BtaINT0125487 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000540 | RNF112
Description
ring finger protein 112 [Source:HGNC Symbol;Acc:HGNC:12968]
Coordinates
chr19:34670091-34670537:-
Coord C1 exon
chr19:34670331-34670537
Coord A exon
chr19:34670220-34670330
Coord C2 exon
chr19:34670091-34670219
Length
111 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TCTGCTTCTCTGTTCCTTAGGCG
3' ss Score
9.92
Exon sequences
Seq C1 exon
GAGACCTGCGCTGTGCGGGCTGAGCCGCTGCTGCTGGTGCGGATCAACGCCTCGGGGGGCCTCATCCTGCGAATGGGCGCCATCAACCGCTGCCTGAAGCACCCGCTGGCCAGGGACACCCCGGTCTGCCTCCTCGCCGTCCTGGGGGGGCCACACTCAGGGAAGACCTTCCTCCTCAACCACCTGCTCCAGGGCCTGCCCGGCCTG
Seq A exon
GTGAGCGCGGGGCCGGGCGAGGACTGGGGGACAGGACCAGGGTCCCAGCCGGGCTTGGCGAAGGGAGCAGGGCCGGATGGTCCAAAGCTGCTCTGCTTCTCTGTTCCTTAG
Seq C2 exon
GCGTCCGGCGAGGGCAGCTGGCCGAGGAGCGCGGGCTCCGGGCAGGGATTTAGGTGGGGAGCCAACGGCCTCTCTAGGGGCATCTGGATGTGGAGCCACCCTTTCCTGCTGGGGAAGGAGGGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000540:ENSBTAT00000000703:4
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=0.047
Domain overlap (PFAM):
C1:
PF0226314=GBP=PU(25.8=69.6)
A:
NA
C2:
PF0226314=GBP=FE(22.6=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:
CCTCATCCTGCGAATGGGC
R:
TCCACATCCAGATGCCCCTAG
Band lengths:
242-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development