BtaEX6020591 @ 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
chr5:27979709-27980669:-
Coord C1 exon
chr5:27980518-27980669
Coord A exon
chr5:27979972-27980174
Coord C2 exon
chr5:27979709-27979887
Length
203 bp
Sequences
Splice sites
3' ss Seq
CTCGTTGGGCCACCTGCCAGTTC
3' ss Score
2.52
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
Exon sequences
Seq C1 exon
TTGTCCGGACAGACAGCCTGAAAGGACGGCGGGGTCGGCTCCCTTCAAAGCCCAAGCAGCCCCCAGAAACCTCCCCAGCCCACCTACTCACCTCCCTGGTCCGGGCGCACCTGGACTCGGGGCCCAGCACTTCTAAACTGGACTACTCCAAG
Seq A exon
TTCCAGGAGCTGGCGCTGCCCCACTTCGGGAAAGAGGATGCTGGGGACGTGCAGCAGTTCTACGACCTGCTCTCGGGTTCCCTGGAGGTGATTCGCAAGTGGGCCGAGAAGATCCCCGGCTTTGCTGAACTGTCTCCCGGAGACCAGGACCTGCTGCTGGAGTCCGCCTTTCTGGAGCTCTTTATCCTCCGTCTGGCCTACCG
Seq C2 exon
GTCTAAACCAGCCGAGGGGAAGCTCATCTTCTGCTCAGGCCTGGTGCTGCACCGCCTGCAATGTGCCCGTGGCTTCGGGGACTGGATCGACAGCATCTTGGCCTTCTCTCGCTCCCTGCACAGCTTGGTGGTCGACATCCCTGCCTTCGCCTGCCTCTCCGCGCTTGTCCTCATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000507-'25-16,'25-14,26-16=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=0.392 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0010425=Hormone_recep=PU(33.5=95.6)
C2:
PF0010425=Hormone_recep=FE(30.9=100)
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:
GACAGACAGCCTGAAAGGACG
R:
GAAGGCAGGGATGTCGACCA
Band lengths:
293-496
Functional annotations
There are 1 annotated functions for this event
PMID: 22002310
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, glutathione s tranferase tag, pull down. ELM ID: ELMI002017; ELM sequence: AELSPA; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]