GgaINT0124126 @ galGal3
Intron Retention
Gene
ENSGALG00000003181 | SURF2
Description
NA
Coordinates
chr17:7539231-7539772:+
Coord C1 exon
chr17:7539231-7539358
Coord A exon
chr17:7539359-7539617
Coord C2 exon
chr17:7539618-7539772
Length
259 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CCGACACTCCTCGCTCTCAGGTG
3' ss Score
8.51
Exon sequences
Seq C1 exon
AAAGTGGGGGTTTGCGGTGCGGCTGTCAGCGCGGCGTGGCCATGGCCGAGGTGGCTCAGGAGGTGCCCGAGGAGGTGCGGCTCTTCTTGCGGCAGCACCCGCTGCTCAGCCTCGCGGAGTCGGGCAAG
Seq A exon
GTGGGCAGGAGCAGTCCGCGGATGGAGTTGGGGGGGGAGGGGTGCTGGGGCCGCGTTCCCTGAGGAGAGGCTGAAGCGCTTCCCATGAGGGGCCGTGAGGGGAACGAGGCCGCCTGAGCTCAGCCCCCAGGCCGGAGGGGCTTCTCCCGCTTTGTGAATCGGGGAGGGTCAGGGAGGAGGGCCCTGGAAGGAGTTGAGGTCTCCCCTCCCCTCGCCTGGGTCATCCCTGGGCTCTCTGACCGACACTCCTCGCTCTCAG
Seq C2 exon
GTGCGGTGCCGGCTGACGGGCCACGAGTTGCCGTGCCGGCTGGCGGAGCTGCAGGCTTACACCGACGGCAGGAAGTACCGGCGGCTGATAAAGACATCCAGAGAGTTTGATTATGGCACCTTCGAGCCCCATATAGTGCCCAGCACAAAGAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003181:ENSGALT00000034772:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF054776=SURF2=PU(9.2=82.8)
A:
NA
C2:
PF054776=SURF2=FE(19.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGTGGGGGTTTGCGGTG
R:
ATGTTCTTTGTGCTGGGCA
Band lengths:
283-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]