GgaINT0058205 @ galGal4
Intron Retention
Gene
ENSGALG00000005716 | SBF2
Description
SET binding factor 2 [Source:HGNC Symbol;Acc:HGNC:2135]
Coordinates
chr5:8620854-8621646:+
Coord C1 exon
chr5:8620854-8621052
Coord A exon
chr5:8621053-8621449
Coord C2 exon
chr5:8621450-8621646
Length
397 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTTTCACTTGTCAATGCAGTTA
3' ss Score
6.43
Exon sequences
Seq C1 exon
TTTCAGATGACAGTGACCTGCACACAAGTGGTACCCTAAAAGCATCAGAGAAGTCAACAATGGAGCAATTAGTAGAAAGAGCCTGTTTCAGAGACTATCAGCGTTTGGGACTAGGGACCATCAGTAGTAATACTTCTCGCTCAAAAATGGAATACTTGAGAATAACTGCACTGAACAGAATGTATTCACTTTGCAGAAG
Seq A exon
GTAAGATTACCAATTCAGACAAGCATTTGGAAATAAAGATGATGTGAGCATGGTGAGGTGGTAGGTGGTGTGTTTCAGCAGTGATGACAGCGACAGTGGGTCATCTCCACTGGTCCAGAGTATCATGCAGGCTGTTGTTTTTGGCTGGTGAAAGTGCATAGCTAATGGTGGTGACTATGTTGAAAAATGGTACTTAGTAGCTGAGAATTTTCTCTGTCAAATAGTGTTAATGTGCGCTTTGTATCCGTTGTAGTTTCTATAGAAATATAGGTGGCATTACTTTTGGAGCAGCCTGCATACATTAAGCCTGTAATTTTAGGATTTTTTTTTTCATTGTTTACAAATTTGAGAGCAGATTTAATTGTTGTTCTGTTTTGTTTTTCACTTGTCAATGCAG
Seq C2 exon
TTATCCTGGGCTTCTGGTAGTACCTCAGTCTGTTCAAGACAGCAGTTTGCAGAGAGTTGCTCGCTGTTACCGTCACAATCGCCTACCAGTTGTGTGCTGGAGAAACACAAAAAACAGTTCTCTTCTACTTAGATCTGGGGGCTTTCATGGCAAAGGTGTTGTTGGCCTCTTCAAATCCCAAAACACACATACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005716:ENSGALT00000009170:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=PU(13.0=89.6)
A:
NA
C2:
PF066029=Myotub-related=FE(14.3=100)
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:
GACCTGCACACAAGTGGTACC
R:
GCCAACAACACCTTTGCCATG
Band lengths:
351-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]