BtaINT0165684 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012606 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
chr18:54938258-54938855:-
Coord C1 exon
chr18:54938713-54938855
Coord A exon
chr18:54938362-54938712
Coord C2 exon
chr18:54938258-54938361
Length
351 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGCT
5' ss Score
1.4
3' ss Seq
TCCTCCCCTCCTGAAAACAGTAA
3' ss Score
3.85
Exon sequences
Seq C1 exon
ACACATCAACATAGGAAGCCGGTTTCAGGCTGAAATTCCAGAGCTCCAGGACAGCTCTTTGGCTGGGATTGATGAGCATGTCGCTTCTCTGGTCTGGAAGCCGTGGGGAGATGTGATGAGCAACCCGGAAACGCAGGACAGAG
Seq A exon
GTGGCTGAGACCTTGGGGCCAGGGTCCCAAGGGCCCTCCTCTATCTCCAGGGAGTTTGTCCTCCGAGTTCCCACCCTGAGCAAGAAGCAGTGTGCGGGGGTCAGGGGTGGACAGAGGCGGCCTTCAGCACAGTACTGCTCCCGCTGTGGTCCCTGGCCCACCTCCCCTCTCACCCACTGCCAGGAGCAGGGTTGAGCCCTTCCTCCAGGTCCCTCCCTTCCCTCAGCCTGCCTTTACTAGAGGGAGGTGGTGACAAGGAGTCTCTCCCACCCTAATGGTGCCCTCAGGGAGGCCTCTTCTCTGGCTCCCCCTGACCCTCTGTGTCTCCGCTTCCTCCCCTCCTGAAAACAG
Seq C2 exon
TAACGGAGCTCTGCAATGTGGCCTGCTCCAGCGTGATGCCCGGCGGGGGCACCAACCTGGAGCTGGCACTGCACTGCCTGCATGAAGCCCAGGGCGACATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012606:ENSBTAT00000061246:10
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=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(79.3=93.9)
A:
NA
C2:
PF0144819=ELM2=PD(19.0=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACATCAACATAGGAAGCCGGT
R:
CTGGATGTCGCCCTGGGC
Band lengths:
246-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development