HsaINT0112854 @ hg19
Intron Retention
Gene
ENSG00000162614 | NEXN
Description
nexilin (F actin binding protein) [Source:HGNC Symbol;Acc:29557]
Coordinates
chr1:78383251-78383723:+
Coord C1 exon
chr1:78383251-78383442
Coord A exon
chr1:78383443-78383644
Coord C2 exon
chr1:78383645-78383723
Length
202 bp
Sequences
Splice sites
5' ss Seq
GAGGTTATT
5' ss Score
2.73
3' ss Seq
TAATTTATTTAACCATCTAGATT
3' ss Score
4.87
Exon sequences
Seq C1 exon
ATTCTGCTTTCTTCATCTAAACCTGTCCCAAAAACCTATGTACCAAAACTTGGCAAGGGTGATGTAAAGGATAAGTTTGAAGCCATGCAGAGAGCCAGGGAAGAAAGAAATCAAAGGAGATCTAGAGACGAAAAACAAAGAAGAAAAGAACAATATATTAGAGAGAGAGAATGGAACAGGAGAAAGCAGGAG
Seq A exon
GTTATTTTATTTTACTTTATTCTCGTGAAAATATTTGTTTGCATTTTTTCATTTAAATTGTATTTATTCACATTAACCACATTTCACATTAACTATAACTAAAATACTTTTCTGTATTTGTAACCTAATTTAAACTCTGCATATAATGTGATTTAGTCTAATTTTTGGACATGTGCTCACATTAATTTATTTAACCATCTAG
Seq C2 exon
ATTAAAGAAATGCTTGCTTCTGATGATGAGGAAGATGTATCTTCTAAAGTAGAAAAGGCTTATGTTCCAAAATTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162614-NEXN:NM_144573:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.919 A=NA C2=0.815
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCTTTCTTCATCTAAACCTGTCC
R:
CTGTTAATTTTGGAACATAAGCCTTT
Band lengths:
269-471
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)