BtaINT0127980 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016801 | RXRG
Description
Bos taurus retinoid X receptor, gamma (RXRG), mRNA. [Source:RefSeq mRNA;Acc:NM_001075408]
Coordinates
chr3:3617405-3626468:+
Coord C1 exon
chr3:3617405-3617584
Coord A exon
chr3:3617585-3626307
Coord C2 exon
chr3:3626308-3626468
Length
8723 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CACTTCCTTGTCCCTGCCAGCTG
3' ss Score
7.62
Exon sequences
Seq C1 exon
GAAAGCACTACGGTGTGTACAGTTGTGAAGGCTGCAAAGGGTTCTTCAAGAGAACCATAAGGAAAGACCTCATCTACACTTGTCGGGATAACAAAGACTGCCTCATTGACAAGCGCCAGCGCAACCGCTGTCAGTACTGCCGCTATCAGAAGTGCCTGGTCATGGGCATGAAGAGGGAAG
Seq A exon
GTAAGGCTTCCTGCTACCCTGCTCTCCACTCAGGGGAGAGAGCAGTTTGCACATACATAATGGAAGCAAGTGCAGGACATCGGAAAGAGTCCTGCTAGGCTGGACTATGTGAACAAGTTTGAGGCAGAGGAGGGAATGACTTTGGGTGCCATGATTTCGCAAGTGCTGCAATTGAATGCCTCCTGCCCTGGTAAGTGTGTATCCTTAAGCAAAGCGAGCAGGAACATCTTCCTTCACCATTCTCACCTGTCCTGGACCTCAGAAGATGGTCCAAATGGGACCCACTCTCTTCCTCTTCCAATATCCAGGCAGTGTTAGAGCTGAGGTCTCAGGGTGCTGGCCCACCATGGAGCATCAGACTGACCTTCTGGGCAGAGCTGACTCTCCCCTCTAATCCTCACCCTGGGGAAGCCTGCTGGTTTGATTAATCTCTCTGGGCTTTTATAACCTTGGTCTGCTATAAATCCTCTGAGATTGGTGTATTCCAAAGTCTTTGGGGATTATTGGCATTACCAATAATCAGACAGCCTTCTCATTCAGAGAGATCGTCATTGTGTACTTTTAAAATGTTTCAAATTTACAGGGTAGGTTAGCTGGGTTGTCGTAGGGAAAAAAATCTGAACATGCTTTCTGTTTATTTACAAGATCAAAAAGTCTTTCCATTAAGTAACACAAATAAATCAAATCAACAAGTTAATTAGCTAGTGAACTCAAGAGGTACAGGGTGTAAATGGTAAATCTTAATAGATTCAAGAGTCAAGAGCCTCTCAGAAATGGAAACAAGGCATGTTTTTGTCTCTCCCAAGTGACTCTCTATTCTTAAAAAACTTCTCTTCTATGGGGAGGGGGGAGGCTGGCTAAAAGATCCAGTGAAAAAAGGGTTTGGACCCCTTATAGGAAAGAATCCTACCAGCAAGGAAAAAATGGCACTCTTACAATGTTTGGGATGGAGGTGGCCCTTAAGAATAACTTAATAACCCTAACCATTCTGAAAGTGAAAGTGTTAGTCACTGACTTGTATCCAACTCTTGGTGACCCTATGGACTGTAGCCCACCAGGCTCTTCTGTCCATGAAATTCTCCAGGCAAGAATACTGGTGTGGGTAGCCATTCCCTTCTCCAGGGGATCTTCCCAACACAGGGATTGGACCTGGGTCTGCTGCACTGAAGGCAGCTTCTTTACCTAACCATTCTGTAGCTGAGGAAATAGACTTGGATTGATGGAGTGAGTTTCCCAAGGTCCCAAGGACAGGTGATAAACAGAGACTGGAACTTCTTACTTCCAGGTCAGAGCTCATCTCACATCTCTTCTCCTACCAGGGCAAGAAGGCACTATGGAACGAAGGAGGGAATCTCACTCTGATATCTGTCAAGAATCTCAAATTGACAGATCCACACCTGCCCTCTCAGCCTGTTCATCATGTGGTTCTCCCCATTTTAGGAAATAGCCATTTTTCAGCTACTCAGATCAAAAGCCATTGAACACCTCTTTTTTTTTTTTTTCATGCACCACATCCAATGGGTGAGGAAATCTTGTCTCTTTCTCAAAATATGTTAAGAACCTTTCCGTGTCTCACCATTTTTACTGTTATTGCCAAGCCACTGTTTTTTGTTTGTTTGTTTGTTTGTTTTGTAATAATACAAATAGCCTCCTAAGAAGTTTGCCTGCTTCCATCTTCATCTTCCTTCAGTCTCTCCTTATCAAAGCAACCAGAGCGAGTCTTTGAACAAGTGGATCAGGTGAAGCCTTTCTTTCGCCAAAACGCTCTAGTGCCTTCACTTCTTACTTAGAAAAAAGGCAGAATCCTGGTTATGACGTCAAGTCTGTACACGGTCTGGCTACCCACTGTCTTTCTGCTCCAGCCTCAGGGCTTTACACTTACTATTCTGTCTGCTCAGACTGCCCTCTCCCAGGTGTCTTTTTGGCTCACTTATCCTTCATATCTTTACTTGTCAACTTCTTAAAGTTTTGCCTGACTACAATGACTCAAATCACATCAACCACCCCTAATACTTCCCAGTTTATTTCCTACAGCATTTATTACTATCTGACAGGAATACACAGAAGAACTGTACAAAAAAGATCTTCACAACCAAGATAATCACAATGGTGTGATCACTCACCTAGAGCCAGACACCCTGGAATATGAAGTCAAGTGGGCCTTAGAAAGCATCACTATGAACAAAGCTAGTGGAGGTGATGGAATTCCAGTTGAGCTAGTTCAAATCCTGAAAGATGATGCTGTGAAAGTGCTGCACTCAATATGCCAGCAAATTTGGAAAACTCAGCAGTGGCCACAGGACTGGAAAATGTCCGTTTTCACTCCAATCCCAAAGAAAGGCAATGCCAAAGAATGCTCAAACTACAGCACAATGGCACTCATCTCACACACTAGTAAAGTAATGCTCAAAATTCTCCAAGCCAGGCTTCAGCAATACGTGAACTGTGAACTTCCAGATGTTCAAGCTAGTTTTAGAAAAGGCAGAGGAACCAGAGATGAAATTGCCAACATCCGCTGGATCATGGAAAAAGCAAGAGAGTTCCAGAAAAAAACATCTATTTCTGCTTTATTGACTATGCCAAAGCCTTTGACTGTGTGGATCACAATAAGCTGTGGAAAATTCTGAAAGGGATGGGAATACCAGACCACCTGACCTGCCTCTTGAGAAACCTATATGCAGGTCAGGAAGCAACAGTTAGAAATGGACATGGAACAACAGACTGGTTCCAAATAGGAAAAGGATTATGTCAAGGCTGTATATTGTCACCCTGCTTATTTAACTTATATGCAGAGTACATCATGAGAAACGCTGGACTGGAAGAAGCACAAGCTAGAATCAAGATTTCCGGGAGAAATATCAATAACCTCAGATATGCAGATGACACCACCCTTATGGCAGAAAGTGAAAAGGAACTAAAAAGCCTCTTGATGAAAGTGAAAGTGGAGAGTGAAAAAGTTGGCTTAAAGCTCAACATTCAGAAAACGAAGATCATGGCATCTGGTCCCATCACTTTATGGGAAACAGATAGGTAAACAGTGAAAACAGTGTCAGACTTTATTTTTTGGGGCTCCAAAATCACTGCAGATGGTGACTGCAGCCATGAAATTAAAAGACGCTTACTCCTTGGAAGAAAAGTTATGACCAACCTAGATAGCATATTGAAAAGCAGAAAAAAAAAAAAAAAAGAAAGAAAGAAAAGCAGAGACATTACTTTGCCAACAAAGGTCCGTCTAGTCAAGGCTATGGTTTTTCCTGTGGTCATGTATGGATGTGAGAGTTGGACTGTGAAGAAAGCCGAGCACCAAAGAATTGATGCTTTTGAACTGTGGTGTTGGAGAAAACTCTTGAGAGTCCCTTGGACTGCAAGGAGATCCCACCAGTCCATTCTAAAGGAGATCAGCCCTGGGATTTCTTTGGAAGGAATGATGCTAAAGCTGAAACTCCAGTACTTTGGCCACCTCATGCAAAGAGTTGATTCATTGGAAAAGACTCTGATGCTGGGAGGCATTGGGGGCAGAAGAAGGGGATGACAGATGATAAGATGGCTGGATGGCATCACTGACTTGATGGACGTGAGTCTGAGTGAACTCCGGGAGTTTTTGATGGACAGGGAGGCCTGGTGTGCTGCGATTCATGGGGTCACAAAGAGTTGGACACGACTGAGTGACTGAACTGAACTGAACCGATCACATATTTAAATTTTGTCTACTACCTGTCTCCAAAAAGGCAGGGGTATTTTTCCTGCCTCCCTACCCCCCACTGCTGTATCATCAGTGACTAGCACATAGTAGATATTTAGGTAATATTTGTTGAGAGAATCAATGAGTGGTTTAAACCAAATATTGGAGTCAGATGTTTTAGTAATTCAGATGCTTCTGTATGATTCATTTGCTCATTCATTCATTCATCATGTATTAACTGGGTGTCTACTTTATGTTTGTGTCATATTTGCTGTAGAGGGGTCAACAGTTTTCTAGACTGGAACATGTGATGTGAAAAATCAGATGGTAGAGACTGTCTTCTCTTCACCAGCATAGAATTGATACTCACTTTTTGTAGCTCCCACCACTGTGATAGTCAAAACGTTAAATTAATGACCCCAAGGTGTGTCTCGCATAAGCGTAGAGTGTGATTGCTACTGACTGAGAATCACCTATATTCGATTCTATTGCTTCACAGTCTAATTCTGTCTCTCAAAACTCAACCTAAATATTTCCGGCTCAATTAGGGTCAGAGTGGTTCACGGAGAAAACGATGGGAAATGTGATTCATTTTTTTAAAAAAGTAAGTCAAACAAGGACGTGTGGATTATAACAGCCTGGGCTGTCATTTTTCTACAAAAATTATTTATTTTAATTGGAGGATAATTACTTTCCAATATTTTGATGGTTTTTGCCATACATCAGCATGAATTGGCCATATGTGTACATGTGTCCTCCCGATCCTGAACCCTCCTCCCACCTCCCCCCCCCCCCGCCCCGCCTCCACCCTACCCCTCTATGTTATCCCAGAGCACTGACTTTGGATGCCCTGTTTCATGCATCAAACTTGCACTGATCATCTGTTTTTCGCATGGTTTCAATGCTATTCTCTCAACACATTCCACGCTCTTCCCCCACTGAGTCCAAAAGTCTGTTCTTTATGTCTGTGTCTCCTTTGCTGCCCTGCATACAGGATCGTTGGTACCATCTTTCTAGATTCCATATATGTGTGTTAATATATGGTATTTGTCCTTTTCTTTCTGACTTACTCCGTATAATAGGCTCTAGATTCTTTTAAACCTAGTATTCTGATTCATTATCAGAAAGCTGGGTCCAGTTTTGGTTCCTGAATTAAAAAAAAAAATAATGTGGGTCTTTAGTTTCTTTAGGTAGATATATTCCTAAGTATTTTATTCTTTCCATTGCAATGGTGAGTGGAATTGTTTTCTTAATTTCTCTTTCTGTTTTCTCATTATTAGTGTATAGGAATGCAAGGGATTTCTGTGTGTTGATTTTATATCCTGCAACTTTACTATAGTCATTGATTAGTTCTAGTAATTTTCTGGTGGAGTCTTTAGGGTTTTCTATGTAGAGGAGGCAACCAGAAGGGAAAGAGACACGTGTACCCCAATGTTCATCGCAGCACTGTTTATAATAGCCAAGACATGGAAGCAACCTAGATGTCCATCAGCAGATGAATGGATAAGAAAGCAGTGGTACATATACACAATGGAGTATTACTCAGCCATTAAAAAGAAAACATTTGAATCAGTTCTAATGAGGTGGATGAAACTGGAGCCTATTATACAGAGTGAAGTAAGCCAGAAGGAAAAACACCAATACAGTATAGTAACGCATATATATGGAATTTAGAAAGATGGTAACAATAACCCTATGTAATAGACAGCAAAAGAGACACTGATGTATAGAACAGTCTTATGGACTCTGTGGGAGAGGGAGAGGGTGGGAAGATTTGGGAGAATGGCATTGAAACATGTGAAATATCATGTATGAAACGAGATGCCAGTCCAGGTTCGATGCACGATACTGGATGCTTGGGGCTAGTGCACTGGGACGACCCAGAGGGATGGTATGGGGAGGGAGGAGGGAGGAGGGTTCAGGATGGGGAACACATGTATACCTGTAGTGGATTCATTTTGATATTTGGCAAAACTAATACAATTATGTAAAGTTTAAAAATAAAATAAAATTAAAAAAAAATAATGTGGTGAAACAAGAGTGATGAAAAGCTGAATCATTAACAATTAGGAGTGGAAAAGGGCTGTTTGGGAAATTCATACTATTTACCCTGACAAAGAGAAGGTGAAGAAATGAATCAATTCCTTATCTCACTATATGAAATGTCACTTTAAAAAAGTGACTGGACAGCTTTCCCTTTGCCACTATAATTTCTGGTCTTTATTTGCAAAATTTAGGGCTTAGTTCATACACCTTCTTGTGGACAAGAATAATGAAATTCTGGAGCAGATAACTGAGTGATACTATGGAATTTATATTACTAGAGAGTTGGACAGATAGAAAGAGATAAAACTGGGGTGGGCTCAGAACTCACCTGTCTGGGATCAGGGTACATATTGGGGTGAAGCTGAAATGGACATTTGCTGTTGTCTGATGTAACACATTTATTTTCTGAAAGAAGAAGAAGTTCTGAGAGTCTAGAGTCTTGCCTAAGCTTACATAGCAAGCTAATGTCAGAGCTGCTATAGGATTAAGACCCTCTGGCATCCAGGCCACCAAACAATCCTCAGAGTTCTGGGGTAGTCTGTTTCCACAATTTTGGGTCATATAATGTGGTTTGGGTAGTAAGATAATGGATTATTTTGAGGCAATTTAGGCAGCATTTGATATCCCTGTGGATTTATTAATCCAACCAGCCTACAGCCTTGGAGGTAGTAAAGAGGGGTTAGAGGTAGGCTCAGCCAGCCAGCCTCGGTCTACCTACAATGCTGACTTCATCATTTTCTAGCTCTGTGACCTTAGGCAGGTCACCTAACTTCTCTGTGGTTGATAGCTCTTCAGAGGGTTAAATGACATATAATCTATGAAAAATGTTGAGCACAATTCTAACACAGAGAAAGAGCTTGAGAAATTTTGGCTATTTTAGTACATCCCAATAGATATATGTTGGACTAAAGAATAATCCTGTTTTAGATCCCTCTGTCCTCTAAATGTAGCCTGATGTATGGAGTAGCAGTAGCTCAAAATGTCTGTCCACAGAGAATTTCCTCCAACCAGAGATACTGGACTCCTACTGACGACAGGAAGATTCATGGCACACACACGAAAAGAAGTGACTAGAAAAGGATCACTCAATTAATGACAGAATTGGGATTAGGATCTAATTCCCTGAAGCCAAGGTTATTTTCTGTGAAGCTTGAAAGTTATTTTCCTTGAGTGTTACAAATCTATAGAAGAAATCAATTGAGGATCACAAAAGGAACTTATATTGCTTTCCCATCTTTTCAAATTAAGACAAATAGAAGCCCATTAACCTATCTTAAAAAATTAATACAAGAAGCATTCAACTTTAACCAGCAAATCCAACTGAATATAAAAACACATATGAGAGTTTCTGTATGTTGTCAGTGAATGAGGGCTCACAGAATGGACAGAAAGAAAGGATGAGGGGAAAAGAGAAACAAGGAGAGAGAGGATGAGGTCTAAAGAGGGGATGGAGAGAGGACCAGAGCAGAGTCCAAGAGTGTAAAAAGAAACCAAGGGGAGGAAAAATGCTACTTTTTTAACTTTTAAATTATTACTTCATTTAATCTACAGAAAACAATCTAGGTTAAGTACTACAAGCCCCACCTTACATATAGCGAGGCTGAGGCTTTGTAGGCTGAGTAGCATGTCTGATGCTACTAGCTAGGAAATGGTCAGGCCCATTCTGAAAAAGATTTTACTCCAAGTACATGATTTTTTGCTCTTCTGCTATTTTCTCATCTTTGTTCTCTTTCTCTCCTGTTTCTTCTTTTTCTTAATCCCTTGCTTTAATCTCTTTTCTTCCTTTACTCCTTCCTTCCTACCCTCATTCCCTGTCAACCCCTGAGTAGTATTCTCATCTTGAGGCTTCTTGGTGCGTCTCTATTTGAGACTGTGATGTATCAGCTGTGTCTGTGAGGCAGACCCTTTTCTGACCTACTTTGACAGATCGATAATATCCCTTGCGTGACAAACTAAATGTCCAGCATCCAGTCCCAGTTCATTCTGCAGTCTCTGCAGCTCCCTCTGCCCTCAGAGAGTAGGAGGTGCCTGGGAAAGTGCATGATGGGGAGGGAAGGAGAGGGGATGAGACATAGAAGTCTCTGATGCAGTAGTTATCACTGAGGTCCCGCTTAGCCACTGTTTAGAGTATACTTTTCTTGATTCTTGGGATTTAAAAAGATGTGTGCTAATATTGAATTCTGTTTATTGCTACTAGGAATAAGATGAAAACTAAAGCTTTTGGGAGAATTGAAACTAACCTCACAGAGACTGTCCTCCCAATGAAGAGGACAGAATTGGGGAAGGGGTCTGGCTGACATTCTCATGCACAGACCCAGTAGGTTCTAGATGAAAACCCTAAGTTTTGGCAATCTGAGAAAATTCCAGCCTCCCCCTCTGCCTGTGTACCCTTCCTCACCCCCTAAATCATCTACTGATTCTGAAATGTCATCTAGGTGACATTCCTCCAGCCTCCTGCTTACTAAATGCCCGCGTGGCTCCCTAAAGATCTTCCCTGACAAGTCAGATCAGGTGATGTTGTGTTCAGGCTGGTGCACTAGGGGCAGACCTAATGGGACGTGAATGCCAAGGATGATGCACAGGATCTGACAGAGGGAGTTTTTAGAGTAATGTGCTTGTTACTTAACTATTGCGTGCTCATAGTTTATTAGAGGTAGCCGGTGGAGAAAGGACATGGCATACAGCATGCAAGGAGATGGTGGTTCATTTAAAGAAAGGGCAGAATTGGAGGTAATTAAAGCTTAAAGTGCATACTTCTTAGAGAGGTCACCATTATGAACTGGAAAACATATGGACTGAAAAATCCACACTTCTGCACAGGCATAAGCAAACACTCTGCTTTCTTGGTTTCATCTGTTAAAAGGACAATGTCCTGATTCACTGCCATGATGGTGCCCATTTTATAGATGAGGAAATGGAGGCTTAGGGAGGTAACTAAATTTCCCACTGTTGTCCTGGGCACATGGTAACACCTGCACTTCCTTGTCCCTGCCAG
Seq C2 exon
CTGTGCAGGAAGAAAGGCAGAGAAGCCGGGAGCGGGCTGAAAGTGAGGCAGAGTGTGCCAACAGTGGCCATGAAGATATGCCCGTGGAGAGGATTCTGGAAGCTGAACTTGCTGTTGAACCAAAGACAGAATCCTATGGTGACATGAACACGGAGAATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016801:ENSBTAT00000022350:4
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=0.574
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NA
C2:
PF0010425=Hormone_recep=PU(5.7=20.4)
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]