BtaINT0103607 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001864 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:HGNC:7982]
Coordinates
chr8:65345800-65346562:+
Coord C1 exon
chr8:65345800-65345929
Coord A exon
chr8:65345930-65346389
Coord C2 exon
chr8:65346390-65346562
Length
460 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TTTTTTTCTCTTGGTATCAGTTG
3' ss Score
7.15
Exon sequences
Seq C1 exon
AGAACAGTGCAGAAAAATGCAAAATATGTTTGCCTGGCAAATAAAAACTGCCCCGTAGACAAGAGACGTCGAAACCGATGTCAGTACTGTCGATTTCAGAAGTGTCTCAGTGTCGGAATGGTTAAAGAAG
Seq A exon
GTATGGGTATAATGCTTTTTATCCAACTTGCTTGTAAATATTCTCAGATATCCCTGAAAAAAGTTAATATTTACATTGGGATGGTGAATTTTCCTAGTTTCCATTTCCTTTCAGCATTTTATTTTTATGGTGTATTTACATTTAAAAATAGCAGAGGTCTGCTTATTCTAATTTCTCAAAATCAATAGAGAGCTTGTGTACATACATCTTTCTTCTATTTGAGAAGGAGACTTTTAGGGCTAATTCATTACCAAATGTACGTATGGGGTGGCTGTTATGCTGCCTGTTTCAACTCTCTTTAAATCATTGTGGGGATATTACTCCAAACTTTTTCCACTTTTAAACGGTCAGTCTCATTAACGATTTGCTCAACTGTAAAGTGTTTTGTTTCCTCTCTGTGATTTATGGCTGTTTGTGGATATCTTTGGAGACGTTTTTTCTTTTTTTCTCTTGGTATCAG
Seq C2 exon
TTGTCCGTACAGACAGTCTGAAAGGGAGAAGAGGTCGGCTGCCTTCCAAACCAAAGAGCCCATTACAGCAGGAAGCCTCTCAGCCCTCTCCACCTTCTCCTCCGATCTGTATGATGAATGCCCTTGTCCGAGCTTTAACAGACTCAACGCCCAGAGATCTTGATTATTCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001864:ENSBTAT00000002429:2
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=0.466
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
NA
C2:
NO
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:
TGCCTGGCAAATAAAAACTGC
R:
GGAATAATCAAGATCTCTGGGCGT
Band lengths:
270-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]