GgaINT0115180 @ galGal4
Intron Retention
Gene
ENSGALG00000015850 | SCAF4
Description
splicing factor, arginine/serine-rich 15 [Source:RefSeq peptide;Acc:NP_001012840]
Coordinates
chr1:104013792-104014579:-
Coord C1 exon
chr1:104014440-104014579
Coord A exon
chr1:104013969-104014439
Coord C2 exon
chr1:104013792-104013968
Length
471 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TATATATGTTTTTTTTGTAGCTT
3' ss Score
8.63
Exon sequences
Seq C1 exon
GTTCGCCACCCCCTCCAGCAAAGGTTGCTTCGGAGCCCTCTCAAGTCACTGCTAACTCAGTACCTACTATGCCACAGTTGCCCAGTTCTGATGCCTTTGCAGCTGTAGCTCAGTTGTTTCAAACAACGCAAGGACAGCAG
Seq A exon
GTAACCTTTTTGTATGTGAATTGGGGGAACTTGGGGAAATGGTAGTGGAAATATCCTTATTTCAAGCAAAATAAAAGACATCCCTAAATTAAGTCAATATTTGAATAGTGTGTGACCTTTCTAACTAGGAATCAGGTATTTGAGGAAAATTCAGTTATGTTTTACTAAAGAATTAGTTCTGAATTGATAGAGTCACGAAGTTTAAAAACTAGGAGTAATATATAAAATGTTGAGATTTAATGTTTGTACATGTGATTAAAAAGTTGCACTGTTGAAAGGCTTGAATACTTGAATCATAGGATGTGCTAGATTTTGTCACTGAAGTATTTTAAAATAATTCATAATTCACTCGTGATATTGGTTGCAGTCATCTTCTGCTGTAGTCTGATTTGATACAGAATTTATACCCTACAATTCTTCTTGTGCTATATAAAGTATGTTTATTTAACACTATATATGTTTTTTTTGTAG
Seq C2 exon
CTTCAGCAAATTCTTCAGACTTTTCAGCAGCCTCAAAAAGCTCAGTCTCCGGTCATAGATAACACTGTGATGGCTCAGGTTCAAGCTATTACTGCTCAGTTGAAAACTACAGCATCACAACCACCAGAACAAAAAGCTGCTTTCCCACAACCCGAGCAAAAAACATCATTTGACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015850:ENSGALT00000025555:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.596 A=NA C2=0.864
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:
GTTCGCCACCCCCTCCAG
R:
TTTTTGCTCGGGTTGTGGGAA
Band lengths:
302-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]