GgaINT0058187 @ galGal3
Intron Retention
Gene
ENSGALG00000005716 | SBF2
Description
NA
Coordinates
chr5:10079896-10080801:+
Coord C1 exon
chr5:10079896-10080004
Coord A exon
chr5:10080005-10080687
Coord C2 exon
chr5:10080688-10080801
Length
683 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TTTTTGTTTGTCCCTTACAGTTA
3' ss Score
10.71
Exon sequences
Seq C1 exon
TTATCCGTATATTCCAATTCTTCCTGCACAGCTATTGGAAGTTCTCAGTTCACCAACACCTTTCATAATTGGTGTACATTCTGTCTTCCGTAATGACATTCATGAGCTT
Seq A exon
GTAAGTATGACTACTCAGAATGGTCATAGTGTCATCTACGGTGCAGAGATTTTCCATGCTCCAGAGGTGTTCCTATGAACTATTTATATCTTATCAAAATGTTAGTGTAAAAAAGACAATCAGGAGGAGAAGAAGCATAAGCATCAATTCTTCTATAAATATATTAAGACTGTAAAGTAAAGGAAGGAAATGATTGCACGGAGTACAAGATGGGATGGAATGGATCCGTTTCCAAGTTTGTCATGTCAGCCATGAATTTGAGAACCTCTTTTTGTGTTATCAAGTATATCCCCAGTTATTTTATGCTTAATTTTTAAGTGTGCATTTGAGAATCTGTTCCATGGTTACAGAGGTTACAGAGGCGTATAGTTTTACCTAAAAGTTGTCATCGTTGTTTCCTTTTGAAAACAGACTATCAGATATCTCAAATCACTCAACGCAGACCTGGGTCATCCACAAACACTTGGGTTTATATTCATTTTTCACAACTAGGTTCAGTAATATGAAGTATTTGGAGTATTTCCTATATAAAAAACATTCCATACGTTAAAATTAGTACTGTTTTAATTTGCTTTTATCCATTTGTATGTAGATTATAAAATCTGAACTGTTGGTTATTTAAACTATGCTCATAATATAATGCTCACAGTACTACCAATGATGTTTTTGTTTGTCCCTTACAG
Seq C2 exon
TTAGATGTAATCATTGCAGATCTGGATGGAGGCACTATTAAAATTCCTGAATGTATTCATCTTTCTCAGCTCCCAGAACCACTGCTACATCAGACTCAAATGGCGCTTTCTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005716:ENSGALT00000009170:8
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=FE(19.7=100)
A:
NA
C2:
PF0214116=DENN=PD(5.5=26.3)
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:
TATCCGTATATTCCAATTCTTCCTGC
R:
TAGAGAAAGCGCCATTTGAGTCT
Band lengths:
222-905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]