BtaINT0103619 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009265 | NR5A2
Description
nuclear receptor subfamily 5, group A, member 2 [Source:HGNC Symbol;Acc:HGNC:7984]
Coordinates
chr16:80767388-80769163:+
Coord C1 exon
chr16:80767388-80767506
Coord A exon
chr16:80767507-80769021
Coord C2 exon
chr16:80769022-80769163
Length
1515 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGC
5' ss Score
6.3
3' ss Seq
CTTACTGTTTTCTCTTATAGGGC
3' ss Score
12.15
Exon sequences
Seq C1 exon
TGTCCCCGTTTAAAATGGTGAATTACTCCTATGATGAAGATCTTGAGGAGCTCTGTCCGGTGTGCGGAGACAAAGTGTCTGGGTACCATTACGGGCTCCTCACCTGTGAAAGCTGCAAG
Seq A exon
GTGTGCTTCTGCGTTGCTACCTGAGAAATGTAATGTTCAAACCAAAATAAACCACTGGACCACTTCTTCAGGCTAAATGTAGGCTGTCTTTTTTGGACTCAAAAATGAGAGAGGGAAAGAGTGAGTCTTAGTGAGATGATTCTTAGAAATATGTGTCTGATTTAATCCCCAAAGCAAAGAAATTTATGCTGTTTAGAAAACTTTGCCAGTATCACGACTTTAAAATAGTTTATTGCAGGAAAGTGATGTAGCTGTAGAAAGGCTTCTATTTCTAACAGTCCAGAATATTGATTTTGCTTGACTTATATATATTTAAAGCATCGTTGTTCTTGAGAGCCAACATGACAAAGTATTTCCCAAATACATTTTAACTTCAGAGTATTCTGTGCTACACATCCAAACATTTTTTATCCACAGATATAAAAGTCTAAATTCCCAGCTGCATGATTTCATCCTGATTTATTCTAAAAATAATTTTTAAGACTTTGGGAATTTATATCAGAAAGAATAGAAACCAGATCTTAAGTTTATAATATGAGTAGTTTTAAGTATATGGTGACTTATTTAAATGCAAGAGTTTTTAATATGTGAGATGTACTGTATTATTACTAATAACATCAACTATACAGTAAGGATTTATCTCAGACTTTTTTCATATATTCTCAGTAAATTTAATACTCCTTATTTTTCAACATTTTTAAAAGTAGAAAACTCAGTACAATTACTAAACCACTGCCAAGAAAATCTCTTCTCTTTTTTTATAACAAAGTAAGATGGTTTCACTTTGTGGTCAGTAGGGCAAACAGAGAATATACCATCTAAGCAGTTACTGTGTTATAAAGCTACAGATTTTATTTCTGATTAATTCTTTTGGGTGAAATATAAGGAAGGCATACACTCTGCTAAAACCCAGTTCTCTGCTCTACATGCTTTTTTCCCTCATAAGTTTCACCTTTTTCTTTGCAGTTCCCCAACTTCACGTATTCCAATGGAATTATGAACATTTTCCACATTTTTCCATTTTATTCTTTAAATGCTTTTGCTTTTAACTCTGTAGTGCTGACGTTTATAAAACATCTGAAGTGTTTTGTTATTTCATTTTTTCTATTGGTATTTTACTGTAGTTTGCCACCAAAATTATATCAGACTACGTAAAAATAATTCAGCTCTCTAAAAGTACCTTGTCTGGAACATGAAGGTTAATAAGGAAAAAAAAAAAACAAAACTACTGATCAATATAGCATGTATTTTCCCCTGAATGTTGAGATAAAACTGTGTAGACAAAGCTCTCCAAGATTTGATGTGATTCTTGTGAAGAATAACTCTGATGTCAGAAAAATCTCCACCATAGCCTGGTTTTGAAGGGTTGATCTTGTTAAAACGTGAAACAAGCCACAGAACCACATAAGGACTCAAACGGTGCAATAAAAAGATTTACTGGTGATTTCCTTAAAATGAAACAATAGAAGAGACGGGTGTTAGCTTTATAATATGTCTTACTGTTTTCTCTTATAG
Seq C2 exon
GGCTTTTTTAAGCGAACAGTCCAAAATAATAAAAGGTACACGTGTATAGAAAACCAGAACTGCCAAATTGACAAAACACAGAGAAAGCGTTGTCCTTACTGTCGATTTCAAAAATGTCTAAGTGTTGGAATGAAGCTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009265:ENSBTAT00000012207:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(32.9=57.5)
A:
NA
C2:
PF0010513=zf-C4=PD(64.3=93.8)
Main Inclusion 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:
TGTCCCCGTTTAAAATGGTGA
R:
AGCTTCATTCCAACACTTAGACA
Band lengths:
256-1771
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development