MmuINT0064467 @ mm9
Intron Retention
Gene
ENSMUSG00000014778 | Fhod1
Description
formin homology 2 domain containing 1 [Source:MGI Symbol;Acc:MGI:2679008]
Coordinates
chr8:107855937-107857504:-
Coord C1 exon
chr8:107856810-107857504
Coord A exon
chr8:107856093-107856809
Coord C2 exon
chr8:107855937-107856092
Length
717 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CCATTCTCCCAACCTTGCAGAAA
3' ss Score
9.14
Exon sequences
Seq C1 exon
GCACAAGGGAACTGTGGGACTCCCCAGAGCCAGCCTCTGCACCCAGGACACCCCAGAGCCCTGTTTCCCGAATCCTGCTGCGCACCCAGCGGAGTCTTGAGCCAGAGCCCAAGAAGCCAGTGTCACCACCAAGCCCTAAGGCTGAGCCTATCCAGGAGCCTCCCACCTGTGTCCCCAAGCTCTGCATTGGGGACTTGGACTTCTCAGACCTAGGGGAGGATGAAGACCAGGACACACTGAATGTGGAATCTGTGGAGGCTGGAAAAGCATCTCCCTTCCTGTCATCTCTATCGCCCTCACTCTCTGGGGGTCCCCCTCCTCCGCCCCCACCTCCTCCACCCATCACAGGCTCCTGCCCCCCACCTCCGCCCCCACCTCTCCCCCCACCCGCCACAGGCTCCTGCCCTCCACCTCCGCCCCCACCTCCCCCACCCATCATAGGCTCCTGCCCACCGCCTCCACCCCTGGCTGCTCCTTTTACCCACTCAGCACTTGACGGCCCAAGGCACCCCACCAAAAGGAAGACAGTAAAACTTTTCTGGCGGGAACTAAAGCTGACTGGGGGCCCTGGGTGCTCTAGAAGCCGCTTTGGGCCTTGTCCTACCCTGTGGGCCTCGCTGGAACCCGTCTCGGTGGACACAGCCCGCCTGGAACACCTATTTGAGTCCAGAGCCAAGGATGTGCTACCAACCAAG
Seq A exon
GTAAATGGGCTTGATGGGCATGAACTGGGAGTTGAGGGGGCCGAGTTATTAGAGCTAATGCTTCCTTCCCTACATGGGGAACCGGCAAGGAAAGGAAACTCATTCTCTCTGAGTAAGCAGAACCCTCATGAGAATTATTAGTCCATTCCCAGGCTGTGTATCTCTTATCTCCAGTCATGGGTTCATTAGGCCATTCAGAGAACTTAAGTGCCCTCTTTTTATCCCCCCCAGACAAGGCTTCTTTGTGTGGCCTTGTTTGTCTGGAATTTGCTCTTTAGACCAGGCTGGCCTTAGCCTCACAGATACCCTCCTGAGTGCTGGAGTTAAAGGTGTATGCCACCATGCTAGCTTAAGGTGCTACCCCAGCTAGTCCCCCCCCCCTTTTGTAAAGATTTAGTTATTAATTTTATGTATCAGACATACCAGAAGAGGGCATTGGATCCCATTCCAGATGATTGTATCTACCATGTGGTTGCTGGGAAATGAACTCAGGACCTTCGGAAGAGCAGTCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGCCCCTCTTCCCCTTCTTTTGGTTTTTCAAGACAGGATTTCTCTGTATAGCCCTGGTTGGCCTCGAAATCAGAAATCCAACTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCCTGCACCACCATGCCCAGCTCCCTCTTCCCCTTCTTAAAATGCCATTCTCCCAACCTTGCAG
Seq C2 exon
AAAGCTGGTGAGGGCCGCCGGACAATGACCGTAGTGCTGGACCCCAAGCGCAGCAATGCCATCAACATTGGCCTAACCACTCTGCCACCCGTGCACGTCATCAAGGCTGCCCTGCTCAACTTCGATGAGTTTGCTGTCAGCAAAGATGGCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014778-Fhod1:NM_177699:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0218118=FH2=PU(17.7=28.4)
A:
NA
C2:
PF0218118=FH2=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGCTCCTTTTACCCACTC
R:
CTCATCGAAGTTGAGCAGGGC
Band lengths:
358-1075
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: