACTCAGCACTTGACGGCCCAAGGCACCCCACCAAAAGGAAGACAGTAAAACTTTTCTGGCGGGAACTAAAGCTGACTGGGGGCCCTGGGTGCTCTAGAAGCCGCTTTGGGCCTTGTCCTACCCTGTGGGCCTCGCTGGAACCCGTCTCGGTGGACACAGCCCGCCTGGAACACCTATTTGAGTCCAGAGCCAAGGATGTGCTACCAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014778-Fhod1:NM_177699:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.911 A=NA C2=0.853
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218118=FH2=PU(17.7=28.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGCCACGGTAGATGACA
R:
CCCAGAGAGTGAGGGCGATAG
Band lengths:
344-1426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: