BtaINT0127983 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016801 | RXRG
Description
Bos taurus retinoid X receptor, gamma (RXRG), mRNA. [Source:RefSeq mRNA;Acc:NM_001075408]
Coordinates
chr3:3627975-3629495:+
Coord C1 exon
chr3:3627975-3628107
Coord A exon
chr3:3628108-3629403
Coord C2 exon
chr3:3629404-3629495
Length
1296 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTTT
5' ss Score
2.28
3' ss Seq
TCATTGTTTCCTGTGAACAGAGT
3' ss Score
7.21
Exon sequences
Seq C1 exon
GGTGGAATGAGCTGCTGATCGCCTCCTTTTCCCATCGCTCGGTTTCTGTGCAGGATGGCATCCTTCTGGCCACGGGATTACACGTCCACCGAAGCAGTGCCCACAGCGCTGGGGTTGGCTCCATCTTTGACAG
Seq A exon
GTGTTTCTCTTCTGCTTCCAGCATGTGTGTGTGTGTGTGTGTGTGCATCTGTGTGTTTAGAATGGATAGCTCAAGCAGCTGTACATATATGGTTGGAAGCAGAGACCATTAAGCACATGAAAGCATAAACCTGGGGAATGAGAAAGTGATTAAAAGAAATGTTGATTCGAGGAGACAGAGCTGGTCAGAGGCCAACAGAGTTACTGGCAGATGAAAACCCGTGGGTTTCCAAGGAAGAGACGGTGTTACTAACATTACCTAGTAAGACTGGGCTTCCTTCATGGCTCAGTCGGTAAAGAATCTGCCTGCAATGCAGGAGATCTGAGTTCTATTCCTGGCTCAGGAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTAGTCTTGCCTGGAGAATCCCATGGACACAGGAGCCTGGCGGGCTACCATCTCTGGAGTTGGACATGACTGAATGATTAGGGGTGGGGAGTTTGAACTGCTTATCTTAGAGGGCTGGGACAGGAATGAAGGCTTAGAATCTGACTTTAGGAGTCCAGGAAAGATGAGCTAGGGTTTTTGCTGGACTCTGCATCTCTCTGGGGCAAGCCTGCTGAGGGAGCAATGGCCTCAGTCTGGGATTCTGTGCCCTCAGGGAAATTAAGCCAGGTGACTTAAGGAAATGAGAAATGGGTAGAGATGAATGACTTGGGGTGACAGGATGGAGATGCACTAGGAAAGGGAAGGGTGAGCTTGAAGATAGTCTCTACCCAGTGCTGGGGACCTGTGGTCCCTTTCCAACCCCTAAATGGTCTTCCAGGGCCATATGCATGTCGATCTGAGACGTCTCTACTCCTTCCCTGCCTTTTCCCACAGTAGTTCCACACGTGGTCTTCAGTGCACTTAGTCCTCTTGATGGTGCCTGGAGATTTCTACTGTGTCAGTGAACACCAGAAAAGCAGTGCCCTCGCCCTGCTTTGCCTGTTGCATTTCTACCAATTTCCAAAACCTCTAGGCTGCTTTTCCAGCCCCCTCTCTGAGTTCCCTGCCTCCTCCTGGGACTTTGATTATGTCAGTCAGTGGCTTGGTGTTGCTGCTCTGTGCTGTTTCTGTGTCTGTTGCTTTGATTAAACTGTGAGCTCCTTGAGATCAGGGACTGTGTCTGATTCATCTCTGCGCCCCTAGTACCTGGCACATTGACTGGAAAATGTGGGGGGGCGGTGTGGGTACATAATAAATATTGATTGCATTCATTTTATCAGCCTTTGGTCTGGTGCTCATGATTTTCTCATTACCTGTCATTGTTTCCTGTGAACAG
Seq C2 exon
AGTTCTGACTGAGCTGGTCTCCAAAATGAAGGACATGCAGATGGATAAGTCAGAGCTGGGGTGCCTGCGAGCCATCGTGCTGTTTAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016801:ENSBTAT00000022350:7
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(22.7=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(16.0=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:
GGTGGAATGAGCTGCTGATCG
R:
GGGTTAAACAGCACGATGGCT
Band lengths:
223-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]