GgaINT0125466 @ galGal3
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
NA
Coordinates
chr17:9504189-9505001:-
Coord C1 exon
chr17:9504826-9505001
Coord A exon
chr17:9504390-9504825
Coord C2 exon
chr17:9504189-9504389
Length
436 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TATGCATCATTGTTCATTAGGTG
3' ss Score
5.62
Exon sequences
Seq C1 exon
CTATGCAAGAGGAGGCACTGAAACTTGTATTACTGGCACTGGAAGATGGCTCCGCACTCTCAAGAAAAGTTCTGGTACTTTTTGTGGTGCAAAGGCTAGAACCAAGATTTCCTCAGGCCTCTAAAACAAGCATTGGTCATGTTGTGCAGCTACTGTATAGAGCATCATGCTTTAAG
Seq A exon
GTAAAATACAAGAATTTGAAGTTTGTTACTGTGAACAAGTGCAATTCCAAGGAACCATTCTTAAGATTAATCTTTCACCTGTAAAATGTTAAATAAATTCTGTTTCAATACTTTCAAATGGTGTAGATTATACAGTGTAAAACTGACATGAGGTTATCTGATATTTAAAGATCCCTGCAAAAGGAACAAATGGTCATGTGTTGAATCAACTCTGTAATTACCTCTCATTACTAATTGTTGTCCATCAGCTGGAAACTCTCTCTCCTGAGAGAGGCATGAAATGTAACTGTAGGCACTCCTTGCCTGCTTCAGGAAGAAATAACATGGTTTATCATAATCATGTTTGACCTTATGTGGATTCAAAAACATAGCGTTTTTTTTCTGACAGATTGGAGGTTTCTTGTTAAAGGTGTGTTTATGCATCATTGTTCATTAG
Seq C2 exon
GTGACGAAAAGGGATGAAGATTCTTCTCTGATGCAACTTAAAGAAGAGTTTCGGAGTTACGAGGCTTTGCGGAGGGAACATGATGCCCAAATTGTTCACATTGCCATGGAAGCAGGACTTCGAATATCACCAGAACAGTGGTCTTCCCTTCTTTATGGTGACTTGGCACATAAATCTCACATGCAGTCCATTATCGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:4
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=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0028516=Citrate_synt=PU(25.5=58.2)
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:
TACTGGCACTGGAAGATGGCT
R:
TGTCGATAATGGACTGCATGTGA
Band lengths:
345-781
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]