GgaINT0126700 @ galGal3
Intron Retention
Gene
ENSGALG00000008936 | F1NV60_CHICK
Description
NA
Coordinates
chr17:1318628-1319043:+
Coord C1 exon
chr17:1318628-1318742
Coord A exon
chr17:1318743-1318925
Coord C2 exon
chr17:1318926-1319043
Length
183 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGT
5' ss Score
6.84
3' ss Seq
CCGTCGGCCTCTCTCCGCAGTAC
3' ss Score
9.68
Exon sequences
Seq C1 exon
GCGGCCCGTGCGCCCGGCGGCCGCGCTGCCGGTGCTGGCCGGGCTGGCCGTGCTGGTGACCGCCGCCCTCCTCCTGGTGCTGACCGCGTCCCGGGACCGTCCCGTCAGGAAGAAA
Seq A exon
GTAGGTGCCCGGGGCCGGGACGGCCGCCCCCCCGCCCTTCCCTCTGCCCGGCCGGCGGCGCTGCGCGCAGCCCGCACTCCGCGGTGAGGTGGTGGGGCAGAGCCCGCTCGGGCTCGGGAGGCGCTGAGGGACGGCCGAGCTCCGCGCCCCGGCACCCCGCCAGCCGTCGGCCTCTCTCCGCAG
Seq C2 exon
TACGGCCTGGTGTTCGACGCCGGCTCCACGCACACGGCTCTCTACGTCTACCAGTGGTCTGCAGACAAGGAGAACGGCACGGGCATCGTCTCCCAGGTGGAGTCCTGCACTGTGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008936:ENSGALT00000014522:1
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=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=PU(1.6=18.4)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(9.1=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCTCCTGGTGCTGACC
R:
ATTCACAGTGCAGGACTCCAC
Band lengths:
166-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]