GgaINT0126427 @ galGal3
Intron Retention
Gene
ENSGALG00000008920 | NDOR1
Description
NA
Coordinates
chr17:1342843-1343514:+
Coord C1 exon
chr17:1342843-1342977
Coord A exon
chr17:1342978-1343436
Coord C2 exon
chr17:1343437-1343514
Length
459 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AAGCTTGTTTCTGCCTGCAGGCG
3' ss Score
7.88
Exon sequences
Seq C1 exon
ATGACAGAACGAAGACTCCTTATTCTGTTTGGCAGCCAAACTGGGACTGCTCAAGATACAGCTGAAAGAATTGGCAGAGAAGCCAAGCGCCGGCACTTCCAGTGCAGAGTGGAGGCTCTGGACAGCTATGACGTG
Seq A exon
GTGAGTGGCCAGCCAGGGAGCTGCATCAGGCAGTTCTGGGCTTACTCCACCCCCACCAACACTATTTCTGGGGCTCAGGCATCTTCTGTCCTTGCTGTGACATGTATTTCGCCTGATCCCAGCTCTGTGCCCTTCCTGAGGGCAGTTCGTGCTTAATTCAACTGAAAACCTGAAAACTGAGCAATGACTTGGGAGTCCATGCTAGGTGGCAGTTGCTCAGCCATACATTGTGTTCCTGCAAGGTAGAGCACCAAGGAGCTGATGCTGCAGTCAGCACACAGGCAGCAGATGCTGCTGCAGTGCCTGTAGAGGAGGCTGTACTGGGTAGGACTGTGGGTTTTATACTGACTGTGGTCTGTCTGTGAGCCTAATGCCATGAGAGCAGCTGGGCCTGGACAGTGAGGCACATCTGTAAGCTGCTGTCCTGAATGCACTTCCCAAGCTTGTTTCTGCCTGCAG
Seq C2 exon
GCGAACCTCATCAATGAGCTGTTGGTGGTATTTGTCTGTGCAACCACTGGCCAGGGTGACCCACCCGACAACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008920:ENSGALT00000014501:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0025820=Flavodoxin_1=PU(26.8=82.2)
A:
NA
C2:
PF0025820=Flavodoxin_1=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACAGAACGAAGACTCCTTATTCT
R:
CTTCATGTTGTCGGGTGGGTC
Band lengths:
212-671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]