GgaINT0107554 @ galGal3
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
NA
Coordinates
chr1:70749623-70751007:-
Coord C1 exon
chr1:70750870-70751007
Coord A exon
chr1:70749827-70750869
Coord C2 exon
chr1:70749623-70749826
Length
1043 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TCTTATCATTTCCCATCTAGACA
3' ss Score
7.69
Exon sequences
Seq C1 exon
ACAACTGCCAGGTGACTTTTGTGAATCTCAAGTGTGATTCCTCCAAGAAAAAGCGCCGGGGCCGCAAGTCACCATCAAAAGAAGTGTCCCATATCACTGCAGAGTTTGAAGTGGAGATGAAGTCAGAAGAAGTCTCAG
Seq A exon
GTTTGTGAAAGATCTCTAAGTCTGCAGAGAGAAACCATAATTCAATTCCTTAGTGTGTTGTTAGACTCTCTTTGATGCTATTTCATCAAGCTGCTATGTGAAACTTTTAGCACAAGCTTCATTCAACAGCCTTTCCAAACTCAGTTTCCAAGATTTATTGAAAGGAATTCAGTATGAAATTAAGCCAAAGAACAAAGATTGGACCTACAGCAAAATTCCCTCGAGGCCTGGAGCTAAGTCTTATATTTTAATTTAGTCTGATTTCCTCAGACAACTGAAGTGCTAATTGATGCACAGAGAATGTAAGGATTAACCAGAAGTTTTGTTACACCGACCCTAAAAATATCCTCCAAAATGTAAGTTGCTGAAACTTCAGTCTGAGAATTGAACATTTTTATCACACATTTGATAAATTCATGTATTCATAACAAACTTCAGGAAGAAAAAGAATCGCTTCAGGTTATTCATGATATAGGATATTATGCTGTAAAATTCAGCCAAAGAAAATGTAGGTTGAATTCTATAAACATGTCAGTCTTCAAAGGTAGATTTCTTTACCTGTGAGGGTTATCTCAGTAGCCAGGTGGTTCAAACAGCCAGTTGTTCTAAAAAGCACCTTTCAGTTATGTATTTTGATCAGGAATGTGGGGAGAATTCCTAATCAACTAGAGTGCACTGAGAAAATTCAGAAACGGTGGTGGTGTCTGACGGGACACCTATGTGGAAATACACCGCAGTGAGAAATTCACCCTTCTGCTAATGGTGCACAAACCATATAGCCAGATTTCTTAATGGTTGAGGTACCAGTGCTCCATGCCCACTTGGAAGCCGTGCAGCTCAGTTTGATGGACATCGGCGTACTACTGTCTCGCCCCTCAAAAGGCCTGATTTTAAACACAGTGAGCTGCTTCTACGGTTTACATGGAGAACCCAATGAAGCAAACAGAGGAGTCATATTGCAGTGCAGGCTGAGCTTTTTGTTAAGCACCTCTTTTAAGCATCAATCTCAATTGCTTCTAGTTTTCTTATCATTTCCCATCTAG
Seq C2 exon
ACACCTGTAACATTGACTGTGTTCGGAAAAGGATGGAGCAGAAGCTGCAAACTGCAATCAAAACATTGAGGAAATCTATTAATAAACAGCAATTTTACATTCAGTTTTCTGGGACAGAATATGAAGTGGCTCAGAAGCCAGCTAAAGCTACTGAAGGGCATGAAGCTTGCAGTACGGGGCAAGTGCTGCAGGATGGAAAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.383 A=NA C2=0.072
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACTGCCAGGTGACTTTTGT
R:
CGCATTTTCCATCCTGCAGCA
Band lengths:
342-1385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]