GgaINT0125702 @ galGal4
Intron Retention
Gene
ENSGALG00000001037 | SCAI
Description
suppressor of cancer cell invasion [Source:HGNC Symbol;Acc:HGNC:26709]
Coordinates
chr17:9542917-9543684:+
Coord C1 exon
chr17:9542917-9543003
Coord A exon
chr17:9543004-9543585
Coord C2 exon
chr17:9543586-9543684
Length
582 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
ATCTGATTCTTCCTCTACAGCTT
3' ss Score
8.97
Exon sequences
Seq C1 exon
ACAAGTATTGGACAATCGGTATGGGTTGAAGCGGTGGCAAATTGGGGAAATTGCTTCCAAGATTGGGCAGCTCTATTACCATTATTA
Seq A exon
GTAAGTAAGCACAGAAAAGGATTCAGTAGGGAAATGCAGTGTTAGTAGCAGTTCCATGCTCATTATCTGCATACTCAGTCAGGGGCATGCTGAGGTAGAAATGGATGTCAGTTGAGTCATGATCTCTGAATGAGAAGGTACTTGGGGCTGCATGGGGGTGCTGCAGAGAAAGGCACCTTTGAGCCTGCTATGAGATTCCTAGAGTCACACTGATACTGCCTAAGGACTTACCTCCCACCTCCAAAGTGTCTCTAAGTCTTCCACATGTGCTGCATGTGGCTCTTGTGCAAAAGTGTGATGTACAAGTTTGGGAGCTTAATGTTCCTTTAAACTCTTGAATTAGCCTGTCACCTGTTCCTATGGGCACAAGATGGGCAGAATTTATTGTTATCAGAGATTGAATCCAAGCTTTGAAATCTGTCTTGCCAGCATACAATAAGAATGAGAGTCTGGCTTACACAAAAAGTTACTTGAGGAGAGAGTTTTGCCATTGATGCACAGAATGGTTAAGGGGGCAGGAAGGGAGGGTTTGGCATGGGTTTGCATCTGAAGCAGTGAGCTAATCTGATTCTTCCTCTACAG
Seq C2 exon
CTTGCGCACTTCTGAAACCAGCTATCTCAATGAAGCTTTCTCCTTCTATTCCGCGATCAGGCAGAGGTCATACTACTCCCAGGTTAACAAGGAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001037:ENSGALT00000001535:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(5.8=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.6=100)
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:
AGTATTGGACAATCGGTATGGGT
R:
TGTCTTCCTTGTTAACCTGGGA
Band lengths:
182-764
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]