DreINT0103978 @ danRer10
Intron Retention
Gene
ENSDARG00000057317 | nexn
Description
nexilin (F actin binding protein) [Source:ZFIN;Acc:ZDB-GENE-041114-92]
Coordinates
chr8:18486398-18487560:-
Coord C1 exon
chr8:18487369-18487560
Coord A exon
chr8:18486446-18487368
Coord C2 exon
chr8:18486398-18486445
Length
923 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
TTTCACGTTGTGTCTTTAAGAGC
3' ss Score
7.17
Exon sequences
Seq C1 exon
GTTATAAATAGTGACGATGACATCCTGCTGGCCATGATCAACTCAGACGGGGCCAAACCCGGGAAGTTGGCCATTAGCTTTGAGGATTTGGAAAGACAGAGACAAGAAGAGGAGCAGAAACGCAAAGAGGAGGAGGCCAAGCGACGCCTGGAAGAGGAGAAAAGACTCTTCGCTGAAGCTCGAAAGAGCATG
Seq A exon
GTAGGACATGCACGAGATGTGTAACATGCTGCATTTGTTCATGTGCAGTGTGTTTGCATGCACTAACTCATTTAATGCATTTATATTTAACATACAGTGCTCAACATATAATACACCGCTCACAAATCTCTCATTTAATTAATATTTTCTATAGGAAGCTTTAAAAAATTAAAATTTGTGCAGAAACATTAGATTAGCCAATACTGAAGCCTAATCTGGAGCCAATCTAACAAAATAACTTTTAATAACAGAAAAAAATTTGTACATCCAAATTTAAATATTAGGGACAAATATTAAATAAAATATTTTAAAAATAGCAAAGTTTAAGAGAAACCAAAAATGTATCAAATTTTGTTGAATTTGTGTAATTTTTAAAAATATTTTGCATTAATTTAAATGTGTTATCTTTCTATTTTTAAAGATTCTGTGACTAAAATAATATTTTAATAAATATATCAGTATAATAAATCTGTTTTGTTCAAATGCACACAAATACATTACCTATGCTCACTGAGAAATGGATAATGGGGTGTACTTATTTATGTTGAGCACTGTAATTGTACCAGTGAAAATATATATTTGCTGTTCTGCTGTATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAACAATAATAATAACAATAGTTTAAACATTTTTTTCAAGGCTATGCATGCTTATTGTAATTTAATCTGCTCATAATATTTATATCATTGAGCACATGTGATTTAGCTAATAGCTCATAACCATTGTCCATTTCAGCACATTAACTTACTTTAGGACTCTAACGACAGTATATATATTAATGTAAGCATAACTCATATTTAAATGACCAGTGTGCTCACATGGTATACCTGCTGCAGTGCTTGTTTGTTATGCTTTTCACGTTGTGTCTTTAAG
Seq C2 exon
AGCCCTGGAGTGGATCAGGATAATATGACTGGATGTGGAGATAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057317:ENSDART00000148802:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATAAATAGTGACGATGACATCCTGC
R:
TTCTTTATCTCCACATCCAGTCAT
Band lengths:
238-1161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]