GgaINT0057971 @ galGal4
Intron Retention
Gene
ENSGALG00000005892 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:HGNC:30425]
Coordinates
chr5:8960972-8961764:+
Coord C1 exon
chr5:8960972-8961051
Coord A exon
chr5:8961052-8961557
Coord C2 exon
chr5:8961558-8961764
Length
506 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ATCTGCTTTCATTTTTCTAGGAC
3' ss Score
11.2
Exon sequences
Seq C1 exon
AGGATTACCAAGAACTAATAGAAGACATCGTTCGGGATGGTAGACTTTATGCATCTGAAAATCATCAAGAAATACTTAAG
Seq A exon
GTATGTTCCTTCCACTAAAGTGTTGGTTTTGAATCAAAATGACACCTGTGTGCTAGAGAGGTTGCCTCCTGCTCTGCACCTGATCTGCTCCTTGCTAGTGGCAATAGACACATGCCGCTTTGGTAGGTGGGTAGGTTGAGTGGATGTCATTCCAAGTAGACTTTTCTTTTGCTGGATGTCAGCTCCACGGTAGTATAGTTTTCTGTGGGTTTGTTTTTTTTGTTGGTTTTTTTTTCTTTTTGATTGGTTTGTTCAGTTCTTCTGTTTTATTTTTCTGTGCTGTTTTTGGAAGTATGAGAAAGGAAGAAATCCTGTTGCTAATTAAAATAAATGTGGAATTCCAGTGATTTCCCAGGAGCCTGAATGTCAGCTTTGCTCTACCAGTCTGTGAGCTCCAGAGACATTTTTACTTAGAAAGTAAAATGTCCGTAATCTTTTACCAGTCATTGAGCTTTGGTGACATTGACCTTGTGGAATTACTGTAAAATCTGCTTTCATTTTTCTAG
Seq C2 exon
GACAAGAAGCTGATAAAAGCATTGTTTGATGTGTTGGCACATCCGCAGAACTACTTCAAGTACACAGCCCAAGAGTCAAGAGAGATGTTCCCAAGATCCTTCATTCGGCTCCTGCGCTCCAAAGTTTCCAGATTTTTGAGGCCTTACAAATAGCTGGCACTGTCCTTAAAATACTAACCAGCCCTTGGCATGCACAGAGGGGTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005892:ENSGALT00000009480:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
AAGAACTAATAGAAGACATCGTTCGG
R:
CACAACCCCTCTGTGCATGC
Band lengths:
278-784
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]