DreINT0106238 @ danRer10
Intron Retention
Gene
ENSDARG00000009341 | nrap
Description
nebulin-related anchoring protein [Source:ZFIN;Acc:ZDB-GENE-060616-224]
Coordinates
chr12:30475953-30476257:+
Coord C1 exon
chr12:30475953-30476057
Coord A exon
chr12:30476058-30476152
Coord C2 exon
chr12:30476153-30476257
Length
95 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TGTGGACATTTGGGTTGCAGGTG
3' ss Score
6.82
Exon sequences
Seq C1 exon
CAAGGTTACCAAACTGAATTTGTGGGCCAGCAGTCATTTTACTCAGGCAGTGTGACGAGCCAGGAGATTGTACGTGTGTCCCAAACACAGAAGACCATTAGTGAC
Seq A exon
GTGAGTGATCTTATTCGAGGAACAAATGCTTTACATTTTTTGTATTGTTTTGTAATAAATGGATACGTAATGTATTGTGGACATTTGGGTTGCAG
Seq C2 exon
GTGGAATATAAACGAGGCCATGAAACGCGCATGTTGCAGTTTACTTCTGTTGCAGACTCACCTGAGGTGTTGCATGCCAAGACTGGAGTCTCATTGGCCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009341:ENSDART00000124920:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PU(56.5=37.1)
A:
NA
C2:
PF0088013=Nebulin=PD(34.8=22.9),PF0088013=Nebulin=PU(55.2=45.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGGGCCAGCAGTCATTTT
R:
GACTCCAGTCTTGGCATGCAA
Band lengths:
176-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]