DreINT0106236 @ danRer10
Intron Retention
Gene
ENSDARG00000009341 | nrap
Description
nebulin-related anchoring protein [Source:ZFIN;Acc:ZDB-GENE-060616-224]
Coordinates
chr12:30499300-30499904:+
Coord C1 exon
chr12:30499300-30499611
Coord A exon
chr12:30499612-30499751
Coord C2 exon
chr12:30499752-30499904
Length
140 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGA
5' ss Score
4.22
3' ss Seq
TTGACTATCTCTGGTTGCAGGTG
3' ss Score
8.94
Exon sequences
Seq C1 exon
TTCCGCTATAAGGAGGCATTTGTCAAAGACAAGGGCCATCAGGTGGGCCTCCTCAGTGTTGAGGACGACCCCAAGATGAGACACTCGCTGGCTGTAGGGAAGCTCCAGAGCAACAATGAGTACAAGAAGCAGTTCAAGGAGACGCGCTCTCAGTTTAAGATCAATGCTGACCTGCCTGAGTTCCAGCACGCTAAGAAGAGCCAAGCTCAGCTAAGCAACATCAACTACCGCCAGCAACTTCATGACTACACCTGCGATCCTAACCAGCTCAATGTCAAACATGCTAAACAAGCCTACCAGCTGCAGAGCGAC
Seq A exon
GTGAGACTGAGCTTTAGATTTATTCTGTTACGCAGATTCTGTTAAATATGTGGAACTTAATTGACAAAATTTAAAAAAAATACATCTTGTTTGGGAATTTTCCTCATAAAGCAGGGTTTATTGACTATCTCTGGTTGCAG
Seq C2 exon
GTGAACTACAAATCAGATCTGAACTGGATTAAAGGTGTGGGCTGGACCCCACCAGGCTCTCTGAAGGTAGAAATGGCCCGCCGAGCTGCAGAACTGGGCCTTGCCGAAGGAGTAACAACTGACGAGGCTATTGCGCAGTATCAGCAGCTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009341:ENSDART00000124920:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=10.6),PF0088013=Nebulin=WD(100=27.9),PF0088013=Nebulin=WD(100=25.0),PF0088013=Nebulin=PU(53.6=14.4)
A:
NA
C2:
PF0088013=Nebulin=PD(39.3=21.6)
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:
CATCAACTACCGCCAGCAACT
R:
AAGCTGCTGATACTGCGCAAT
Band lengths:
244-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]