BtaINT0127962 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017851 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr11:105997303-106004390:+
Coord C1 exon
chr11:105997303-105997482
Coord A exon
chr11:105997483-106004220
Coord C2 exon
chr11:106004221-106004390
Length
6738 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
GACCCCCTACCCCGCCTCAGCCG
3' ss Score
2.55
Exon sequences
Seq C1 exon
GCAAGCACTACGGGGTGTACAGCTGCGAGGGCTGCAAGGGCTTCTTCAAGCGGACGGTGCGCAAGGACCTGACCTACACCTGCCGGGACAACAAGGACTGCCTGATTGACAAGCGGCAGCGCAACCGCTGCCAGTACTGCCGCTACCAGAAGTGCCTGGCCATGGGCATGAAGCGCGAAG
Seq A exon
GTAGGCGTGCGGGTGCGAGGCCCTCCCTGCTCACAGCTCCTTTGCATACTTCTGATGCCGGGGCTCTCACTCCCTCTAGAGGCCTCCACTGCTGCTGCGTTGGCACACATCCCTGGGGGCTGGGGTCTCTCACTCACTGACTTGTCTGAGCACCAGCTTCGCGCCAGGCTCTGGGGTTACAGGAGGGACACCTTTGATCCTGCCTGCTGGCAGCTCCCAGCCCCACTGGCGACAGGCATCCATCAGAACCTCTCCAAGGTCCTGGTGGGCCCTGCTGATCATGTGGGCTCTCGGGGGGCTGTGGTGGGAGGTGGGGGCTCCACCTGGAACAAACCCCAGGGAGTGTACAGGCCAGTCCTGGGGCCTGCTTGTTGCTGCTCAGTAGGACGGTCCAGGAGACCTGGGGCTGGAGGGGCACGGGTAAGGAGCTCTGGAGACCATCATGACAACGGAAGCATTCTGGGCGCTGGGTTGTCCTGGGCTCTGCTTCTCCCGCAGATGGGGCGGGGGTGCCTTGCGACCCAGATCCTCACAGTAGAGAGACTTGGGCTGCAGGCTCTCGCCTGGGACTGGGTCCGGTTTCGTTGACAGAAGGTGTGTGTCGGGCGGTGGGGCAGGAACATGGGAAGGCTGCTCCCAGGGGGTCACTGAAACTGTCCCGCTGTCCCGCTGGCCAGGGCCTGGGCCTGGGGCAGGCTCCTCACAGCCCCTTGCTATCTGTGGGCCTTGGTTTCCCTGGCCCAGGCTTGGGGCCTTCTGGCTGGGAGGGTCTGTCTCTGGGCTGAGGGTCTGCGTGTCCCTCCCGCACTGTTTCTGCTCCACGGTCCCCACAGGCTGGTGTGTGTGCACCTTCCCCCACACCGTCCCATGGGGGAGCCGGGCGGCTGTCTCGTCACTGGGGACTGCCCTCTTGTGGAGTCTGCAATCTCCATCTCCTTCGTTTATCTCCTGGGCCCCAGGCCTTCTTGCTGACAACCCGAGACCTCAGCTGGGCCAGTGGTCCTGCAGGATCTGTGCCTTGAGGCTGAGAGGCAGTGATGGGCTGGGAGTCTCGGCGCTGGCGAGGGGCAGTGTGCCCATGGACCCTGTAGAGCGGCGCCTCCTGGGCTCCAGCGTGAGCTGGGGGGCCGGCCTGGGCCTTGGTCTGCCCACCCAGCCTTCTTGATGAGGGCGCATGTTCCATAGAGACATTGGCCCCCCCTTCTGTGTGCGGGTGGAGAGGCTGAGGCCCAGAGGGTCTGGGGCTCGGCCATGGTCACATGTTGGGCTGGAACCGGGCCCTGGCTTCCAGTGCTGACCTTCTTCCTCAAGGCCAGCAGGAGGCCAGAGGAAGCGTGTGCCTGGTGTGGGGAGGCCTGTGTCCGGCCCCAGTTCCTCTGGCTGCCCCATGTAGTCAGGGTGGGCTTCCTGGAGGTGGTGAGTGCAGTGTTTTTCCTGAAGGATGGAAACTTGGGCAGGGGGCAAGCACGTGGTGGGCAGATCCCTCTGCACTTTGGTTTGGGTCAGCGAGCCGTGGTCATCTGTCCATTGAAAGTAACCATCACACAGCCAGGAAGGGCCCCCTGGGAGTGGTCAGTGTGACCTTCAGGGAAGCCTGGGGCCTGTGGGAACCCAGAGGAGGCCCCGGCCCTGCTGTGGGCATTGGGCAGCACTTGGTGGACAGGTGTCCAGCTGACCCCTGAAGCGTGGAGGGGTGTTCAGCAGACCACGTGTCTGGATGGCGGGGACAGCATGTGCAGAGGCTGAGACCTGGGGGCCCCACAGAGTGACCGAACATAGGTTCCCAGGGCTGTCCAGTCCAGTAAACACTGACCCTCTCCTAAGGCCCTCTCAAGCTGTCCACTTGTGGGCCTGGGGGACACCCCAGTGAACTGTCGCCCCAAGGTCTGGGGAGAGTGGAGACAGCGTCTCCTGTCCCAGTGGAGCTGCAGTCTCGGGTCTGGGGGGTCAGCGGCTCTGACCCCCCTGTGCTTGCCCACTAGTGGCTGTTAGGGGCGCCTGCTGTGCCCGGAGCCTCTTTGGGGTCCCTGCTGGTCACATACACTCACCCACCCATGGTGCCATGACTGTCCACACACCCCCCCCCCCCCCAGGGAGGGAGGAGGCCTCGGGGGTAGGGAGCGGGCCTGGTGGCCAGGGAGCGGGGCTCGGGGCAGGGAAGAGGCCTTGGGGGCCGAGCCTGCAGGGCCGTATGCCCGCGCTCTCCATCTGATGCATGAGTCTGGAGCGTTAGGCGCCGTCCTGAGGCACCGCGGCCCTTGAGGCCTGATTTATGGGCCGTTAGATAAATACCTGATTCCATCAGGACCCACCTCCCCTTGCTTCCTGCTGGATTTATAAGTCACGAGCAGGCAGTAAAAACCTTCCTACATGGCCCCCTCGTGCTCCCAGCACAACGTTAAACTCTTTGCTGGCCCGAGAGCCGCGGGGCGGTGGGAGGCGGCTCCGTCTGCCCGCCGGTGCAGCGCTGTCTGGCCCCCTGCGGCTGCAGGGGCAGCCCCACCGCCTTGCCCTCCAGAGGGGTGAGTGGTAGACCCCGCGTGGCCACGGTGCCGGCCCTGCAGAGGGCTCTGTGGGTCAGCAAGGTGCACGCCAGGCTCCTTCCTCTCTGCCCCCACCCTGGGGTGTGAGCCCTGCCAGGAGGGCTCCCCAGCGGGGGCAGGGCTTTGGCAGCATGACTTGGGGCAGTGCAGTGCCCTGCGATGGGGGCCCAGTGTGCCACCATAGCCTTGTCCAGGAGCGTGTAGGCTGTAGGCCCCCAGGGCCAGCCCGAGCCCTCCTAGGTGCTGCCCCGTGGTGGGCAGCCATGCCAGCCGGCCCCGCACGACACGACCCATGTGAGAGGCTTCTGGTTGCTTCTGGTGCAGTGGGGACGCAGGCTCGAGGCTGGCACCTGACTGGCTGACCGCAGGGAGGGCTGGCTAGCAAGTGACGTGGGAGGTGACGGCTGCGTGTCGGGCCCGCGGGGCCGGGGCCCTGGGTGGGAAGTGCCCGCGGGCTAGGCCTCCCCGGCTGGGCCGGGTCCGCTGGGCGTGCGGCCGCCCTCGGGGGCCTATGGGCGCTCCCGTCTGAAGAGGGCACAGGCCAGTGCACGGGGCTTCGTGGCCTGAGAGGGCGACGTGGCCCCCCTCTGGGGTGAGAGCGCCAGGCTGCAGGGGCCGCCCCGCTGTCCCGCCCCCTGCTCGCCCCTCCCTCGGGAAGGCCTCTCCCCGCTTCCTGCCTGTGTCCATCTGCTGGCTCCAAGCGACGGGTGTGGACACGGTCCTGGTGTGTGTGTGCACACGTGCGTGTGCAGGCGGGCCCCCACCCCCCTGTCCCCGGGGCGCGTGGCCTCGCTTCTCCCAGCCTCAGTGTCCTCACCTGTGCATGGGGGTGTTGGCAGGCTCCCCCAAGGGAGGGATGTGGTGGGGGGCATGGGGGGCGGGCGAGCGACTGGTGGCCACAAGATGGGTGCGTGTGTGTGTGCGTCTGTGTGTGCCTGTGCGTCTGTGTGTGAGTGTACGTGAGTCTGTGTGAATGCTGGTGTGCATGTGTGGGTGTGAGTGTGTGCATCTGTGTGTGCACATGTGTGCTGGTGTGCATGTGAGCCTGTGTGCACGTGTGGGTGTGTCTGCGAGTGTGCATGTGAGTCTGTGAGTGCTGGTGTGGGTGCGTGGGTGTAGGCCTGTGTGCATGTGTGTGCGCGTCTGTGTGTGAGCCTGTGTGCACATGTGTGTGTGTGTGCATGTGTGTATGTGTGCGTGTGAGTCTGTGTGAGTGCTGGTGTGCATGTGTGGGTGTGAGCCTGTGTGCATGTGTGATTGTATGCACATAACCGTTCTCGTGTGCAGACTGAGGGGACGGAGGGCCGGGTCCTCTGAGCTGGAGGCACCTAACTTGCCCTGTGGCCTCTGGCAGGGATGCCCCCTCTGCCCTTGAGAAGGGGCAGCCGGGCCAGGGCCGCTGGTGAAATCCCGTCCTTCCTGCCCCTCGGGTCCTGCAAGGGCAGGGGAAGTGCCCAAAGCAAAGGAGGCAGCAGGCCTGAGTTCCCCTACCCGGACGCCCCCTCCCACCTCTCAGCTCCCCAGGGGGCCGGCAGCAAGCACCGTGCCAGAGAGGGGTCCCAGGCCGGAGTCGCTGACTGCGGGGACCCTGGCCGTGTTGGGGTGTTTAGTGCCCCTCCAGGCGCTGGCTTGACTGCTGGGGAGCGCTGGCCCCGGGGTTTTCCTGGGGATCCCAGCAGCGGGCCTGCCAGCTCTGCTCTCATGGCAACGTCCCCCCACCCTCCGCCGTGCAGCCCCCCGCCCCCACCCTGGGCTGGGAGGAGGACAAGGCCCTGTCTTGGCCGCCCCTCCTGCCTGAGGCCTCCCACCAGCTAGATGTCAGTCACATACGACCACGTGCAAACGACGGCTGACCTGGTCCAGCAAGAATCCTAGCCACCCCGCTCCCACCACTGTCTATAAGTAAAACCGTAATATTTATAGTGAGGGTGCTCACAGAGCTTTGCTACTTAATTCTGCCCCCCCGCCCCACACCCAAGGCCCCCCGGTCGGCACCCCTGCGCCCAGGGCCGTATTGAGTGCGGGCATCCCTGTAACTGGGCCATGGCGTGGGGGCCGTGGGGGTGGGAGTCACGAGCAGATGGAGGACAGTGCCTGTGGACCCCCGGAGGCGGGTGTCGTCAGTCTCACTGCAGGTGGGGGGCGGTGCTGGGGCCTAGAGAGGCTTGGGGCTCACCCGGGGCAGAGCAGGTCTGACTCCTGAGCTGCCTGCTCTCCTGAGGGCTCAGCCATGAGGGGTGCTCTGGGCCTCAGTTTCCCCACTTGGTAAAACGGGCCTCTCAGCTCTGTCTAGAGCACAGACCCCAGGGACCCCACTCTCAGGGTCTCAGGGACACTGCTCGCCAGGGTTCTGCGTTCCCGTCACTTGGCTGTGGTCCAGATGGGCCCGTGTGGCTGCCTCACTCTGGGTCCACCCTTCTGGCCTGTGACCCAGTCTCCTGCACAGATGGTGACCTGAGGAGGTGCCCGGCTCAGCCCAGCATCCGCTGTGGGTGGGGGTAGCGGGGACCAGGCCAGCCAGCTTGAGCTTCCCACCCAGCCCCACCAGCTGTCAGACTTTGCAGAAGCGCCAGGCTTGCAAAAGCTCTGGCCCGAAGCCTTCTGCCTGGCTCCGTGGCCCAGCTGGTGCGGTCCGCAGCGTCGGCCGGCCTGTCTGGAGTCCGGCTGCACCAACGGAAAGTCCCTCACTTGAGTCAACATTTGGGCTCGGAGAGCGAAGCCCCTGGCGGGGGGCAGCTGTGAGCAGCCGTCTATGGAGGCAGGAAGGAGGTCGGGCTGGCCCTCAGGATGCCCCATGGCCCAGACAAGGGCACCGCTGGGTCCCGGTGTCTCCGAACGGTCGTTGGTGGGGCCGGCGTGGTGGAGAGGGGTTGACGTGGGCTGTTATGGAGCTGTGTGGAGCCCGGGGACCCCAGGGAGCCCCAGAGTGGAGCCCTCACGCCCCCAGGCTCGGAGAACGGAGGCTCCCCTGGCCCCTGGGTTGAGGGGCTGCAAGCGGGCCCTTCCGCACAGCACGGCGGCCGTGTGTGCACCACGGCCCCCGGGAGTGGGCTTGCACAAGCTCCCCTCTGTGCTGGGGTCCCCAGGGGCCCTGCTAAGCTCTGTCTGAGGTGGGCACTGAGGGCACCTGGGGTGTCGAGGGGATGCCTGGACCTGCTCTGGCTCAGCAGGGCAGGACCACGGGAGGGTGGGCCTGGGGGCTTGGCGGGCGGGGGTGCCGCCCCATCCTGGTGCCGCTGCTGTCTCTCAGGGGTGTCTGGCCGTCCGTGGGGCTCTGCCCAATACGCCCGGGGCTCCGCTGCGAGGGTGCTGGGCTCTGCGGCAGCCCCTCGGGCCTTGGACTAGGCTTCTGCCCGCTGTGGACTCCCCCTGCTGCTCTGGCCCGGGGTCCTTGCTGTCCCCAGTAGAGGTGGGGTGGTGGGGTCAGCCCAGGACACGGCAGGAGCCCCTTGGGGCTTTGCAGGGCTCTGGGTGGGGTCCACAGCTGGGCTGTGGCTCAGTGTCCCACTGGCCTGCGGGGTGACCTCAGGGAGGTCTCAGCGCCTCTTAGGAGAGGGCAGCCTGAGCTACGTGGGCTCTGAGATCGAGGGTCTGTGAACGCCCAGCGTGGGGTGCCTGGTCCCCTCGGCCTTCCTCCGCGTGGGTCTCATTGGTGCGTGTTGAAATAAACCCTTCCCTCTCTTCCTGGTTCCCAGAGACTAGGCTGCCCCTGTCTGCCCAGTCCTCCAGCCTCATGCTGGACACCCCCTCTGCCTCGGCGCATGCCCCGCCCCTGCCTGAGCTGCCGTCCCTGCCTTTCTGTCTCTTCAACTGCGTTGCCGCTTCTTCCGGGAAGCCATCCTGGCTGTGCCTGCGTCCATAGCCCATGAAAGCCCTTCTCACTCCACTTCGGGATCCCTGCTGAGCTGTTGGCTTCCTGAGAGCGGGGCCCTGTCTGCCTTGGCCCTGGGTGGTCCTGGTGTGAACCGTGGTTGAATGAATTAGCGAGAGGCGGCGCGCTCTGTTCTCAGAGTGCACAGTCCCCCCGGGAGCGGGAGGCCGGGCTTGGGGCAGAGACGGGGCTGCGGTCTGGCCGGCCCCGAGCAGCCTCACTCTCCCTGGCCCTGGCTGGCTGGCGGACGTGCTGCTTGGGCCCCGGGGGCAGAGGCTGCCGCGGGAACTGCGGGCTGACCAGTGACCCCCTACCCCGCCTCAG
Seq C2 exon
CCGTGCAGGAGGAGCGGCAGCGGGGCAAGGACCGGGGCGAGAGCGAGGTGGAGTCCAGCAGCAGCGCCAACGAGGACATGCCAGTGGAGAAGATCCTGGAGGCCGAGCTGGCCGTCGAGCCCAAGACCGAGACCTACGTGGAGGCGAACGTGGGGCTGAACCCCAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017851:ENSBTAT00000023729:3
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=0.544
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NA
C2:
PF0010425=Hormone_recep=PU(2.1=7.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development