RnoINT0062941 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257447746-257449568:+
Coord C1 exon
chr2:257447746-257447891
Coord A exon
chr2:257447892-257448274
Coord C2 exon
chr2:257448275-257449568
Length
383 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TATGTATCTCTTCTGCACAGGGC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTCAAGCAGTTCCTGCTCCTGCTGGGGCCCCACCAGGTGGTCAGCCAGATTACAGTGCAGCCTGGGCTGAATACTATAGACAGCAAGCAGCATACTATGCCCAGACCAGTCCCCAGGGAATGCCGCAGCATCCGCCAGCACCTCAG
Seq A exon
GTATAATACATTTGCTAATGTGTTTTTGGTTTTATTTTTTGTTGTTTTTTTTTTCCAATCCAGCCATGTTTTCTGCATGTTTGTCTATTTGGGAATGTTTTACTTTTTACTTGGTAAAGTATAACTACATGAGAATAGTGTGTTGTGTTCGGGGATTCAGTTTTTCTAATAATGCTTTCTGGCATCTGAGTGCTATTTTTTTATAATGCCTTTGATTTTAAAAATAAATTTTCTTCCCCCCAGGGATTTGCAAATCATGCAAGAAGCCACCATCATTTATATTAACCAGTTTTTCTTTCTTAAAGGATTCACTCCTGAATTAGCTCCATTTAAAGGATTTTCTTTAACTTTTTGTGTATCTCTTATGTATCTCTTCTGCACAG
Seq C2 exon
GGCCAATAATAAGAAGTGGACAATACAGTATTTGCTTCATTGTGTGGGGGAAAAAACCTTTGTTAAATATATGGATGCAGACGACTTGATGAAGATCTTAATTTTGTTTTTGGTTTAAAGTAGTGTTTTTTTCCCCCCTCTTTTTTTTATTTTGAAAATGTACAAAATATCTATCACTACTGATAGGAGGTTAATATTTCTGTGTAGAAATGAAAATTGGTTTGTTTCAGTCTTTAGTGTAGATGTACACATTCCAGCAAATGTATTTGCAACTATTATGTGGTCGATGCTTTGTGATATAAATGTACTTTTTCAATGTATACTTTCACTTTTCAATGCCTGTTTTGTGCTTTACAATAAATGATATGAAACCTCCTGTGTCGGTAAGTTGGATATGTGGGTAACGGATGCATAGCTACTTAGCAGTGATGAATTAAGATCCATGTACACAATATAAGCTTTTCCCCATGAATTACCGAGTTTTTAAACACTGGCATGTTTTTCCCCGTTGGAGTATAGTGGTAGATTGGAGGTTCTTTTCTGTTGTATTTGGCTATTTCAGCACAAGTAATCTTGATATCTTCATTTTTTTCCTTCTATTTGATTAAAAAGCTGCATGTGTATACGATGATCTTTAGTATCGTCCATTGCATTAACAGTGAAATTTCCTTTTATACATGAGCACTGTTTCAGACCTGTACTGCTGCTACAACAGCTAACCTTCCTGTTCTTCACTTACTGCCAAGACTGTTTCAGCATAACTAATTTTGAACAGTTTTCAGACAGTGATTTGAGGAGTTTATAAGAAACATTGTTTTTCCATGTAAAGCAACTCTTTCAATGTATATATCTATATAATAGTGTGTTTCTTTTTAAATTCAGGATAGAAAAGTAATAGAATGCGAAAGTATAGCTACATTGCACCTGCCATTGAAACATTTGGGGTATGAAAATGTTCAAGCTTTTTTTTTCTTTTTGCAGTATAGATAAGCTTTGTCTTGTAATTGCACAAGTCCAGTCATTGAATCAAATTAATTTTTTATGTACTTGAATCATTTTATTAATCTTTAACATTCATGCTGAAGTTGATATTTTGTTGAAAACCATTGTTTTACTCTGCATATTTGTTGGCTCTTTGCATATTAATATATTAGACTACATGCAAATACAGTCTGTCTTGCCATTGTCTGTTGAAGTGCAGGTTTGATCCAGCCAGTATAGAACTAGCTCTGTAGGGGTGAGGAGGACTGTGCTGTGTATCATCCTTGATTGTGTTCCTTCAAGGAGCATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.776 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(20.7=12.2),PF090055=DUF1897=WD(100=67.3)
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:
TACTATGCCCAGACCAGTCCC
R:
ATCACAAAGCATCGACCACAT
Band lengths:
352-735
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]