RnoINT0062935 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257436465-257437458:+
Coord C1 exon
chr2:257436465-257436606
Coord A exon
chr2:257436607-257437297
Coord C2 exon
chr2:257437298-257437458
Length
691 bp
Sequences
Splice sites
5' ss Seq
AAGGCAACG
5' ss Score
2.44
3' ss Seq
TTAGTGTCTTGTGGTTTTAGGAG
3' ss Score
7.93
Exon sequences
Seq C1 exon
GCTGGCAATCCTGGTGGACCTGGACCTGGTGGTCGAGGACGAGGTCGAGGTCAAGGAAACTGGAATATGGGACCTCCTGGTGGACTTCAGGAATTTAATTTCATTGTGCCAACTGGGAAAACTGGATTGATAATTGGAAAAG
Seq A exon
GCAACGTATTTTAAACTTTTTGTTTTGACATTGGTTTTTTTTTTGTTTTTTTTGTTTTTTGTTTTCAGGACACTTGTAAACAATACCATTTTTATTTCTTTTTGAATGCATTACAGGGGGCCTTACGCAACACCTAAAACAAGGATAATCTTTAGAGGACGTTAAAAGTGGGATTGTGTCTTGGCTGCTAGTAGGGAAAGGGAACCAAGAGTTTATCAGTTACAAGACTTGATCCTAATTCAAATGGGTTTGGCTAGCAGTTTTGTTTTGTATTTAACTTTTTTGTTACTTACAAAAGCTGTTTATTTAGACATTTTCCTGTTCTTACCCATATTAGGCGTGTACATATTTTAGTAGACTCAGTGTGCTTTGCGTGAGTCTAGATGGAAGAACAGAATAAACAGAAAGTCTTAACGTTACTGTCCAACGGAGTGCTGCAAAACTACGTAGTGGGCAAAGTAAATAGGTGCATTTTTTTTTTTAACTAGTATTTCTGCCAGGCATGGTGACAGACACCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGCAGATCTCTGAGTTTGAGGTCAGCATGGTCTGCAGAGTGAGTTATAGGACAGCCAGGGCTGCACAGAAACCCTTGTCTGGGGTGGGAAAGGTATTTCTTGCTTTCTGTGAACTTTAAAGAACTTAGTGTCTTGTGGTTTTAG
Seq C2 exon
GAGGAGAAACAATAAAAAGCATAAGCCAGCAGTCCGGTGCAAGAATAGAACTTCAGAGAAACCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(25.8=35.4)
A:
NA
C2:
PF0001324=KH_1=PD(72.7=88.9)
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:
CTGGCAATCCTGGTGGACCT
R:
CCCAATCTTCTCTTCTATGAGTTGT
Band lengths:
302-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]