BtaINT0125488 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000540 | RNF112
Description
ring finger protein 112 [Source:HGNC Symbol;Acc:HGNC:12968]
Coordinates
chr19:34669813-34670219:-
Coord C1 exon
chr19:34670091-34670219
Coord A exon
chr19:34669918-34670090
Coord C2 exon
chr19:34669813-34669917
Length
173 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACAGCTGGCACTCCACGCAGGTG
3' ss Score
6.43
Exon sequences
Seq C1 exon
GCGTCCGGCGAGGGCAGCTGGCCGAGGAGCGCGGGCTCCGGGCAGGGATTTAGGTGGGGAGCCAACGGCCTCTCTAGGGGCATCTGGATGTGGAGCCACCCTTTCCTGCTGGGGAAGGAGGGGAGGAAG
Seq A exon
GTGAGGGGTGAAGGGACGGAGGGGTCCAGGCCGATTCGGGCAGTGCGGGGGCTGGGGAGCAGAGAAGGTGATGGGCAGGAAAGCTTTGGGGGCCAGGATGAGAATGCGGGGTGGGAAGGGGCAGGGTTGGGGAGGCGCCTGGCAGGCTGACCCACAGCTGGCACTCCACGCAG
Seq C2 exon
GTGGCCGTGTTCCTGGTGGACACGGGGGACGTCATGAGCCCGGAGCTGAGCAGGGAAACAAGGACCCGGCTGTGCGCCCTCACCTCCATGCTGAGCTCCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000540:ENSBTAT00000000703:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0226314=GBP=FE(22.6=100)
A:
NA
C2:
PF0226314=GBP=FE(18.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGGGATTTAGGTGGGGAG
R:
CTGGTAGGAGCTCAGCATGGA
Band lengths:
194-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development