BtaINT0125492 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000540 | RNF112
Description
ring finger protein 112 [Source:HGNC Symbol;Acc:HGNC:12968]
Coordinates
chr19:34668698-34668980:-
Coord C1 exon
chr19:34668906-34668980
Coord A exon
chr19:34668809-34668905
Coord C2 exon
chr19:34668698-34668808
Length
97 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ATTTTTTCCCCCTCCTTTAGAAA
3' ss Score
10.14
Exon sequences
Seq C1 exon
CACCTGGACCTCTTAGTTCGTGACTCCTCCCACCCCAGCAAGGCTTGGCAGGGTCACGTGGGCGATGTCATCCAG
Seq A exon
GTGAGGGAGGGGACGGAGGGCCGGGAAAATGGGGCAGGTATGGGGAGCTAGCTCAGAGTGCTCCCCCTCCTTTCTTTATTTTTTCCCCCTCCTTTAG
Seq C2 exon
AAATCGTCCGGCAAGTACCCCAAGGTCCAGGGGCTGCTCCAAGGGAGGAGAGCCCGCTGCTACCTCCTGCCGGCTCCTGGACGGCGGTGGGCGAGCCGAGGCCATGGAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000540:ENSBTAT00000000703:9
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=0.054
Domain overlap (PFAM):
C1:
PF0226314=GBP=PD(11.8=88.0)
A:
NA
C2:
NO
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:
TAGTTCGTGACTCCTCCCACC
R:
CTTCCATGGCCTCGGCTC
Band lengths:
172-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development