GgaINT0058188 @ galGal4
Intron Retention
Gene
ENSGALG00000005716 | SBF2
Description
SET binding factor 2 [Source:HGNC Symbol;Acc:HGNC:2135]
Coordinates
chr5:8561109-8562015:+
Coord C1 exon
chr5:8561109-8561222
Coord A exon
chr5:8561223-8561937
Coord C2 exon
chr5:8561938-8562015
Length
715 bp
Sequences
Splice sites
5' ss Seq
CTAGTATGT
5' ss Score
4.69
3' ss Seq
TTGTTTTAAAAATTCTCTAGGTT
3' ss Score
8.3
Exon sequences
Seq C1 exon
TTAGATGTAATCATTGCAGATCTGGATGGAGGCACTATTAAAATTCCTGAATGTATTCATCTTTCTCAGCTCCCAGAACCACTGCTACATCAGACTCAAATGGCGCTTTCTCTA
Seq A exon
GTATGTTTTGATACAAAACTCAAATTCCACTTTCTCATCACTTTTAAAAGCATGACAAAAGTATTTTAGTATTGAATTGCTTTCAAAAGCAGTGAAATATGTGATTTCAAACTATGAATCATGGCAACACTCCTCATTTTAGATTAATGTATTATCTGAAGTTAAAGTAAACATCATCAGTAATTTAATTTAATACCAAAATAAGATTTTTCTCTTTTCAAGAGGAAGGTAGGGGTTTTTCAGTCATAATTGTGCATTTGAAATGAGTTCAACCTCAGGTTTTGAGCAGCAGAGATTCATTTCAAAATCTGCCTTTTTGGAATCCATTCCAACCGTTTATTGGTCAGAAGATTAGCAAACAAATGATCAATAGCTCTTAAACTTCACTTTTATAATGCTCCTTTGTTAATATCTGAGAATAGCTGGTTCTAAGGAATCCTCCAAGTGTAGTTCAACTTTCTGACTAGGAAAAAATTCTTTTTATTGTGTTACGTAGGTTCATTGACTGTAATAGGAGTTTGTGATAACTAGCTCATGTATAGAAACAGGAAGCCAAGAAATTAATCCAACCTTTATTTCTATGAAGTCTATAACTTACCTCAGTCTATTATTTGAAGTAAACCACTGTAAATGTTATTTTGAGAAAGAATAAAAAGTAATTTGTCCTTGCCTCAGCAAAATGGGAGGGAAAAAAATTGTTTTAAAAATTCTCTAG
Seq C2 exon
GTTTTGCATCCTGATTTGGAAACAGCAGATTATGCCTTCCCTCCCCCACGAACAGCTTTATCGCACACAAAAATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005716:ENSGALT00000009170:9
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:
PF0214116=DENN=PD(5.5=26.3)
A:
NA
C2:
PF0345514=dDENN=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATGTAATCATTGCAGATCTGGA
R:
CAGCATTTTTGTGTGCGATAAAGC
Band lengths:
190-905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]