MmuINT0064465 @ mm9
Intron Retention
Gene
ENSMUSG00000014778 | Fhod1
Description
formin homology 2 domain containing 1 [Source:MGI Symbol;Acc:MGI:2679008]
Coordinates
chr8:107858587-107860461:-
Coord C1 exon
chr8:107860282-107860461
Coord A exon
chr8:107858703-107860281
Coord C2 exon
chr8:107858587-107858702
Length
1579 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGACATGCCTCTCTCTTCAGAGC
3' ss Score
10.23
Exon sequences
Seq C1 exon
CTCTACAGGCTCCGCCTCACCAGTAGGCTCCACCCCCTCCACTGGCTCCGCCCCGCCTACAAATCCAGCCTTCAGCTCTACTGGCCCAGCCTCTGGCCTTCTTCGAACCTCAGTGAACCTCTTTCCTACCATTTCCGTGGGGCCGTCAGTGGACAGTTCCTGTGAGAGAAGCGTCTACAA
Seq A exon
GTAAGTGGGGAGGCCAAGTCCCATCCCCAAGTCCTGTCTCCCACTGTCCCTCCGCTCTGCGCGCCTCCACGGGCTCTCGGCCTCCTCTGCCCAAAACGCCTTGCTCTCTCTCTCTTTTCAGACTTCACCAAACTGCTCCCGTTTGGTAAGTGACTGCTGGAGGGTGAGGACTGTCCCTAATGGGGCCTCCTTCTCCCGTGGCTTCTCTTTATTTCTTTCCAGTGTTCCACCTCACCTGCCTTGGCCTCTTGTCATGTCTCCCTCTTCACTCTCTCCTTTCGTTTCTGTCCCTCCTTTTGTGCGCAGTCTTTGTGATCCCTGCACCCTGTCCAGCTTCTGGTCTGTTTCCCCCATGTCCCACCACCCCTAGTCCTCTCTCCTTACCACTGTGGATGGCAAGGCACTGTGACACTCCTGTCCAGCTCTGTACGGGTACAACAAGCGGGCCTTGGAATCGAGCTGGCACCATAGTTACCACGTCTTCCTCTCATCCCCCTACCCAGCTCCCCTGAGAGTCCACCTGTCCCCCAGTCCCTTCCTGGGCAGGCCAGGCTAGAGTAAGTATAGAGGCCAGTCTGCCAGGCCTGCCATGTGCTCAGGGCTTCAGCCTTGCTTGCCCAGCAGCAGCTGATGTAGCCACCCGAGGAGGATTCTCGGGAACTCATTCTTCTAGACTTAACGCTTCCTTAGTAACCCAAAGGCTTAACCACTGGGCACAGTTTCCTGGGATCATCGTGGTCCCTAAGCTTCAACAGTGATAGCTGAGTAGCTTAGACCAGAGATGTGGATGTGGCAGAGAGCTTGTGGATGCATTTGGAGACGTATTTACAGTGAGGTGTGTGTGCGCCGAGGGAGGAGGGGGTACAGGGACTTCAAGCCAAAGGAAAGTCAGGAAGTAACAGGTACGGTGGCAGCACACACCTTGTAATTCTAACACTTGGGGGTGGAGACAGAGCATCAAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTAACAGAGAATTCAAGGTCATCTTCAGCTACATAGTAACTTTGGAATAGTCTGACCTACCTGAGACTTTGTCTCAAAAAGAAAAAAAAGAGGAGGTTGAGAAGAAGAGAGGAAAGGAAGGGAAGACACAAATAGGTAGCATTTATATTTCAACACAAATTGAGTGCACACTGTTAACAGAGCCTTTTCTCCACTGTAACTCCCAAAAGCAGACAGGCCTGTAAGAAGTCTGTTGTGCCTGTTGGGACAACTATCTCCTTCCCTAACTCTAAGGATCTTATTTAGAATCGGGACAATGAACATAGATTCCTTAACAAGGTTTCAAGTTAGATGTCAGTAGAACTTCTGTACTTTGACCAAGAACAGCGAGTTGGTTGTAACTCCTGGGATATGGGTTGGCGGGTTGGCAGAGGTATACCTAGTGCATGGACTGTCCCACGTGCCTGTGTGTGCTTGCAACTGAGGGCAGTGCCCAGTGGCTCAGCAAGGCATGTGTGCCACCCTGGGCTGGACTTGGGTCAGACACCACCGTTGACATGCCTCTCTCTTCAG
Seq C2 exon
AGCCCGGTTCCTGGAGAATGTGGCGGCAGCAGAGACGGAGAAGCAGGCTGCTCTGGCCCAAGGCCGAGCGGAGACGCTGGCTGGAGCCACGGTAGATGACACTGATGGATCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014778-Fhod1:NM_177699:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.844 A=NA C2=0.911
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCCGCCTCACCAGTA
R:
ATGATCCATCAGTGTCATCTACCG
Band lengths:
286-1865
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: