GgaINT0058190 @ galGal3
Intron Retention
Gene
ENSGALG00000005716 | SBF2
Description
NA
Coordinates
chr5:10083124-10083900:+
Coord C1 exon
chr5:10083124-10083237
Coord A exon
chr5:10083238-10083771
Coord C2 exon
chr5:10083772-10083900
Length
534 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CTTTTCTATCTTTAATGCAGGCA
3' ss Score
8.54
Exon sequences
Seq C1 exon
GATAAAGAAGTGCGAGCAATTTTCCTTAGGCTATTTGCACAACTTTTCCAAGGATACCGGTCATGCCTTCAGCTGATCAGAATACACGCTGAACCAGTCATTCATTTCCACAAG
Seq A exon
GTAAAGAAGAAGCAGTTATTTTTATTTGCCTAGCATTAGTAGTTGTGTTATTACCATGTGCTTGCCTTTTGTATAAGTGTTTACAAAACTGAAAGCTAAACTTCAGATGTTTTTTAAATTGCTATTGACATGGAAAAATTAATCAATATCATTTTGGCATAGCATAAAATCAGTGCTTTTTAGTGGGATGAATTGTGGAGGCAGTGATAAACATGTAGCAAATAACATTAAAATTCATTATAAAGAAACATTTGGGGAATAATCAAGGAATTTTGAAAAGGCGTATGTTTTTACAAGGCAATGATTGAAGGTGACAGTTCTGTTTTATTACCTGTGAGATTCATAAATGTGTACATCAAAATCTTGTTGCATCACACCTGGTATAAATACAGGTATAAAAAGTAAAAAGTTTTAATTAGAATGTACCTCATTTACTGCAGTCTGCTGAAAATGCATAGTTTACTTGTACAAACATAGTTGTTTCTATTTTTGATACTGATAAAATAGTTGCATTCTTTTCTATCTTTAATGCAG
Seq C2 exon
GCAGCCTTTTTGGGTCAGCGAGGCTTGATTGAGAATGACTTTCTAACCAAAGTTCTCAATGGAATGGCGTTTGCTGGTTTTGTGTCGGAGAGGGGTCCTCCCTTTAGAGCCTGTGATCTTTTTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005716:ENSGALT00000009170:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=FE(52.9=100)
A:
NA
C2:
PF0345514=dDENN=PD(42.9=69.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGTGCGAGCAATTTTCCT
R:
CTCATCAAAAAGATCACAGGCTCT
Band lengths:
238-772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]