GgaINT0124129 @ galGal3
Intron Retention
Gene
ENSGALG00000003181 | SURF2
Description
NA
Coordinates
chr17:7540480-7541445:+
Coord C1 exon
chr17:7540480-7540683
Coord A exon
chr17:7540684-7541275
Coord C2 exon
chr17:7541276-7541445
Length
592 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GCTAAACCTTTGTATTTTAGCTG
3' ss Score
5.59
Exon sequences
Seq C1 exon
ATGAGAAGTGCCAGAAGGAAGGGGTGAAGTATGTCCCTGCCTGCCTGCGGCAGAAGCAGCAGCGGAGACAGCACGCTGACGACCAAATGGATGGGAGCAGGCAGCCCCACAGAACAGAAGAATTCTGGGAGCCAAACTCTCCCAGGACAGATGAGGATGAGGATGGAGAGGAGACGGACGACAGCATGAGCGATCTGTACCCAC
Seq A exon
GTGAGTAAGAACATTGCTATCAGGTGTGTCCTAAGGCAAGTTTGTCAGCTCATTCTCTCCCAGTGCCTTTATACTGCTGCTCTGCTCACATGCTGGAGATGTTACTTCCATCCAGTTTGAGGTTCTTGCATTTGGAAAAAGCTTCCCTCTGCCAAATGTGAAATAGCAGTTATCACACAGTAATACCACAGCTGGATCCTGTATGGTGTGAGGGGAGGGATACAGCATCTGCTGGTTTCTGCTTTAGGTATCACTGCTTTTCTTGTATCTCAGCAAGTCCTCCAGCCTGACAGGAGTTGGTAAGGCCATTCCACTCACATCTGGAAAATGCTGCCTTGCTGTAGGAGAGCAGAGCTTTAAGACCCCAGAACTGCCTGTGTTGCCTGGTTCCCAGAACTGGGCTAGTGAGAACACGGGGCGTTTTTCTAGTGAAACTTCAGTGCGTTTGTTATTGAGTATTTCAGTAGTGACATATATGATGGGCTAATCCTTGGAGGCCAGAGTCAGCTTAGATGAGCAGAAAACAAAGTTAGGAGTAAGCAGAGCCTGTGTGCACAAAGAACTGATCCTGAGCTAAACCTTTGTATTTTAG
Seq C2 exon
CTGGACTCTTCCCAGAAAAAAGCCCAGCAGCTCCCCAAAACACAGAGGCCAACGATGGTTTTGCAACAGACAGCGAGGACGATGGGGCCAAGCTGAGTAGGGAGAACAGCGACGTGAACGGAGATGGTGGAAGAATGGAAGTGAGCAGAGCAGCTGGCAAGAGGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003181:ENSGALT00000034772:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.797 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(26.1=100)
A:
NA
C2:
PF054776=SURF2=FE(21.5=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:
GAGAAGTGCCAGAAGGAAGGG
R:
GCTGCTCTGCTCACTTCCATT
Band lengths:
356-948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]