BtaALTD0015009-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000009017 | NR5A1
Description
Bos taurus nuclear receptor subfamily 5, group A, member 1 (NR5A1), mRNA. [Source:RefSeq mRNA;Acc:NM_174403]
Coordinates
chr11:95531614-95534538:-
Coord C1 exon
chr11:95534416-95534538
Coord A exon
chr11:95534397-95534415
Coord C2 exon
chr11:95531614-95532239
Length
19 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGA
5' ss Score
7.16
3' ss Seq
CCCTCTGCCTCTGCCCACAGCTG
3' ss Score
12.47
Exon sequences
Seq C1 exon
GGCTTCTTCAAGCGCACGGTGCAGAACAACAAGCACTACACGTGCACCGAGAGCCAGAGCTGCAAGATCGACAAGACTCAGCGCAAGCGCTGTCCCTTCTGCCGCTTCCAGAAGTGCCTGACG
Seq A exon
GTGGGGATGCGCCTGGAAG
Seq C2 exon
CTGTGCGCGCTGACCGCATGCGAGGCGGCCGGAACAAGTTTGGGCCCATGTACAAGCGGGACCGGGCCCTGAAGCAGCAGAAGAAGGCACAGATTCGAGCCAATGGCTTCAAGCTGGAGACAGGCCCCCCAGTGGGGGTGCCCCCGCCGCCCCCTCCCCCACCGGACTACATGCTGCCCCATGGCCTGCATGCATCTGAGCCCAAGGGCCTGGCCTCAGGTCCACCAGCTGGGCCACTGGGCGACTTTGGGGCCCCAGCGTTGCCTATGGCTGTGCCCAGCGCCCACGGGCCACTGGCTGGCTACCTCTACCCTGCCTTCCCTGGCCGCGCCATCAAGTCTGAGTACCCAGAGCCCTATGCCAGCCCCCCACAGCCCGGGCCACCCTACGGCTACCCAGAGCCCTTCTCGGGGGGGCCTGGTGTGCCCGAGCTTATCCTCCAGCTGCTGCAGCTGGAGCCAGATGAGGACCAAGTGCGGGCACGCATCGTGGGCTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009017-8-3,9-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.526
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(64.3=93.8),PF038549=zf-P11=PD(80.8=87.5)
A:
NA
C2:
PF0010425=Hormone_recep=PU(19.0=18.7)
Main Skipping 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:
ATCGACAAGACTCAGCGCAAG
R:
GCTTGTACATGGGCCCAAACT
Band lengths:
114-133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development