GgaINT0124128 @ galGal4
Intron Retention
Gene
ENSGALG00000003181 | SURF2
Description
surfeit locus protein 2 [Source:RefSeq peptide;Acc:NP_001039294]
Coordinates
chr17:6873898-6874629:+
Coord C1 exon
chr17:6873898-6874001
Coord A exon
chr17:6874002-6874425
Coord C2 exon
chr17:6874426-6874629
Length
424 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCAATCCCTTGCACCATTAGATG
3' ss Score
5.48
Exon sequences
Seq C1 exon
ACATCAGCTGTTCTGCAAACTCACTCTCAGACACATCAACAAGCTTCCAGAGCATGTCCTGCGTCACGTCCAAGGGAAACGCTATCAGAAGGCACTGAAAACAT
Seq A exon
GTAAGTTGGCTGGCTGTACCTTCAGAAAAGCTGCTTTCTCCCCTGAGCTGCTGAAGTTCCAGTAGCTGTATCTGAAGGGAATGGCTAAGTTTGCTCTCGTTGACAGTTCACTGCAACTGCTGTGTGGGTGCCTCAGCTGGGAAGGAACATCCCGAGTGTAGGGATCAGCTGGCTTCTTTAGCAGATACTGTGGAACATTCTTACTTGGAAGGAGTGGTACAAAAGATTCCCCATAGTGGGGATTAACACGTCCAGCAGAGTGTTAACATCTTTCATGGTCTGCAGTATCACATAGATGATGTGAACGTGTATCGGAGCTTGATGTGCTTCTGGGTCGCATTCAATATAAAGTGGACCTGGAAGTAAGTAGGACTCAGGGATTGGGTAGCTATGCTAAGTGCTGCTCAATCCCTTGCACCATTAG
Seq C2 exon
ATGAGAAGTGCCAGAAGGAAGGGGTGAAGTATGTCCCTGCCTGCCTGCGGCAGAAGCAGCAGCGGAGACAGCACGCTGACGACCAAATGGATGGGAGCAGGCAGCCCCACAGAACAGAAGAATTCTGGGAGCCAAACTCTCCCAGGACAGATGAGGATGAGGATGGAGAGGAGACGGACGACAGCATGAGCGATCTGTACCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003181:ENSGALT00000034772:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.797
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(13.4=100)
A:
NA
C2:
PF054776=SURF2=FE(26.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCTGTTCTGCAAACTCACT
R:
GGGTACAGATCGCTCATGCTG
Band lengths:
303-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]