GgaINT0137487 @ galGal4
Intron Retention
Description
NA
Coordinates
chr23:4313185-4314082:-
Coord C1 exon
chr23:4313810-4314082
Coord A exon
chr23:4313336-4313809
Coord C2 exon
chr23:4313185-4313335
Length
474 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
ACATTCTGACTGTGTTGCAGGGT
3' ss Score
8.75
Exon sequences
Seq C1 exon
AATTTGTTCAACAAACCTGCAGGAGTGAACTCCTCGGTCGTACCCCTGTCGCAAGGTCAAGTCATTGTAAGCATTCCCTCGGGGACAACGGTGTCAGCAGGTGGCACCACCTCCACTGCATCTCCCAGCTCCGGGAGCAGTTCAGCTGCAGCTGGTCTACAGAGGCTGGCTGCCCAGTCCCAGCAAGTCACTTTTGCCCGCAAGGTTGTAAAACTCTGGTGTCAGCACTGTAACAGATTATTTGCAACCAAACCAGAACTGCTTGACTTCAAG
Seq A exon
GTAATAAAGTCCAGCACTTCTCCAGCTTATCTTTCTCAATCAGAAAGCTCAGAAATTATAAGCTATATGCCCGTGGTCTGTTGGTATTGCTCTATTGTTTGCTGTGATCTGCTGTGAAGGAATTTGGAACCGATTTTATTATAATTTAATCATTATCAAAATTAATACTGAAAAACAGAAAACAGCAAATGAAAAACAAAAACCCCACACCCAAACCATTACTTGTCAAAATAAGCACATTCCTGATTCTTCATCCCAGAGATGATCTTTTTAATTCCTGGACAAAAAGCACATGGGTGAGGGCTTGTTGCAGAAAATTCTGCTGTCGTTGCTGAAAATCTATTTGGACTTGCTTGCTGGTGCTGTCTGTTGTTGATTTTTCAAGGGCATAAATATGCTGAGTTTTTACTAACTACTTAAATGTAGTAACTGGATGTGAAATATTGAAACCAAAACATTCTGACTGTGTTGCAG
Seq C2 exon
GGTAAAATGTTCCAGTTTTGTGGGAAGACCTGCTGTGATGAATATAAGAAGAGGAGGAGTGTAACAGCACTGTGTGAATATTGCAGAACTGAGAAGATCATCAAGGAGACAGTGCGAATCGCAGGCATAGATAAGCCATTCTGTAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003942:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PU(60.0=26.4)
A:
NA
C2:
PF064679=zf-FCS=PD(35.0=27.5),PF064679=zf-FCS=PU(85.0=66.7)
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:
CCTGTCGCAAGGTCAAGTCAT
R:
CGATTCGCACTGTCTCCTTGA
Band lengths:
350-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]