GgaINT0115181 @ galGal4
Intron Retention
Gene
ENSGALG00000015850 | SCAF4
Description
splicing factor, arginine/serine-rich 15 [Source:RefSeq peptide;Acc:NP_001012840]
Coordinates
chr1:104013350-104013968:-
Coord C1 exon
chr1:104013792-104013968
Coord A exon
chr1:104013451-104013791
Coord C2 exon
chr1:104013350-104013450
Length
341 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CTCAGTATAAATTCTTTTAGAAG
3' ss Score
2.77
Exon sequences
Seq C1 exon
CTTCAGCAAATTCTTCAGACTTTTCAGCAGCCTCAAAAAGCTCAGTCTCCGGTCATAGATAACACTGTGATGGCTCAGGTTCAAGCTATTACTGCTCAGTTGAAAACTACAGCATCACAACCACCAGAACAAAAAGCTGCTTTCCCACAACCCGAGCAAAAAACATCATTTGACAAA
Seq A exon
GTAAGTTTTCATTTGTTCCTTGTGTGTAGTATCAATTCAGCAGGAGGCTGCTTAGTGGATACCTCAGTGTCTTAAATTTGTTAGGGGGAGAATGGTACAAGTTGCGTTTCTTTCCTTCAGTCAGAAGTTGTCTTCCCATTTTTATAGCCTTTGCATTTTCTAAAGCTTAATAAAATTGATTTTGATCAGCTGAGTTAATTTAGTATTTTTGTCCTGCTTCTGACCTTTTCTTTCATTCCAGAGTAGTTGGTTGTATAGGAAGACAACGATATTAAGGTCATTTCGTTTTCCAGTTGTGTAAACTATTGTAAAAATATCTGACTCAGTATAAATTCTTTTAG
Seq C2 exon
AAGCTGCTAGATCGGTTTGACTACGACGATGAACCAGAAGCAGTGGAAGACTCAAAGAAAGAAGATTCAGCTCCTTCTCCTTCAGTTTCTCAGCCTGCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015850:ENSGALT00000025555:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTTCAGCAAATTCTTCAGACTTTTCA
R:
AAGGCAGGCTGAGAAACTGAA
Band lengths:
278-619
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]