GgaINT0076871 @ galGal3
Intron Retention
Gene
ENSGALG00000014268 | ACHA9_CHICK
Description
NA
Coordinates
chr4:70874655-70875758:-
Coord C1 exon
chr4:70875613-70875758
Coord A exon
chr4:70874810-70875612
Coord C2 exon
chr4:70874655-70874809
Length
803 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATTTTTGTATTTTTGTGCAGGAT
3' ss Score
9.45
Exon sequences
Seq C1 exon
CTGTAGAATCAGCCAAAGGGAAATATGCTCAGATGCTGTTCAATGAACTGTTTGAAGACTATTCAAATGCTCTAAGACCAGTGGAAGACACGGATAAAGTGCTGAACGTTACCCTTCAGATAACATTGTCCCAAATTAAAGATATG
Seq A exon
GTGAGTAAAAACACAGTTCTATTTTTCTAAAAATGTGCAGAAGTGTACCAACTGCTAACTTGTCTGAAGTAGGAAAGCAGCTTGCATATTGCTGTGACAACTTCTGTAAGGATTCCTCACAAGGGTCGTGTTCTGCAGTTCTTAATAGAGTCTTATCTGATTGCAGTTGTATGACTTCCATTATGTGTCTACAAACTTACAGCTGCTGAATTGTTAAGACTTTTTTTGTAGTATCAGTTAAGTGTTTGTACTGCAGCTTACAGGCAGCTGCTGCTACTAAACAGAGAGAATGGTTTTTCTAAGAAGCAATTAATTGCTCCTTAAACCCCCCTATTTTAGCTTCTAATAACTTCTTATAAACTTGGTTCAGCCAGATATGCTTCTAAGGCAAAGGAAAATTTGTAAAACTTGTCTGGAAGGGAAAAGGAAAATCACTTCTGACTTGTGAATTACAGCTTCAAGACCTGAAGCTTTCAGAGGGTTTTAAGCTTAATCTGTTGTTATTCTGGCCCTGGAAAAAGGAACTTTTTAGAGATACAGGAACCTTAAGTAACTGTATTTAAAGGCAGGGAGGGTGTAGGGAAAAGAATGCTCCTTTTGAGAGGAAGATCTGAACAAGGGAAGGACTGAATAGAGAAGCTCCCCGTAGACTGTATGTATATACCTGTGTGGGAAGTGCTGTGGACTGTCAGTATTCTGGACTGCTTTGGGCACTGCTTTAGTGCTGTACAACAAATGCTGTCAGCATCTAGAATGTACTTTTTTTCACCTTCAGCAAGAAATATTTTTGTATTTTTGTGCAG
Seq C2 exon
GATGAAAGGAACCAAATTTTGACAGCTTACTTATGGATTCGACAAAGCTGGTATGATGCATACCTCAAATGGGATAAGGATAAATATGATGGATTGGATTCTATCAGAATTCCAAGCAATTTGGTCTGGAGGCCAGATATTGTCCTCTATAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014268:ENSGALT00000023080:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.8=79.6)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(24.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAGAATCAGCCAAAGGGA
R:
GGCCTCCAGACCAAATTGCTT
Band lengths:
280-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]