GgaINT0124916 @ galGal3
Intron Retention
Gene
ENSGALG00000003210 | SURF6
Description
NA
Coordinates
chr17:7522066-7522673:-
Coord C1 exon
chr17:7522563-7522673
Coord A exon
chr17:7522265-7522562
Coord C2 exon
chr17:7522066-7522264
Length
298 bp
Sequences
Splice sites
5' ss Seq
CCCGTCCCC
5' ss Score
-15
3' ss Seq
CCTGATCAACACCAGGACAGCCA
3' ss Score
-3.65
Exon sequences
Seq C1 exon
ATGTCCAGCCTGGCCGCTCAGGACGCCTACCTGCAGGGCTTGGCGAGGAAGGTCTGCGCGCAGAACGCCCCGGAGTCGCGGAAGAGGAAGTTCGGTAAGGCTGCGACTCCC
Seq A exon
GTCCCCCCGGGCTGCTGTGTGGGAACGTGGGCCTGTGGCGTGTCTGCCTCCGCCGGGGGGCGTTGTGTTGGTTTTAAGCACAGCCGGTTGGTTTTAAGCAAAACCTGTGATATGGGGTTTCTTCCCTCGAAGTTAGCGGTCTCATTCATCCTTACACGTGTGATGATGGCATGCAAGTGAACGCGCTTATTGCTAAAGTGGCTCTGCTTAGGTAAATCCTTAAGGTTCATAAGTATTCAGTTGTAACTGAACGTTATTGATTGAGAATGTGGTGTTGTCCTGATCAACACCAGGACAG
Seq C2 exon
CCAGACGATGCTGGCAGGCAGCTCAAGAAAAAGAAGAGAAGGAAGTCCAGGAAGCAAGCTGGGAAGACAGATTTTCCTGCAGTTAAACAAGGGGTCTCTAAGACCAATAAACTTGCTCCAGGACAGAAAGCAGCCCCACAGGCCAACGAATCGTCTCCACTGGGTGTTAAGCAGAACAAAAATGAGAGTTCCGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003210:ENSGALT00000005085:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.703 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTCAGGACGCCTACCT
R:
AACGGAACTCTCATTTTTGTTCTGC
Band lengths:
292-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]