BtaINT0127984 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016801 | RXRG
Description
Bos taurus retinoid X receptor, gamma (RXRG), mRNA. [Source:RefSeq mRNA;Acc:NM_001075408]
Coordinates
chr3:3629404-3631103:+
Coord C1 exon
chr3:3629404-3629495
Coord A exon
chr3:3629496-3630997
Coord C2 exon
chr3:3630998-3631103
Length
1502 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
TAACCAGCTGTCTTTTTCAGATG
3' ss Score
8.86
Exon sequences
Seq C1 exon
AGTTCTGACTGAGCTGGTCTCCAAAATGAAGGACATGCAGATGGATAAGTCAGAGCTGGGGTGCCTGCGAGCCATCGTGCTGTTTAACCCAG
Seq A exon
GTGACAGCGTCTTGCTTAGCCCTCCTCCCTGGTCAGCCCCCAGTGCGCTGATGTTCTTTGGCCCTCTAGCTCAGCTGAGACAGAGAGGGGAGAAGGCAGGGCCAGGAGACCTGTCAGTGGGGAGGACAGAGTCACCTCTGCATGGCCTCTGCTCCTTGAGCCATCTTGAAAAGTGTTTCAAACGGGCATGAAGTGTACATGTTGGGGGTCAGCGGGGAAGGTGGGAGATCACAGAGGCCTAGGATAGTAAAGGAAGTGGTAAAATGTGGTCAGGTTCTCCAGGGGTGACAGAAACTAGTGAGTAAATAAGTGCTTCCATCTTCCTTCCCTAGGTGGACAATTCTGCAGTACATTCCACATACCTCCTTAGAGGGTCCCTGTGAGAATGAGTCCCAGCTGCCCATGGCCATGATCAGTCTGATCATGTACTCTTGTGTTGGCTTTTCTTCTTTCCCTGCTTTTTCTTTTTTTAGTCCCTCCCTCCTCTTCCCTGGGTCACTGCCTCAAGTTAACTACTTCCATGAAAAAAAAAAAATAGTAGTTAGTTTCTGCATATATTTTTTGGCAGAACTTATGGGATTTTGCTGATGGATTGTACATAGGATATGGAAAAGAGGCATTAAATATTTTTGTTTCCTGAACAACTGGAAAATAATTTTCATTGACTGAAATGGAAGTTCTAAGGGTGGGTGGCTAGGAAGCAGGTCTTTGGACGTGAAACTCTGAGATGGATGTAGATGTCCAAGAGTGGCTGACCAGGAAGCAATTATTCACGTGATTCTGGAGTTCAGAGGAGAGGCAGGACCAGAGATGTACATTTGAGAGCTGTCAGCCTATACCTAGCACGGAAAGTTCTGAGGCTGGCGTGAACTCATCCAGGGAGTAAGCAGAGGCAGAGCAGAGGGCTGAGGACTGAGTCCTGGGGCATGGCCGCATTTAGAATTTGTGGACGAAAGGAAGAAACAGCAAAGGTGCCTGCGAGGGAGCAGTGGGTGAGACAGGGAAGAACCGGAGAATGATGTCCTGGGGGCTCAAGGAGGAAAAGCATGGCAAGGAGGAGCAAGACTCAGCTTTCACCAGAGGCTGCCACGGGTCAGGAAAGATGAGTATTCAGAATTACATAGTAACTGATGCATGCACTTCATCTCTTGAATTAGGTGATCAGTTAGTTGAAGCAGGACATAGGTATGTCTGGTTTTTGTTCCCTGTCTTTTCATTCAGCCCACACTTAGTCAATAAATGTGTAAAGGTTGTATATGTACAATGGCCCAGATAGAAGGAAACTCTCCTCCTTGGAGTCAGCGGTGGGTACCTTTGCTTCAAGAGTTTATTGGGTAGATTGGTAGACACAAAGCACCAGCTCTGTGTATTTCACAGTGTCCCTTATCCACTGTGTCTCTAGTAACTCTACTGGAGGTGGCCTATATGAATGGGGACAGCCTCTGTAACAGGGTGTTCCACAGAGGTGTGTAACCAGAGGTTTAACCAGCTGTCTTTTTCAG
Seq C2 exon
ATGCCAAGGGTCTCTCCAACCCGTCTGAGGTAGAGACTCTACGAGAGAAGGTCTATGCCACCCTTGAGGCCTACACCAAGCAAAAGTATCCAGAACAACCAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016801:ENSBTAT00000022350:8
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:
PF0010425=Hormone_recep=FE(16.0=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(18.0=100)
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:
AGTTCTGACTGAGCTGGTCTCC
R:
CTGCCTGGTTGTTCTGGATACT
Band lengths:
198-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]