DreINT0103970 @ danRer10
Intron Retention
Gene
ENSDARG00000057317 | nexn
Description
nexilin (F actin binding protein) [Source:ZFIN;Acc:ZDB-GENE-041114-92]
Coordinates
chr8:18483489-18483986:-
Coord C1 exon
chr8:18483792-18483986
Coord A exon
chr8:18483711-18483791
Coord C2 exon
chr8:18483489-18483710
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
ATTCCCGTGCTTTGATTCAGGAG
3' ss Score
7.73
Exon sequences
Seq C1 exon
GTGCTGGATGAGGATGAAACTCTGGTGCGCACGGAGTCACAGGAAGGATTGCACCCAGGAAAGCTTGAGATCAACTTTGAGGAGATGCTGAAGATGAAGGAGGAGACAGAGCGCAAGCGCAAGCAGGAGGCCAGACGGCAGAAAATGGAGATGGAGAAGAAAGAGTTTGAACAGTTGAGACAAGAGATGGGCGAG
Seq A exon
GTCAGCTTTGCCAATCAATTAATCATTCACTTTTCAACTTGCTTATGTGTTTATTATTAAAATTCCCGTGCTTTGATTCAG
Seq C2 exon
GAGGAGATTAATGAAAGCTCTGAGGTGGTGAGCGCAGAGTACGAGGAGCTAACCAAGTTAAAGCGAACTGGCTCCATCCAGGCCAAAAGCCTGAAATCCAAATTTGAGAAGATCAAGCAGCTCACAGAGGAGGAGATCCAGAAAAAGATCGAAGAGGAGCGAGCAAGACGGAAAGAAATTGATGAGCAAATCAAGGAGAGAGAGGCTGAGCGCTGTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057317:ENSDART00000148802:11
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=0.757
Domain overlap (PFAM):
C1:
NO
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:
TTGCACCCAGGAAAGCTTGAG
R:
GCTCACCACCTCAGAGCTTTC
Band lengths:
180-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]