GgaINT0125466 @ galGal4
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr17:8795143-8795955:-
Coord C1 exon
chr17:8795780-8795955
Coord A exon
chr17:8795344-8795779
Coord C2 exon
chr17:8795143-8795343
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]