RnoINT0061035 @ rn6
Intron Retention
Gene
ENSRNOG00000054625 | Fhod1
Description
formin homology 2 domain containing 1 [Source:RGD Symbol;Acc:1589776]
Coordinates
chr19:37289032-37290542:-
Coord C1 exon
chr19:37290427-37290542
Coord A exon
chr19:37289324-37290426
Coord C2 exon
chr19:37289032-37289323
Length
1103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTTACTTAACCTTTTCCTAGGCA
3' ss Score
6.24
Exon sequences
Seq C1 exon
AGCCCGGTTTCTGGAGAATGTGGCAGCAGCAGAGACAGAGAAGCAGGCTGCTCTGGCCCAAGGCCGAGCAGAGACGCTGGCAGGGGCAACAGTGGATGAGACAGATGAGTCATCAG
Seq A exon
GTGAGTAAACGCTCAGGCAGAATCCTACTGATAAACAAACCAACCCTGGGGACCGGAGAGAGGGCTGTCTCAGTCAGCAGCTGAGAGAGCTTGTTCTCTCGAAGAGGATCTGCATTAAATTCCTAGCAATTGTGTGGTAGTTCACAACTGTCTACTAAGTTTTGGGAAGTCCTATGCTGCTTTCTTAATGATTGTTTTTGTTTTTCAACATTGGGTTTCTCTGTGCTGCTGTGGCTGTCCTGGTACTCACTCTGTAGACCAGGCTGACCTCAAACTCGGAGATCTGCCCTCAGCCCCCCAAGGGCAGGGATTAAAGGTGTTTATAAACACCCCCAATTATATCATTTTCTCTTTCTCTTTTTTCCCTTTTTAAAAAAGATTTATTTATATATAAGTACACTGTAGCTGTCTTCAGACACCAGAAGAGAGCATCAAATCTCATCACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGTAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCTCTTTTCTCCTTTCGGTCTCTCCCATGTTTCCCTTATCTGGCCTTTTCAAACTCATAGCCCCACCACCATTTTTTTTTTTAATTTTATAGCTTATTACTACCTCTGCAGGTACTAGGCATGTACCAACCAGTTCACAGACACACACATAGGCAAAACACTCATATACTTAAAATTTTTTGTGTTTTGAGACAGGATTTCTCTGTATAGCCTTTGCTGTCCTAGAACTTGCTCTATGGACTAGGCTAGCCTCAAACTCATAGAGATCTGCCTGCCCCCCAAGTGCTAGGACTGAAGGTTTGTGCCACCACTGCCTGGCATATAAAATGTTTTTTAAGAGATACTAAAAAGCAAACCACCAAACCCCCTTTATGTATCCATGGACAAGGGGGCCTTTGAGCTCTGAAACTGGAGTTATAGCACCCAGTGTTAGTGCTGGGAACTGAACTCAGGGTCTTAACTGCTGAGCTATCCACGTCTCCAGCATTTCCAAACTGCCACTGTCATGTTGCTTTATTGCCCCATAGAGGGCATGTGGCTGATAGTTACTTAACCTTTTCCTAG
Seq C2 exon
GCACCAGGGAACTGTGGGACTCTTCAGAGCCAGCCTCTGCACCCAGACCACCTCAGAGCCCTGTTTCCCCAATCGTGCTGCGGACCCAGAGAAGTCTTGAGCCTGAGCCCAAGGAGCCAGTGTCACCACGAAGCCCTAAGACTGAGCCTGTCCAGGAGCTTCCTACTCACGTACCCAAGCTCTGCATTGGAGACTTGGACTTCTCAGATCTAGGGGAGGATGAAGACCAGGACACATTGAATGTGGAATCTGTGGAGGCTGGAAAAGCATCCCTGGTCCTGTCACTTCCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054625:ENSRNOT00000084734:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.925 A=NA C2=0.990
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GCAGCAGAGACAGAGAAGCAG
R:
TTCCAGCCTCCACAGATTCCA
Band lengths:
355-1458
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]