BtaEX0024880 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000000507 | NR4A1
Description
Bos taurus nuclear receptor subfamily 4, group A, member 1 (NR4A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075911]
Coordinates
chr5:27980518-27982801:-
Coord C1 exon
chr5:27981924-27982801
Coord A exon
chr5:27980981-27981110
Coord C2 exon
chr5:27980518-27980669
Length
130 bp
Sequences
Splice sites
3' ss Seq
TCCGTGTTGGCCCCCTCCAGCGC
3' ss Score
6.86
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
Exon sequences
Seq C1 exon
CCAGCGGCTCTGACTACTATGGCAGTCCCTGCTCTGCACCGTCACCATCCACGCCCAGCTTCCAGCCTCCTCAGCTCTCTCCCTGGGATGGCTCCTTTGGCCCCTTCTCGCCCAGCCAGACTTACGAAGGCCTGCGGGCATGGACAGAGCAGCTGCCCAAGGCTTCTGGGCCCCCCCAGCCGCCGGCCTTCTTTTCCTTCAGCCCTCCCCCCGGCCCCAGTCCCAGCCTGGCCCCAAGCCCCCTGAAGCTGTTCCCCTCGCAGGCCGCCCACCAGCTGGGGGAGGGAGAGAGCTATTCCATGCAAACAGCGTTCCCAGGCCTGGTGCCCACTTCTCCCCACCTTGATGGCTCAGGGAGGCTGGACGCGCCTGTGACCTCTGCCAAGGCCCGGAGTGGGGCTCCGGGTGGAAGCGAGGGCCGCTGTGCTGTGTGTGGGGACAATGCTTCCTGCCAGCATTATGGGGTCCGCACCTGTGAGGGCTGCAAAGGCTTCTTCAAG
Seq A exon
CGCACAGTGCAGAAAAATGCCAAGTACATCTGCCTGGCTAACAAGGACTGCCCTGTGGACAAGAGGCGGCGAAACCGCTGCCAGTTCTGCCGCTTCCAGAAGTGCCTGGCCGTGGGCATGGTGAAGGAAG
Seq C2 exon
TTGTCCGGACAGACAGCCTGAAAGGACGGCGGGGTCGGCTCCCTTCAAAGCCCAAGCAGCCCCCAGAAACCTCCCCAGCCCACCTACTCACCTCCCTGGTCCGGGCGCACCTGGACTCGGGGCCCAGCACTTCTAAACTGGACTACTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000507_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.572 A=0.000 C2=0.392
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(38.6=9.2)
A:
PF0010513=zf-C4=PD(58.6=93.2)
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGAGGGAGAGAGCTATTCC
R:
CGTCCTTTCAGGCTGTCTGTC
Band lengths:
250-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development