RnoINT0061823 @ rn6
Intron Retention
Gene
ENSRNOG00000008258 | Fnbp1
Description
formin binding protein 1 [Source:RGD Symbol;Acc:621350]
Coordinates
chr3:9868308-9868831:-
Coord C1 exon
chr3:9868710-9868831
Coord A exon
chr3:9868445-9868709
Coord C2 exon
chr3:9868308-9868444
Length
265 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TGTCTTCCTCTCTTGAGCAGCCC
3' ss Score
7.07
Exon sequences
Seq C1 exon
GCCTGGCTGGCTGAGGTGGAAGGCAGACTCCCAGCTCGGAGTGAGCAGGCACGCCGGCAAAGTGGGCTGTACGACGGCCAGACACACCAGACGGTCACTAACTGCGCCCAGGACCGGGAGAG
Seq A exon
GTACAGTACCTGTGAGGCCCTGCCTCTGGCAGAGGGGCAGTCCGGCTTTGTGCGTACTTTTAAATTCTGGAATCCCTCACAGAGAGAAGGCGAGAGTCTGTTTCCACTGACTCACATCACTGTTAACCATCCAGTCTGGACTGGTGATCTGAGGCAGCGTCAGCTCCCACAGCCTGGTCGAGCATCGCTCCACGGTGGTGGGGCGGACCAAGGAAGGGTCCAGGTTGGTCGCTATAGTTGCTCTGTGTCTTCCTCTCTTGAGCAG
Seq C2 exon
CCCAGATGGTAGTTACACAGAAGAGCAAAGCCAGGAGAGCGAGCACAAGGTGCTGGCCACGGACTTCGACGATGAGTTCGACGATGAGGAGCCGCTTCCTGCCATCGGGACCTGCAAGGCCCTCTACACCTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008258:ENSRNOT00000011224:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.776 A=NA C2=0.781
Domain overlap (PFAM):
C1:
PF143891=Lzipper-MIP1=PD(12.0=23.8),PF154561=Uds1=PD(12.7=23.8),PF0218511=HR1=PD(1.6=2.4)
A:
NA
C2:
PF0001823=SH3_1=PU(12.5=13.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCTGGCTGAGGTGGAAG
R:
CAAAGGTGTAGAGGGCCTTGC
Band lengths:
254-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]