DreINT0070514 @ danRer10
Intron Retention
Gene
ENSDARG00000029248 | fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2159]
Coordinates
chr2:8856998-8857727:+
Coord C1 exon
chr2:8856998-8857258
Coord A exon
chr2:8857259-8857566
Coord C2 exon
chr2:8857567-8857727
Length
308 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TTTTAAATTATTTTCTTTAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
ATGATGGCAGCACACCAGAAAGGATTGCTCAGATTATGGGACCCCCAGATAGAGCACAGCATGCAGCAGATATCATAACTGATCTACTGAGGAGTGTGCAGGCCGGAGGACCCCCTGGTCATGGTGGTGGTGGCGGTGGGGGCGGCGGCGGCAGAGGAAGAGGCCGTGGACAGGGAAACTGGAACATGGGCCCTCCTGGTGGTCTGCAGGAATTTACTTTTACTGTACCTACCATGAAGACTGGCCTCATTATTGGCAAAG
Seq A exon
GTTAGTTGTTGTCACATTACACTAATACATTCCATCAGGGAGATATGTTTAGCTGTGAACATTAAAACATTGTCGCTGTTCCTCTGTTCTCTTCATACATAAATGCATAATCTTGTCTCTTCTTGTTCTGTAAATTTATCTATTTTTTTAGAAGCTATTATGCCTTACATAATAATTTTTTTTTTATATAAGTTAATAGTTTTTTTTTTTTTACAAACCTAACCACATTAAATGGACAATGAGAAACACAAATACAAGCCTGGAAAATGAATAAACATTGTTTTTTTTTTTTAAATTATTTTCTTTAG
Seq C2 exon
GTGGTGAAACTATTAAAAACATAAGCCAGCAGTCTGGAGCCAGGATAGAATTGCAAAGAAACCCTCCTCCTAATTCGGATCCTAATATAAAGATCTTCACAGTCCGTGGGTCACCCCAACAAATTGATTATGCCAGGCAATTGGTCGAGGAGAAGATAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029248:ENSDART00000081442:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(39.7=28.4),PF0001324=KH_1=PU(25.8=19.3)
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:
TGATGGCAGCACACCAGAAAG
R:
GGATCCGAATTAGGAGGAGGGT
Band lengths:
342-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]