RnoINT0062967 @ rn6
Intron Retention
Gene
ENSRNOG00000009139 | Fubp3
Description
far upstream element binding protein 3 [Source:RGD Symbol;Acc:1307004]
Coordinates
chr3:10234243-10235582:-
Coord C1 exon
chr3:10235478-10235582
Coord A exon
chr3:10234346-10235477
Coord C2 exon
chr3:10234243-10234345
Length
1132 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TGGCTCATGTCTCTGTCCAGGTG
3' ss Score
8.85
Exon sequences
Seq C1 exon
CAAGCAAGAGAAATGGTCTTAGAAATCATCCGAGAGAAAGACCAGGCTGACTTCCGGGGCGTGCGCAGTGACTTCACCTCCCGAGCGGGAGGAGGTAGTATAGAG
Seq A exon
GTAAGCTGCACTCACAGGTCAGTGGGCAAACAAGGCTGAGTTCGAGCCAGCCTGCTTGACATAACAAGCCCCAAGCCACTTAGGGCTACACAGTGGTGTGACCCTGTCTCAGAAACAAAAAGAGTGGCACTAAAGTCACTGGTCACACTTCTCTCCGCTCCTTAGCTTTTAAGACACACACTGTTGAGGGATATGAAGAGGGACCAAGCACGGAGAGCCAGCTGCATCACAGGGCGGGTCACACCTCTGCTCTTGGGTTTGCTTTAAAGGTTTACTTGATGTCCAGGTTGGGGTCCAAACCCAAGTTTTCTTAGTGATCAGTTATTGTGATTGTATCAAATCTAGAATCTTGTCTTATTGATGAGATGAAATGGTATCAAAATCTATCTGCAATTCTCATTTATGCCACAGCGCACAAACACCGCACCTGGTGCAGTGAGCCCGATTCACATTGGTCACCCTGATGAGGCAGTGCTGTGCGGGGAGCACAGTGTAACTGCTGAGTGGTACGGTTTCCGTGGTGACCGTAGGTACTGAGGCTAGTTAGTGCTGCTGGCTGCTCCTCAGACATGACAGTGGCAGATGCCAAGGCATGTGCCTTTTACCACAGTTTACAGGTAGAGAATAAAAGACTGGAGAAGACCACAGGATAGCCAGTGTAAGATATTTGTACGCATTTCACAGAACTTGGGAGATAAAAATCATTTTGAATCTATTCTCTGTGGGAGAAAACCTTTGTTAGTATAACCTTTTTTAGTTTAATTTTATACTTTCTTCCTATAGTTAAGAGTAATATAATTATCAGTCACAGAATTACTCTAAAGGGAAACCGGCCTTACTATTTTAATTATGGAATTACACTAATAAAAATGAAGTTACTTATTTTTAAATCTTTCCTTTTAAAAGAAAAGGCCAAGGACTCAGCAGTAGGAGCACTGGCTGCTCTTGCCAGAAGAACTGGGTTCAGATCCCAGCACCCACACAGCAGCTCACAGCCACCTGTGAGTCCGGCTTTGGGATCCGCTGTTTCTGTAGGCACCTGTGCTCGTGTGCCACCGACACACAGTTAAGATGTTTTAGGTCTGTACAAAGCCACTGTGCAGGAGCTCTGATGGCTCATGTCTCTGTCCAG
Seq C2 exon
GTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGAAACGGAGAAATGATTAAGAAGATCCAGAATGATGCTGGTGTGAGGATCCAGTTCAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009139:ENSRNOT00000021871:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.181
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.3),PF0001324=KH_1=PU(3.2=5.7)
A:
NA
C2:
PF0001324=KH_1=PU(56.7=97.1)
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:
CAAGCAAGAGAAATGGTCTTAGAA
R:
TGGTTTGAACTGGATCCTCACAC
Band lengths:
207-1339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]