GgaINT1026856 @ galGal4
Intron Retention
Gene
ENSGALG00000003210 | SURF6
Description
surfeit locus protein 6 [Source:RefSeq peptide;Acc:NP_001025853]
Coordinates
chr17:6858062-6858808:-
Coord C1 exon
chr17:6858618-6858808
Coord A exon
chr17:6858278-6858617
Coord C2 exon
chr17:6858062-6858277
Length
340 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
TTTCTTCCTTTTCCTTCTAGTAT
3' ss Score
10.43
Exon sequences
Seq C1 exon
GCTCTCGCACTCAAATTACTTCCGGCGCTCTGCGCGGCAGTTGGGCTCTTCCCGTTGCGCCGCTTCTCTCGGGGTCTGTCCGGTGCGAGTAGCGGCGATGTCCAGCCTGGCCGCTCAGGACGCCTACCTGCAGGGCTTGGCGAGGAAGGTCTGCGCGCAGAACGCCCCGGAGTCGCGGAAGAGGAAGTTCG
Seq A exon
GTAAGGCTGCGACTCCCGTCCCGCCGGGCTGCTGTGTGGGAACGTGGGCCTGTGGCGTGTCTGCCTCCGCCGGGTGCTCCGCCGGGGGGCGTTGTGTTGGTTTTAAGCACAGCCGGTTGGTTTTAAGCAAAACCTATGATATGGGGTTTCTTCCCTCGAAGTTAGCGGTCTCATTCATCCTTACACGTGTGATGATGGCATGCAAGTGAACGCGCTTATTGCTAAAGTGGCTCTGCTTAGGTAAATCCTTAAGGTTCATAAGTATTCAGTTGTAACTGAACGTTATTGATTGAGAATGTGGTGTTGTCCTGGTTTGTATATTTCTTCCTTTTCCTTCTAG
Seq C2 exon
TATCAAAACCAGGCCAGCCAGACGATGCTGGCAGGCAGCTCAAGAAAAAGAAGAGAAGGAAGTCCAGGAAGCAAGCTGAGAAGACAGATTTTCCTGCAGTTAAACAAGGGGTCTCTAAGACCAATAAACTTGCTCCAGGACAGAAAGCAGCCCCACAGGCCAACGAATCGTCTCCACTGGGTGTTAAGCAGAACAAAAATGAGAGTTCCGTTACAG
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=0.688 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTACTTCCGGCGCTCTGC
R:
CCAGTGGAGACGATTCGTTGG
Band lengths:
358-698
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]