BtaALTA0020369-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000003650 | NR4A2
Description
Bos taurus nuclear receptor subfamily 4, group A, member 2 (NR4A2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076208]
Coordinates
chr2:40015222-40015995:+
Coord C1 exon
chr2:40015222-40015424
Coord A exon
chr2:40015871-40015937
Coord C2 exon
chr2:40015938-40015995
Length
67 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
AATGGGGTGGTCTTGCACAGGTT
3' ss Score
5.26
Exon sequences
Seq C1 exon
TTCCAGGCGAACCCTGACTATCAGATGAGTGGAGATGACACCCAGCATATCCAGCAATTCTATGATCTCCTGACTGGCTCCATGGAGATCATCAGGGGCTGGGCAGAGAAGATCCCGGGCTTCACTGACCTGCCCAAAGCCGACCAAGACCTGCTTTTCGAATCGGCTTTCTTAGAACTATTTGTGCTGCGATTAGCCTACAG
Seq A exon
GTTGCAATGTGTTCGTGGCTTTGGGGAATGGATTGATTCCATTGTTGAATTCTCCTCCAACTTGCAG
Seq C2 exon
AATATGAACATCGACATTTCTGCCTTCTCCTGCATCGCTGCCCTGGCTATGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003650-12-9,12-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(33.8=100)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACTGGCTCCATGGAGAT
R:
CGATGCAGGAGAAGGCAGAAA
Band lengths:
172-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development