GgaINT0126164 @ galGal3
Intron Retention
Gene
ENSGALG00000008586 | F1NYB1_CHICK
Description
NA
Coordinates
chr17:2278749-2279241:-
Coord C1 exon
chr17:2278948-2279241
Coord A exon
chr17:2278858-2278947
Coord C2 exon
chr17:2278749-2278857
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
GACGGGGTTTTCTCCGGCAGTTC
3' ss Score
7.18
Exon sequences
Seq C1 exon
CAAATAGGCGGAGCCAACAGAAACCCGTATATGAGTGGCAGCGCCCGGACCAATCAGAGCTCCGTATTTTTTGAGCCTCGTTACGAGTACCCAATGCGCTGCCGCAGATGGCCGCCTGGGCGGGGAGAAGAAGGCTGCGCGCGCATTCCGCTGCTATATAAGACCTGGCGGTCGCCTAACGCCGTCAGTTAAGGGGAAGAGTGGCATTGGCTGGGTGGTCGCTGTGCCGAAGCCGTCATGAGGGAGATCGTGCACCTGCAGGCCGGGCAGTGCGGCAACCAGATCGGGGCCAAG
Seq A exon
GTGCGGGCGGCGGGGCGGGGGCAGTGCGTGGGCAGGGGCGCGGCCGGCGGGGACCGAGCACGCCGGCGCTGACGGGGTTTTCTCCGGCAG
Seq C2 exon
TTCTGGGAGGTGATCAGCGACGAGCACGGCATCGACCCGACGGGCACCTACCACGGAGACAGCGACCTGCAGCTGGAGCGCATCAACGTGTACTACAATGAGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008586:ENSGALT00000022476:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(7.2=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=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:
GTCATGAGGGAGATCGTGCAC
R:
GTGGCCTCATTGTAGTACACGT
Band lengths:
167-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]