GgaINT0016677 @ galGal3
Intron Retention
Gene
ENSGALG00000003075 | SLC34A1
Description
NA
Coordinates
chr13:10213634-10213976:+
Coord C1 exon
chr13:10213634-10213762
Coord A exon
chr13:10213763-10213832
Coord C2 exon
chr13:10213833-10213976
Length
70 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
GCCCTCACGCTCTCTCGCAGGCA
3' ss Score
8.29
Exon sequences
Seq C1 exon
AGCTGGGCTGCTGGGTGAGGGTCCAGTCCATCTGTGTCTCCCTTCTCAAGGTGCCTCTGATGTTTGGCTTCCTGTACCTCTTCGTCTGCTCCCTGGACGTGCTCAGCTCTGCTTTCCAGCTGGCCGGAG
Seq A exon
GTACGGCCGTGGGCAGAGGGCAGCCAGCAGCATCCCGGCTCCAGTGCCCTGCCCTCACGCTCTCTCGCAG
Seq C2 exon
GCAAAGTGGCAGGGGACATCTTCAAGGACAACGCCATCCTCTCCAACCCCGTAGCCGGGCTGGTGGTGGGCATCCTGGTGACCGTGCTGGTGCAGAGCTCCTCCACCTCCACCTCCATCATTGTCAGCATGGTCTCCTCGGGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003075:ENSGALT00000004859:3
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:
PF0269010=Na_Pi_cotrans=PU(11.8=38.6)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(33.3=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:
GTACCTCTTCGTCTGCTCCCT
R:
ATGATGGAGGTGGAGGTGGAG
Band lengths:
177-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]