GgaINT0125114 @ galGal3
Intron Retention
Gene
ENSGALG00000008952 | NOXA1
Description
NA
Coordinates
chr17:1306816-1307137:+
Coord C1 exon
chr17:1306816-1306921
Coord A exon
chr17:1306922-1307013
Coord C2 exon
chr17:1307014-1307137
Length
92 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
GTGCTGATTTTCTGCTGTAGGAC
3' ss Score
9.89
Exon sequences
Seq C1 exon
CTACAGGCATTTGGATGGCAAAGAACTAGGTGCAGTTTCGGGAGAGGAAGATCTAGAGAAGATGTGGCAGCAGCTGACAGATGGCAGGATCACACTCTGCTGCCAG
Seq A exon
GTACGTGGGCTGTGACAAGTGTCTCTGCTGTGCTGGGCCCTAATCTAGTCTCTGCTGTTCCTTGCAACCTTCGTGCTGATTTTCTGCTGTAG
Seq C2 exon
GACTCGGACTCCCACTCAGGCAGACCCATCCTCTACCGGATGCTGGCTCAGCACTCATACTCGGCACAGGGACCAGGAGACCTGGAGTTCAGCAAGGGGGATGTGCTGGATATTCTCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008952:ENSGALT00000014558:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0056419=PB1=FE(46.1=100)
A:
NA
C2:
PF0056419=PB1=PD(1.3=2.4),PF0001823=SH3_1=PU(58.7=64.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAGTTTCGGGAGAGGAAG
R:
CACATCCCCCTTGCTGAACTC
Band lengths:
182-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]