GgaINT0107554 @ galGal4
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr1:68728697-68730102:-
Coord C1 exon
chr1:68729944-68730102
Coord A exon
chr1:68728901-68729943
Coord C2 exon
chr1:68728697-68728900
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
GAGGTCAATTCCCTTGTACAGACAACTGCCAGGTGACTTTTGTGAATCTCAAGTGTGATTCCTCCAAGAAAAAGCGCCGGGGCCGCAAGTCACCATCAAAAGAAGTGTCCCATATCACTGCAGAGTTTGAAGTGGAGATGAAGTCAGAAGAAGTCTCAG
Seq A exon
GTTTGTGAAAGATCTCTAAGTCTGCAGAGAGAAACCATAATTCAATTCCTTAGTGTGTTGTTAGACTCTCTTTGATGCTATTTCATCAAGCTGCTATGTGAAACTTTTAGCACAAGCTTCATTCAACAGCCTTTCCAAACTCAGTTTCCAAGATTTATTGAAAGGAATTCAGTATGAAATTAAGCCAAAGAACAAAGATTGGACCTACAGCAAAATTCCCTCGAGGCCTGGAGCTAAGTCTTATATTTTAATTTAGTCTGATTTCCTCAGACAACTGAAGTGCTAATTGATGCACAGAGAATGTAAGGATTAACCAGAAGTTTTGTTACACCGACCCTAAAAATATCCTCCAAAATGTAAGTTGCTGAAACTTCAGTCTGAGAATTGAACATTTTTATCACACATTTGATAAATTCATGTATTCATAACAAACTTCAGGAAGAAAAAGAATCGCTTCAGGTTATTCATGATATAGGATATTATGCTGTAAAATTCAGCCAAAGAAAATGTAGGTTGAATTCTATAAACATGTCAGTCTTCAAAGGTAGATTTCTTTACCTGTGAGGGTTATCTCAGTAGCCAGGTGGTTCAAACAGCCAGTTGTTCTAAAAAGCACCTTTCAGTTATGTATTTTGATCAGGAATGTGGGGAGAATTCCTAATCAACTAGAGTGCACTGAGAAAATTCAGAAACGGTGGTGGTGTCTGACGGGACACCTATGTGGAAATACACCGCAGTGAGAAATTCACCCTTCTGCTAATGGTGCACAAACCATATAGCCAGATTTCTTAATGGTTGAGGTACCAGTGCTCCATGCCCACTTGGAAGCCGTGCAGCTCAGTTTGATGGACATCGGCGTACTACTGTCTCGCCCCTCAAAAGGCCTGATTTTAAACACAGTGAGCTGCTTCTACGGTTTACATGGAGAACCCAATGAAGCAAACAGAGGAGTCATATTGCAGTGCAGGCTGAGCTTTTTGTTAAGCACCTCTTTTAAGCATCAATCTCAATTGCTTCTAGTTTTCTTATCATTTCCCATCTAG
Seq C2 exon
ACACCTGTAACATTGACTGTGTTCGGAAAAGGATGGAGCAGAAGCTGCAAACTGCAATCAAAACATTGAGGAAATCTATTAATAAACAGCAATTTTACATTCAGTTTTCTGGGACAGAATATGAAGTGGCTCAGAAGCCAGCTAAAGCTACTGAAGGGCATGAAGCTTGCAGTACGGGGCAAGTGCTGCAGGATGGAAAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.072
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:
CAGACAACTGCCAGGTGACTT
R:
GCATTTTCCATCCTGCAGCAC
Band lengths:
344-1387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]