GgaINT1023860 @ galGal4
Intron Retention
Gene
ENSGALG00000002486 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:HGNC:21148]
Coordinates
chr12:2349518-2350417:+
Coord C1 exon
chr12:2349518-2349643
Coord A exon
chr12:2349644-2350302
Coord C2 exon
chr12:2350303-2350417
Length
659 bp
Sequences
Splice sites
5' ss Seq
TCGATATCC
5' ss Score
-5.09
3' ss Seq
TTACCTTAACACTTGCCCACTTA
3' ss Score
-4.59
Exon sequences
Seq C1 exon
AAACGGCATCTCTCTAGGAACTGCTTTTGATAACATCACGAGAGGTGCTGGAATGGCTTACTTCCCTGCCATCAGTCTCTCGTTCAAAGAGTCTGTTGCTTTTAACTTTGGAAGCCGTCCACTTCG
Seq A exon
ATATCCTTTGGTTGTGGGGAGAGGAGGTCTGAAGGGAGAAGAGCCTGCCCTGAGACCATCTATGGAGGCTGTAGAATATCTGTATCTGAGTGCAGTTAACTTTCTTCTCTTAGTACTTCTGCTCAGAGCAGGATCAAGGAGAGAAGAAGCAGACATCCCTCAGCTGGACCACAACTGGAGGGCCCACAGTCACCTTTGCTGGCGCTAGCAATTGCTGAAATTGAGTTTACTTTAAGCTCTGAATCAACAGCTAATGCTTCAAGCCGGGGGCTGCCTGTTCGCAGGATTCAGATTGTAGAAAATCTCACTTTCCAGACCTGGAGACCTCTTGGCTTTGGGTCTGTTCAACCTCTCAGCCGTGCAGGACCTCTAGTGTAGTAGAAGCATTGCATGCTGCCTTTCTTTGTGAAAGCGGAGACCTGCAGCAGTCCCGAATGTGCCCCTTGATAACTGTCATCCTTTCTGATCAGAAGCAGGTAGGGAAGTACTTGGTACCTGCACTATTGAGGAGGAAATCTCGTGGCTTATCATGCACTTAGAAGTGCACTTTGCCTTGAACTCTGACTTAAGCATGCATACCGTAAAACAGACACTTTTCTTTGCTCAGATAAAGAAGTCCTGAAAGAATCGGATTGCATTTTACCTTAACACTTGCCCAC
Seq C2 exon
TTATCCAGTGGAAGGCTACCGCCCCTTGCAAGATCCTCCTGTTGCAGACCTCGTGAAGGCTCGCAAGCTGCTGGGCTTCCTGAAGAATGTGATCCATATCGGGATCGATGTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002486:ENSGALT00000003917:9
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:
PF0062223=SPRY=PD(32.8=93.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACGGCATCTCTCTAGGAACTG
R:
TCCCGATATGGATCACATTCTTCA
Band lengths:
230-889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]