BtaINT0103577 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014236 | NR2E3
Description
Bos taurus nuclear receptor subfamily 2, group E, member 3 (NR2E3), mRNA. [Source:RefSeq mRNA;Acc:NM_001167900]
Coordinates
chr10:18631676-18632478:+
Coord C1 exon
chr10:18631676-18631817
Coord A exon
chr10:18631818-18632351
Coord C2 exon
chr10:18632352-18632478
Length
534 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CAGCCCAGGCTTGCCCTTAGGCG
3' ss Score
0.8
Exon sequences
Seq C1 exon
GCAGGCACTGGCTGCCCTGGGACCTGCCAGGACAGGCCGACAGCGCCCATGAGCTCCAACGTGGCTGCAGCGGTGCCGGCTGCCGTGTCCGCCTCCAGGAAGGAGTCTCCAGGCAGGTGGGGCCTGGGGGAGGAGCCGACAG
Seq A exon
GTATGGTTAATCTCGAGGCATATATAGACCCTTGGGGAGTGGAGCGTGGGTCACAGGTTTGCAGGGACCATGATAGGAGCCAGAGCAACTCAGGCCAAGCCCCCAGGGCTATAGGCAAGTGTAAGGAAACCTGCCAGGAAACCCAGAATCCTAGAAACATGGGGGTCAGAGAGGATAGCTGATCAGATGGGAGAAGAAAGGAGAGAAGAGGGCCCTCAAAGGTCAGGAGCAGAGATCCCTAGTGGCGGTGTCCAGAAGGCTCTTGTGCATGATGGAGCCTGAGCCCACCTGCAGAGAGAGGGACGGGGAAGTGGAGCAGAGAGTGTCACTTGTTGAGAACTGGCCATGGAGAAGTGGGGAGGGGGTGTGACAAGGGACACGTTTTCCAGCTGGGAGAGACACGGGTGTGTCTGAATATGGGTGGATAGGAACGTGAGGACGGTGAGGGAAGGAGGGTGGAGGGGTCCCTGAGGAGGTGGGAATGGCGTGTCACTGGCCCGGCGCAGCCCCCACCCAGCCCAGGCTTGCCCTTAG
Seq C2 exon
GCGTGGGCCCCTCGCTCCAGTGCCGCGTGTGTGGGGACAGCAGCAGCGGGAAGCACTATGGCATCTACGCCTGCAACGGCTGCAGCGGCTTCTTCAAGAGGAGCGTGAGGCGAAGGCTCATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014236:ENSBTAT00000018926:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.312 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(52.1=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGGCTGCCCTGGGAC
R:
TGTAGATGAGCCTTCGCCTCA
Band lengths:
263-797
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development