RnoINT0061037 @ rn6
Intron Retention
Gene
ENSRNOG00000054625 | Fhod1
Description
formin homology 2 domain containing 1 [Source:RGD Symbol;Acc:1589776]
Coordinates
chr19:37287919-37288965:-
Coord C1 exon
chr19:37288677-37288965
Coord A exon
chr19:37288075-37288676
Coord C2 exon
chr19:37287919-37288074
Length
602 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAT
5' ss Score
7.24
3' ss Seq
CCATTCTCCTAACCTTGCAGAAA
3' ss Score
9.93
Exon sequences
Seq C1 exon
ACCACCTCCACCCCCACCTCCCCCACCCATCATGGGCTCCTGCCTACCACCTCCACCCCTGGCTGCTCCTTTTCCCCACTCAGCCCTTGACGGCCCAAGGCACCCCACCAAAAGGAAGACTGTAAAACTTTTCTGGCGGGAACTAAAGCCGACTGGGAGCCCTGGGTGTTCTAGAAGCCGCTTTGGGCCTTGTCCTACCTTGTGGGCCTCTCTGGAACCTGTCTCGGTGGACACAGCCCGGCTGGAACACCTATTTGAGTCCCGAGCCAAGGATGTGCTACCCACCAAG
Seq A exon
GTAGATGGGCTTGGTGGGCAGGAATTGGGAGTTCAGGGGGCCGAGTTATTGGAGCTAATGCCTCATTCCCCACATGGGGAAATGGCAAGGAAAGGAAACTCATTTAAGGCTCTCTATGAATGAGCAGAACCCTCATTGGAAATAGTCCATTCCCAGGCCTTACATCAATGATCCCCAGTCATAGGCTCATTAGGCCATTCAGAGAACTTTAGGGTTCATTAGGCCATTCAGAGAACTTTAGAGCACCCTGTTTTTCTTTCCCAAAACAAGGTTTGTGTGGCCTTGGTTGTCTGGAACTTGCTCTTTAGACCAGGCTGGCTGGCCTTAGACTCACAGATACCCTCCTGTGTGCCTGGATTAAAGCTGCCATGCAGGCTTAAAATGCTATCCCAGCTCGTTCCTCCCTTTTTAAAGATTCAGTTATTTATGTATCAGACACACCAGAAGAGGGCATCGGATCCCATTCCAGATGGTTTATCTACCATGTAGTTGCTGGGATTTGAACTTAGGACCTCTGGAAGAGCAGTCAGTACTCTTAACTGCTGAACCATCTCTCTAGCCCCTCTTCCTCTTCTTAAACTGCCATTCTCCTAACCTTGCAG
Seq C2 exon
AAAGCTGGTGAGGGCCGCCGGACAATGACCATAGTTCTGGACCCCAAGCGCAGCAATGCCATCAACATTGGCCTAACCACTCTGCCACCTGTGCATGTCATCAAGGCTGCTCTGCTCAACTTTGATGAATTTGCTGTCAGCAAGGATGGTATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054625:ENSRNOT00000084734:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.567 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0218118=FH2=PU(17.7=68.0)
A:
NA
C2:
PF0218118=FH2=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTTCCCCACTCAGCCCTTG
R:
TCAAAGTTGAGCAGAGCAGCC
Band lengths:
346-948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]