DreINT0103973 @ danRer10
Intron Retention
Gene
ENSDARG00000057317 | nexn
Description
nexilin (F actin binding protein) [Source:ZFIN;Acc:ZDB-GENE-041114-92]
Coordinates
chr8:18496269-18496623:-
Coord C1 exon
chr8:18496539-18496623
Coord A exon
chr8:18496418-18496538
Coord C2 exon
chr8:18496269-18496417
Length
121 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTTTCTGTCTATTGACACAGGCA
3' ss Score
7.98
Exon sequences
Seq C1 exon
ATAAAGGAGCTCCTTGCCTCTAGCGATGAAGAGGAAGAGGTGAAACCCACAAAGATAGAGAAATCCTATGTTCCCAAGATCACAG
Seq A exon
GTAGGGGCCAAACGGATGGGATTTCTGCATTTGACTTTGGGATTGAAGCGGAGCAATCATTGTAACAGCACTCTAATCCCACTATAAGCACCAACTGTCAGCTTTCTGTCTATTGACACAG
Seq C2 exon
GCAGCGTGAAGGGGAAGTTTGCCGAGATGGAGAAACAGAGGCAGGAGGAGGAGAGGAAGCGAACAGACGAGGAGAGGAAGAAGCGAGCCGCGCAGGAGGCCATCGAGAAGGCCAAGATCCAGAAGGAGTTGGCCAAGAAAGCCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057317:ENSDART00000148802:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.908 A=NA C2=0.970
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGCTCCTTGCCTCTAGC
R:
CTCCTCGGCTTTCTTGGCC
Band lengths:
230-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]