BtaEX6020590 @ 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
chr5:27979972-27981110:-
Coord C1 exon
chr5:27980981-27981110
Coord A exon
chr5:27980518-27980669
Coord C2 exon
chr5:27979972-27980174
Length
152 bp
Sequences
Splice sites
3' ss Seq
TCCAGCCCTTTTCTCTGCAGTTG
3' ss Score
9.01
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
CGCACAGTGCAGAAAAATGCCAAGTACATCTGCCTGGCTAACAAGGACTGCCCTGTGGACAAGAGGCGGCGAAACCGCTGCCAGTTCTGCCGCTTCCAGAAGTGCCTGGCCGTGGGCATGGTGAAGGAAG
Seq A exon
TTGTCCGGACAGACAGCCTGAAAGGACGGCGGGGTCGGCTCCCTTCAAAGCCCAAGCAGCCCCCAGAAACCTCCCCAGCCCACCTACTCACCTCCCTGGTCCGGGCGCACCTGGACTCGGGGCCCAGCACTTCTAAACTGGACTACTCCAAG
Seq C2 exon
TTCCAGGAGCTGGCGCTGCCCCACTTCGGGAAAGAGGATGCTGGGGACGTGCAGCAGTTCTACGACCTGCTCTCGGGTTCCCTGGAGGTGATTCGCAAGTGGGCCGAGAAGATCCCCGGCTTTGCTGAACTGTCTCCCGGAGACCAGGACCTGCTGCTGGAGTCCGCCTTTCTGGAGCTCTTTATCCTCCGTCTGGCCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000507-'24-14,'24-9,25-14=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.392 C2=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
NO
C2:
PF0010425=Hormone_recep=PU(33.5=95.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCCTGGCTAACAAGGACT
R:
CCGGGAGACAGTTCAGCAAAG
Band lengths:
242-394
Functional annotations
There are 2 annotated functions for this event
PMID: 11274386
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, protein kinase assay. ELM ID: ELMI000100; ELM sequence: RGRLPSKPK; Overlap: FULL
PMID: [1]
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis. ELM ID: ELMI000099; ELM sequence: RGRLPSKPK; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]