RnoINT0062940 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257445020-257447891:+
Coord C1 exon
chr2:257445020-257445094
Coord A exon
chr2:257445095-257447745
Coord C2 exon
chr2:257447746-257447891
Length
2651 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGC
5' ss Score
6.57
3' ss Seq
AGTCCTCTGTTTTCCTGAAGGTC
3' ss Score
8.34
Exon sequences
Seq C1 exon
GAGATCAGCAGAATCCAGCTCCAGCTGGACAAGTTGATTATACAAAGGCTTGGGAAGAGTACTACAAGAAAATGG
Seq A exon
GTATGCTGCAAATTTTAAGTATCCTCTTTTTATTTGATTAATTAAGCTGAAATAAGTACACATTACAAAGTTAGCTTTTTGGTAATAAAACATTTGCTTGGTTTTTTTTAAAAATGCTTTAGATAACTCATCAATCTTTTTATAATGTTGAAATTAAGAATATTAAACAAGCTGGGCATGGTGATACATGACTTTAATCCCAGTGCTTGGGAGGTAAAGGCAGGAAGATCTCTGAGTTTGAGGCCTGCCTGGTCTACAAAGCAAGTTCCAGGACAGTTGGGACTGTTAGACAGAGAAGCCCTGTCTTGAGAAAAATAATAATAAACAGGAAGGATGCCATTCTAAAACTTGCTGGGAAGTTAAGCATATTTAGGACACTCGAAGCAATTGTTACAGGTGTGCTTATAGGACAAAGAAATGCAATTGCCAGCAAGTACATAATTAAAACCTGAAGTTTTCTTACTAGGAATTAATATATGGCTGTATTACTGTGCTTTTGTGTAGTCATCTAAATGGGATGAGATTAGTGTTAGACCAGCCAAGTAGTTTATCACTGATTTTACTGCAGAATAAGCAGGAAATTAACCAATGTCAGGAAGTGCATTGCTTTAATACTAAACATTTATTTGTGTGTGCATTGGAAAGGGAATATGAGTGACCTTCCTGTAAAAAGATTTAACAACTATTGAGCATAATTGTTAACATAACCAAAATGGTTGTGTATGGATTTCTTGCTGGTGATACAGCTTTCTACAAAACTGCTTTCAGACTAAAGAGGTTTTTATTTGAACAACTGTTTGGGGAAGTGATGTGATGACATGCTCCTGAGATGAACAGGTGGCCTAATAACTTTTCTTAACCTCACTAATCTCAGGCAGGTTATGGCACTAGAAACTTGAAACCTTAAAACAGTATTGTGTGAAATTACATAATGATTAGGTAATTTCTCAACTAGGATATTTTTGAGAATATATGGGAATGTACTGATCATTCCGTTATAGTCGGTGGCCACAATATAAACCATGCTGAAATAACGCTACTTGTTTATAAGAAATTGAGCATGTTGCGGCAAAAGTGCATTATCTCCATTGTTTATTTTTGCTGTGTGATGCACCAGATCTATTTGTTTTGAGTACAAACCTGGTAACAGAATTAGGTAATTAGGACAGTGTTGGCCTCTGTGCTCCATTATGTCCTATTGTTTGTTTACCTGACTTTAGCTGTTTTCATTCTGTGTTCTTAAGAGTGTGTTGGCCAGATCCTTCCGTACTTAACACAGTCAGGTCTGGAGTTTATGTTATCCGTCATTATACAGACAACACACACACACACACACACACACACACACACACACGGCACAAAAGTCACTGTTCTAGGTATTTAATCATTGAGTATTTTTAATTGTATGGTAGTTATGAAAATTCTTTTTTCCCTGTAAAACATTTAACTACAGTATTTTCTAAAAGTATGTCCTTAGTCTTTTTAGAGACCTTAGGTTCAGTCTAGGACCTAAAAAGGTAGACAGGTAAGAAGTTTTAAGGACCTGGATTCAAATCCTAATTACTCACCAGTGAGACTGCTCCATTGAGTAAAAACACTTGTGCAAAGATTATTGGCCCTGGTAATTGAGGAAGGCATGTACTTTGCAGATTTCTAACTCTACACACATACATGGCCTGTGTAACTGAGCACACATATCCCATACATAGCAATACAGTGCTAAGGACGAGTATGGTGGACTCTGAAGGCAACTAGTATTTACCTTAGAGCCCAGAGGAAGTAAAAGTTTTAGAAATTTTAAAACATTAAAAAAGTTAGAAAACTCTATATTGTTGACAAACTTGGCCAATGTGTTCAGCCAAATGCTTTTTGTTTATATTTTATGCCCTTATAAAGCAAGTTGCAGAGCAGTTTGTTTTAAATATATTGAATAATACCTCAGTTCTTAGCTATTGTAGTGTTCCTGTCAAGAAACTGTCATTTGCACTTAACTTGCTTGTTTACAAAATCTGTTCAATATTCCTAGAATTCAGTTTTTATTTTCTCATTTGATAACTCAAAATGATCACTCTGTCCAGAATGAAACAAAGCAAAATTACTCACAAAAGCTGAGTTTTACATCTTTCCTTTATCTTTATTTCAGATGCCAGGTTATTTTTAGTCAAGCTATACTGTGATACGAACACAGTGTGTCTTTTGTGTCCTGGGGTGGGTGAGTGTGTGTGTGTGTCTGTAGTTTAATACTAGTCGTATAACATGACGCAAATGGAGAAAAGAATAGTGGGCTAGGTGTAGTGGCATAATCAGGCGTTCAGTCCTAGCACTCAGGGGGCTGAAGCAGGTAAATCTCCAAGGATGAGGCCATCCCTGAATAGTCAGACCCTTTCTCAGTTACCAAAAAAGACAAGACAAAAAACATTTCTTGTCAAAGATTATGTCTGAATGTTCCCCTTTGTTTAAAGGTATGTATGTGAGTTTGAATCATTTTGTATTAAAGTTTAGGGGGGCGGTAGGTCATATGGGCGGCACAAAATTATTAAAAAGGTTAAAAGGAGTATTACAAGAAGCAAAATAGTGTCTTTACTAGAGAGGGGGATAACTATGAGATTTGTAATTATAGTTGCAGCAATGAGTCCTCTGTTTTCCTGAAG
Seq C2 exon
GTCAAGCAGTTCCTGCTCCTGCTGGGGCCCCACCAGGTGGTCAGCCAGATTACAGTGCAGCCTGGGCTGAATACTATAGACAGCAAGCAGCATACTATGCCCAGACCAGTCCCCAGGGAATGCCGCAGCATCCGCCAGCACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=0.776
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(75.9=84.6)
A:
NA
C2:
PF090055=DUF1897=PD(20.7=12.2),PF090055=DUF1897=WD(100=67.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]