GgaINT0109006 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:26093783-26094178:+
Coord C1 exon
chr1:26093783-26093956
Coord A exon
chr1:26093957-26094071
Coord C2 exon
chr1:26094072-26094178
Length
115 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
AATTATTTCTGTCCTTTCAGGAG
3' ss Score
9.95
Exon sequences
Seq C1 exon
GCAGTACAATGCCAGCAAGAAAAATGTGTGGCAATCCTGCTGGAGCACGGTGCTGATCCGAACTTGGCAGATGCTAACGGCAACACTGCCCTTCACCTGGCTGCTGTAGCTCCTAACACATTTCTAGCAGGGATGTTAATTGAGCACAATGCCCATATTGATGCTCAGAATAAG
Seq A exon
GTACGTTTTGGGATGAGTTAGGGAAGATCTTTCAGAAAGTTGCATCAATATTTTTATTGAAGATTTTTTGTTTGTTTCTTTTGATTTTTAACCTGAATTATTTCTGTCCTTTCAG
Seq C2 exon
GAGGGATGTACTCCCCTTACTCTTGCTGTCTCTGAACATCATCAAGAGATGGTAGAGCTCCTTCTTAAAAAAGGAGCTGATGTTAATGCTCGAGATCTGTGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.028
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(25.0=24.5),PF0002325=Ank=WD(100=35.1),PF138571=Ank_5=PU(27.3=16.0)
A:
NA
C2:
PF138571=Ank_5=PU(27.3=41.7)
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:
CCAGCAAGAAAAATGTGTGGCA
R:
TCGAGCATTAACATCAGCTCCT
Band lengths:
256-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]