BtaINT0125485 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000540 | RNF112
Description
ring finger protein 112 [Source:HGNC Symbol;Acc:HGNC:12968]
Coordinates
chr19:34670738-34671571:-
Coord C1 exon
chr19:34671531-34671571
Coord A exon
chr19:34671027-34671530
Coord C2 exon
chr19:34670738-34671026
Length
504 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CCCCCCACCGCCGCCCCCAGGTC
3' ss Score
8.7
Exon sequences
Seq C1 exon
GAGAGAAAACGGAGCTTCATGGGGAACAGCAGCAACAGTTG
Seq A exon
GTAAGTGGAAGGCCTGGCGGCGGGTGGGGGCCATGTGGGTGGGCTGGCTGGGAGCACGGAGGCCTGTCCCAGGGCGGGCAACACGAGGCTGGCCCTGGTGGGCTGTGGAGGGAAGGACGGGAAATCAGGTGGGTGCCTCAGGAAGTCGGTGCCAGCTCAGTGCTGGAATCTTCTGAGAGCCATCTGCCCCGCTGCGGGAGCCCCCTTATGTCCACAGGCCCAGCGTGTTGAAGCCACTGCAGGGAGGGGGTAGGGGTAGGTGACCCCTGGAGGGACCCCTCCCCTCGAAGCAGGAGGCCGTGGGGGTGTATTTCCTTGGCATCTGTGCCAGACGCCGGCACCATCTTGTCTGCCCGCCCCTGCCTCCCTTCCTGGAGGATTAGAAACAGGCCAGACCCGGGCGGGAACTTACCCGCGACGGCTCCATCCAGGGTTCCTCGTTTCGGGGGCCCCTCTCACCACTGTCTGGGGTCCCCGCACCCCTCCCCCCACCGCCGCCCCCAG
Seq C2 exon
GTCCCATACGCCGTTCCCCAAGCTGGAGCTGGGGCTGGGGTCCCGGCCCACGGCGCCCCGCGAGCCGCCCGCCTGCTCCATCTGCCTGGAGAGGCCGCGTGAGCCCATCTCGCTGGACTGTGGCCACGACTTCTGCCCGCGGTGCTTCAGCACCCACCGCGTGCCTGGCTGCGGGCCGCCCTGCTGCCCCGAGTGCCGCAAGACCTGCAAGCGGAGGAAGGGCCTGCGGGGCCTGGGGGAGAGGATGAGGCTCCTGCCGCAGAGGCCGCTGCCCGCCGCCGCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000540:ENSBTAT00000000703:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.082
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009720=zf-C3HC4=WD(100=42.3)
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:
AGAAAACGGAGCTTCATGGGG
R:
CAGGAGCCTCATCCTCTCCC
Band lengths:
294-798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development