GgaINT0125115 @ galGal3
Intron Retention
Gene
ENSGALG00000008952 | NOXA1
Description
NA
Coordinates
chr17:1307014-1307792:+
Coord C1 exon
chr17:1307014-1307137
Coord A exon
chr17:1307138-1307353
Coord C2 exon
chr17:1307354-1307792
Length
216 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCT
5' ss Score
6.77
3' ss Seq
GACTCTTCTTGTTTTCTCAGTGA
3' ss Score
8.07
Exon sequences
Seq C1 exon
GACTCGGACTCCCACTCAGGCAGACCCATCCTCTACCGGATGCTGGCTCAGCACTCATACTCGGCACAGGGACCAGGAGACCTGGAGTTCAGCAAGGGGGATGTGCTGGATATTCTCTCTGAAG
Seq A exon
GTAGCTCTCCAGTCTTGTCTGCAGGCTCCCTGAAAGAGTCTGATGTAGAGAGTGATGGAGGAGTGGATGGCTTCTCCAGTGCTGTTTCAAGTTTGTGACAATAGGAGGTGCAGACTTGCACTGGGTTTTGCCCAGAGTTAACTCTGAGGCATGAAAACTCTCACTAACCTTGCTCCTATGAGCCAGAGCTTATCTTGACTCTTCTTGTTTTCTCAG
Seq C2 exon
TGAACGAGGACTGGCTTGAAGGACATTGCAATGGCAAGACTGGCATCTTCCCTAAATGCTTTGCAACCCAGACCAGTTGTGCTGCCTTCCCATAGGGAACAGGAGCCTTCTGCCTGACTGCATGAGGAGCCCACTGCCATCGGTCCCATCTGCCAGGGGTAGGAGGCAACAGTACCAGCTCATTTGGACACAGCTGGCCCAGGCAGGAGCTCTACTCAACCTGAACAGCTGTCTTGCACCGACAGATCCCATGGGATCTGTTCCAGCAGTCACTTGACAGCATTTCCTGCAGCCTGTTCTTAGAGCTGACATTTTTACCTCTGTGGTTCCACTGCCAAAGATGTTCCTGTATAGGGCAGAGAGAAAGGAGGGGTCTGGTGTTTGGCTACAGGAAATGTCCATGCGCCAGACCTCAGGAACTCAGACTGCAGGGTGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008952:ENSGALT00000014558:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0056419=PB1=PD(1.3=2.4),PF0001823=SH3_1=PU(58.7=64.3)
A:
NA
C2:
PF0001823=SH3_1=PD(39.1=56.2)
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:
AGGAGACCTGGAGTTCAGCAA
R:
GGATCTGTCGGTGCAAGACAG
Band lengths:
299-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]