RnoINT0062954 @ rn6
Intron Retention
Gene
ENSRNOG00000009139 | Fubp3
Description
far upstream element binding protein 3 [Source:RGD Symbol;Acc:1307004]
Coordinates
chr3:10226560-10227539:-
Coord C1 exon
chr3:10227379-10227539
Coord A exon
chr3:10226634-10227378
Coord C2 exon
chr3:10226560-10226633
Length
745 bp
Sequences
Splice sites
5' ss Seq
GGCGTACGT
5' ss Score
6.5
3' ss Seq
GCTCCTCTGTGCCCACACAGGGT
3' ss Score
8.4
Exon sequences
Seq C1 exon
GGGGCGAGAACATCAAAAGCATCAACCAGCAATCAGGTGCCCACGTGGAGCTGCAGCGGAACCCCCCTCCTAACACCGACCCTAACCTGCGGATATTTACCATCAGGGGTGCTCCTCAGCAGATCGAGGTGGCCAGGCATCTCATAGATGAGAAAGTTGGC
Seq A exon
GTACGTACACGGGCCTTTCCCCACCTGGCTTATACTAGCTGGATTTGCTTTTGGATGTCCAAGGTACCTGCTTTCCCCCAGAACCTTGTGCTTCCATGCCTTTCCATCCTTGCATCATGTGGGGCAGCCTCTCCTCTCCTCTCCAAAGGAAAGTCCAAGGCTCAGGGAGTGCCAGGCCCAAATGCAATGAGAGAAGCCTCTGGCATGGCTGCCAAGGCTTCAGCAGTCAGAGCTCCGGCCATGTCCCTGCAGATGAGCCTAGATGAGCTGCAGGAAAGCGGCCTCCCCCAGCGCTGCCCCAGGCTCCCTCAGTGTCACCCTGGCCACCAGCCCTGCAGGCAGCTTTCATTGACTCTGGCTTTAGTTTCAGGCACCTCAAAGCAGATAAAGAAAGGGAGTGTTGATGGAGGACAGATGGGCCACTGCTCACCTCAATGGGGACGTAGAATGGCAGAAAGAGCCCTGGGCCAGCCTAAATTGACGGGAGAGTCAAGCAGGTTGGTCCTCCCCCAGGGTGACATGCAAGGGCAATCGTGGTGGTGCCAGGACTGGCTGTGTGGTGGTCTTGGTCATTTGAGGGGCAGAGCACCACTGCAGACATTGTCTGCTGGGGAAGGAAGCTAGTGTGAGCGCAGAGCTGTCTCCTTCACTTGACTTGCCTCCCATAGTGGCTTCCCTGGGTGGGCCTGGGCAGAGGGCAAAGTGACTTGGTGACACGGGTGAGAGCTCCTCTGTGCCCACACAG
Seq C2 exon
GGTGCCAGCCTCGGAGCCCCTACAGCCTTCGGACAGAGCCCCTTCAGCCAGCCACCAGCTGCACCACATCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009139:ENSRNOT00000021871:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.698 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(72.7=88.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCGAGAACATCAAAAGCA
R:
TTTTGATGTGGTGCAGCTGGT
Band lengths:
235-980
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]