BtaINT0103582 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014236 | NR2E3
Description
Bos taurus nuclear receptor subfamily 2, group E, member 3 (NR2E3), mRNA. [Source:RefSeq mRNA;Acc:NM_001167900]
Coordinates
chr10:18634251-18634853:+
Coord C1 exon
chr10:18634251-18634497
Coord A exon
chr10:18634498-18634747
Coord C2 exon
chr10:18634748-18634853
Length
250 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTTT
5' ss Score
2.36
3' ss Seq
CAGCTGCTGCTTCTCTCCAGAAA
3' ss Score
7.17
Exon sequences
Seq C1 exon
GTGATCCTGCTGGAAGAGGCGTGGAGTGAACTCTTCCTCCTTGGAGCCATCCAGTGGTCTCTGCCTCTGGACAATTGCCCACTGCTGGCCCTGCCCGAGGCCTCTGCTGGCGGCAGCTCTCAGGGCCGACTGGTGCTGGCCAGTGCGGAGACTCGAATCCTGCAGGAAACCATCTCACGGTTCCGGGCACTGGCAGTGGACCCCACGGAGTTCGCCTGCATGAAGGCCCTGGTCCTCTTCAAACCAG
Seq A exon
GTCTTTGTCCGAGTCTTAGAGGAGAGTGGGCGGGGATGAAGGCAGGGAATTTTGGTGACTTCCTTCTGCCTCTCACTTTCCCTCCATCACCCTTCATAGACCTGAATGTGTGTAGACTTCTTCCCTGCGAGCAGGAGGGGAGGGCTGCATGGCTCCTGGGCTGCTGGGCTCCCCACTCCTGAGGCCCTGGCTGATGGTGAGGCGGGAGCGGGGCCTGGGAGGGAAGCTCACAGCTGCTGCTTCTCTCCAG
Seq C2 exon
AAACACGCGGCCTGAAGGATCCTGAGCACGTGGAGGCCTTGCAGGACCAGTCTCAGGTGATGCTCAGCCAGCACAGCAAGGCCCATCACCCCAGCCAGCCTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014236:ENSBTAT00000018926:6
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=0.167
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(40.2=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(17.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGCGTGGAGTGAACTCTT
R:
TGAGCATCACCTGAGACTGGT
Band lengths:
299-549
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development