GgaINT0125469 @ galGal4
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr17:8793804-8794379:-
Coord C1 exon
chr17:8794261-8794379
Coord A exon
chr17:8793917-8794260
Coord C2 exon
chr17:8793804-8793916
Length
344 bp
Sequences
Splice sites
5' ss Seq
CAGGTTACT
5' ss Score
0.49
3' ss Seq
ATTTTGTGGTTTTTTTTAAGCCA
3' ss Score
5.66
Exon sequences
Seq C1 exon
ATGCAGCATCTCCAACATGGGAGCAGCTGGAAAATGCAATGGTGGCTGTAAAGACGGTGGTACATGGGCTGGTGGATTTCATTCAAAATTACAGTAGAAAAGGCCACGAAACTCCACAG
Seq A exon
GTTACTATATTTCATTGTGTAATATGTCTTAACGTACACTTAGTGAAATATGCAGCTCTTAAAAATTACTGTTACATTGAACTATTTATAGCCTTTTCTGTGGAATAATCAACAGTACTGTTATCTGCTGTATTCTGGTTTTGAAAACAACATTCCCAAATATGGAATACAGCGGGGCTTAATGCACTGAGATCCATACAAAAGCATAATGCCTAGCTCACCAACAAGCAATTCCTTAGTTTTTCTGATGAAAGACAGTTAAAAAATATGTGGAATATGTTTGTATGTGTATTTTAAGCCTATTTTTGTGTTTGTAAATTGAATATTTTGTGGTTTTTTTTAAG
Seq C2 exon
CCACAACCAAATAGCAAATACAAAACAAGTATGTGCCGAGACCTTCGACAGCAAGGGGGATGTCCAAGAGGAACCAACTGTACGTTCGCTCATTCTCAGGAAGAGCTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.450 A=NA C2=0.658
Domain overlap (PFAM):
C1:
PF0028516=Citrate_synt=FE(25.5=100)
A:
NA
C2:
PF0028516=Citrate_synt=PD(18.3=73.7),PF0064219=zf-CCCH=WD(100=71.1)
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:
ATGCAGCATCTCCAACATGGG
R:
TTCAAGCTCTTCCTGAGAATGAGC
Band lengths:
230-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]