GgaINT0125478 @ galGal4
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr17:8785789-8786369:-
Coord C1 exon
chr17:8786288-8786369
Coord A exon
chr17:8785924-8786287
Coord C2 exon
chr17:8785789-8785923
Length
364 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GTTTGTTTGTTTTTCCATAGGCC
3' ss Score
11.4
Exon sequences
Seq C1 exon
GGACAGATTCATAGTTACAGATTTGTCTGGTCACAGAAAGCATTCCAGCACTGGAGATCTATTAAGTATTGAATTACAGCAG
Seq A exon
GTAAGATCAGATAAACCACGTACTTAAATAACATTAGTTTTCTTGGTATAATCTACAGAAAGTAGTAATACTAATAAAATGATTGCTGAGTTACCTAGACATCAGTACTGGAACACTCTTTATGATTCATAAAGACAGCCTGTATGAGCTGCTCCATTGACATCAGTAAGGCTGTTTTTGGTAGAAAGTAGCGGGCTTGATAAATGCCAGCAAATGCAGGACAGAACAGATGTTGGACATTTAAAGAATACATAGTTACATGTCTGAAGAGGGAGCTGTTCTTTTGTGAATTCTATTGCTGTTTGCCAAAATGTGGTTTAAGTGTAGCTGCAGGTAATTGCTTTGTTTGTTTGTTTTTCCATAG
Seq C2 exon
GCCAAAAGTAACTCATTATTACTTCAGAGAGAAGCAAATGCACTAGCCATGCAACAGAAGTGGAATTCTCTAGATGAAGGCAGTCGACTTACCTTAAATCTTTTAAGCAAGGATATTGATTTGAGGAATGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAGATTCATAGTTACAGATTTGT
R:
ACCATTCCTCAAATCAATATCCTTGC
Band lengths:
214-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]