RnoINT0062964 @ rn6
Intron Retention
Gene
ENSRNOG00000009139 | Fubp3
Description
far upstream element binding protein 3 [Source:RGD Symbol;Acc:1307004]
Coordinates
chr3:10239387-10241514:-
Coord C1 exon
chr3:10241457-10241514
Coord A exon
chr3:10239550-10241456
Coord C2 exon
chr3:10239387-10239549
Length
1907 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
GATTTTTCTCCCTCCCAAAGACA
3' ss Score
6.62
Exon sequences
Seq C1 exon
AGAGTTCTGGGATTCCAGAGAGGCCCTGTGTACTTACCGGAACCCCAGAAAGTATTGA
Seq A exon
GTAAGTTTGTTTTATTTACTTTTTCCTTTCACTTCTTCTTCCTCCTTCCCCAAGTGAGGAGAAATGGAAGGGCAAAACTGTTGCTGCAGACTGTCGATCTGTGCTGAATCCACCCACAGCACACCTCCAGTAGGAGAAAGGCCTGGGAGGTCACCACACCAGGAGAGCTCTTCTGTTACCTCAAACACACAAGCCTAGAATGCCTCCTAGCTGTCATGACCTCTCCATAAACCAGGGGCTGAGCAGTGGACACTCATCCCGGCTAAGCACGCTAATCAGCAACCTCCTTGTTAACACCTCCCATACCTAAACAGGCCTGGGTCAGAGGACTTGATCACTTTGTAAGCTTCAGAAAACTGGGCCGATTGATCTGCTTGCCCTTCTGATATTTATGAACCAAGTGAATCCACTCACCTTGGCCTTTGCTCCACTCACAGAGCCCTGTGAACCAGCCAGCAGGTGCCTTGGCTTCGGAGGCCATTGGCAAGAGCCCAGATAATTTGTCTTGGTTTCCTGTCCTGATACATGCTTGCTCAGAGCCCTATACCAAACACAACGCTCATAAACCCAAGCACCCCCTGGGGAGGAGGACTGTACAGGCTGTCCCGTTTTAGTCTGTACAGTAGTGTTTTGCTAGAGGACCGGGGAGCTGAGATTATGTCTAGCTCAATAGGTAGGGTGGTTTTATTGTTTCCATTTCTCAGGGAGCCTAGATGAGTTTAAATTCTCTTGTTCTGTTGTAACATTGCAAGCGATGAACCAGAATAAATACTACTGGCAGGTGTGCATTATAGGGCAAGCTGGACGGTGGTGCTGGAGTCGAGGCATTTTCCAGCGCAGGTTAATCTAGTACACGGGCAAAATACTAAACAGCTGCTGCGGCGCCAGCCGTAAGATGATTCTGCACATAGAGGCTCAACCCTGCAAAAGACGGCTCGTCCTGCTGCTCCTCTAAATGTCCTCACTTTGTGTCTACCCAAGGAGCTCCAGCTTGAGAATTAAGCTTTAGGAGGATTCTCTCAGTCCAGCACAGTCAGTCTGTCTGGTTGATGGTCTGTCTGGTTGATGAAACTGTCTCTATCAGAAGAAGACCAACAACAAAAAAGCTGTGATGATTTAAAGAATAAATTCTGCAAATAACAGCCAGGGAAGATTCTGGTGCAGAAAAGGAAACTGGCCCAACGTGTGCCATTGTAGGCTGGGTGGTTCTGTTGCCACATTGCAGAAATGAAGACAGATAGCAGGGCTATGCAGCGCAAAGTCCCAACTGGGCTGCACCATTCAGGTGCTCCCCGGAATGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGGACACTGCCCCTCCTGTCCTGAACCACACTGGAGATATGGGCTTAGCTGCAAGTCCTAAAGCAGTGTTGCTGGCAACAGGGAGACATTGGAGTTGAAGCTGAAGTGTGGCTACTAACCCTTGCTTTCTCCATCTCTCATTGCTCCTTCTCTCCCCCACCCTCGCTAACAAGTGTGCTGAGTGTCTCCCCGTGAGGGTTGTGCTGGATTGGGGAGCAGAGGTGGCAGAGGACAAAACAATTGCTGACATTGCAAGTAGGAGGCAGGGCGCGGTGAAGATGCAGGTGCACGGGGCAGACGTGAGGGGTGGAGTCTGACAGTGGCCTGCTTCTGGGACTCCACATGGAACTAGTGCTGTGCTCTGCTGTGTGTTGCTTTTGAATTGCAGTTCCGTAGCATGGAGAATGGTTCAGACCTCCCAGGTTATGAGGCAGGAGCTGGAGCTGGATGGAGGGCTGCCTGACTCCTTTGTGTTTTCCCTGGCACCATCTCCTCTCCCAAAATGTCCTAAATATCCGTTTAATGCTGGGTCTCTTGTGATTTTTCTCCCTCCCAAAG
Seq C2 exon
ACAAGCCAAACGGCTCCTGGGGCAGATTGTGGACCGATGTCGGAATGGGCCTGGCTTTCACAACGATATAGATGGCAACAGCACAATCCAGGAGCTTCTTATCCCTGCATCTAAAGTGGGGCTGGTCATCGGCAAAGGAGGGGAAACAATCAAGCAGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009139:ENSRNOT00000021871:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(30.2=100)
A:
NA
C2:
PF0001324=KH_1=PD(9.5=10.9),PF0001324=KH_1=PU(38.5=45.5)
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:
TGGGATTCCAGAGAGGCCCT
R:
CTGCAACTGCTTGATTGTTTCCC
Band lengths:
214-2121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]