RnoINT0103024 @ rn6
Intron Retention
Gene
ENSRNOG00000013232 | Nr6a1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:MGI Symbol;Acc:MGI:1352459]
Coordinates
chr3:23037170-23046835:-
Coord C1 exon
chr3:23046581-23046835
Coord A exon
chr3:23037292-23046580
Coord C2 exon
chr3:23037170-23037291
Length
9289 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AACCTGTATCTGTTCTCCAGATT
3' ss Score
7.89
Exon sequences
Seq C1 exon
GTACGCTGTGACACAGGCAGAACTGTTTGCTCTGCTTTGCCGCCTGGCCGATGAGTTGCTCTTTAGGCAGATTGCCTGGATCAAGAAGCTGCCTTTCTTCTGCGAGCTCTCAATCAAGGATTACACGTGCCTCCTGAGCTCCACGTGGCAGGAGTTAATCCTGCTCTCGTCCCTCACAGTTTACAGCAAGCAGATCTTTGGAGAGCTGGCTGATGTCACTGCCAAGTACTCACCCTCTGATGAGGAACTGCACAG
Seq A exon
GTGAGAGCAGCTGACTGGGGAGGCTATCTGGAGCAACCAAGCCACCATCCTCCCTGTGAGGCAAGGCTGCCTAGCCTCCAAAGGAGGAGCATTAAAAGTGCTGCAGACCTAAATTGTAACTCTTACCCTGTCACATCCTAGCTTTGTGTCGTCAGCCAGTCACAGGTTCTACACGGATAGACTAGGTGGTACAGTCAGCCCCTCTCCCATACAGTCAGACTGGCAGGGTGCTGAGCTGTTGCTTTGAATGTTTATTACATTAGTAGAATGGTCTATCTGGGGAAAAACAAAAATCTGAATTCCCTCCTTAAGTGACTTGGGAGTCATCTTGGTATCAGTTGCAGGCAGTTTTATGTCACTGATTCTTTCTCACAGCATGGATAGCATGGGTGCCCTTGTACTTGTCTAGGATGGCAAAGTTGAAGTTCATGGAGTCCAGCCCTTAAGGGTTTAGATTTCAGTCTGCAGCCTAGCCCTGAGCGTGTTTCACAGCTTTGTACCCTGCCCTTACAGCCTGTCTGACTGCGTAGGCTCCACTGTGGCACCTGAGGTGCAGTGAGGTGATGTTAGGGTAGGGCTAAGCCAGGCGGGCTCCTGGCTCTTGTTTGCTTTACAGTTCTCTTCTAGCTGACCAGTATCCTCTAACAAACTCCTTCTCTAGAACAGCTCTTTTCCTCCATGCTGTTTCCACAACCTGTCCAAATGCCTACTTTACTCACTTTGTTTGAAGATCTAGGGAGGATGAGACCCTTGATTTCTGTTCTCCAAATTAAGACAAGTATTTCTTTCCCTGGTTTATTAGTTTATTCATATGGAATGCCTTACATAGCTTAATTCACATTTGAATACACATTTCAATAAACCACTGCTTTTGGACAGTTTAAATAGTAGAAGTTATATGATTTAAATGTACCCAAAACAAGGATAAATGAAATACAGAGAATATAAAATGCCAGTTTCTATAATTCTCTTCACAGGTTGGGGGTGCATCAGTTCTTACCATCCTATATATTGTATAAAAACAAGGCCAACACTTAAGGAGGGAGCAAAGCTTCAAGGCCTTTAGGAGCTCTGTGCACAGCTGAGTGGGAATCTGGGAACCGACTCTCTCCTTTGCTTTTTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGTGCTCTACCACTGAGCTAAAACCCCAACCCCTCTCCTTTGCTTTTTAAGCATTGCCTTGCTCGCTGTCTTAAGGGTGCACCTATCTGACAGTTTGTCCTATAAATAGCCTATAGCCTCTAATTCATTGTTTCTATCAGATTTCTGACTCTAACTCATAACTTTGGATTGAAAAGCTGTTCAGATAGCAGTAAGCTTGCTGTAATATTGGTTTAAAGATTTGTCCTCAGAGAGCCCAGCCTCCTTGTTTGCCTGGGATCTACTAGCTCTTCCTGGGACTGACTACTTGCAGCAGCAGTNAAGTAGCTAGTAGCACCAGCAGCAGTAGGTAGTCTCCCAGCGCAGCAGCAGTAGTAGTTAAGAGCAGCAGCAGCAGCAGCAGTAGTAGCAGCAGCAGCAGCTAGCATGTAGTAGCAGTAGCAGTCAGCAAGCAGCAGTAGCAGTAGTAGCAGCAGCAGAGTAGTAGCAGTAGCAGTCAGACAGTATAGCAGCAAGCGAGCAGAGTAGTTAGCACAGTANNNNNNNNNNNNNNNNNNNNNNNNNCTGCTGCTGCTGCTACAACTACTACTACTACTATTATTATTACTACTACTGCTGCTGCTGCTACTATTGCTACTTATACTACTACTACTGCTGCTGCTACTACTACTGCTATTGCTACTACTACTACTGCTACTACCACTACTACTACTGCTGCTACTACTACTACTGCTGCTGCTGCTACTACTACTACTATTACTACTACTACTGCTGCTACTACTACTACTGCTGTTGCTACTGCGACTGCTACTACTACTAACTACTACTGCTGCTGCTGCTGCTGCTACTACTACTACTACTGATACTGATACTGCTACCACTACTACTACTACTGCTACTACTACTACTGCTACTACTGCTACTACTACTGCTGCTACTACTACTACTGCTGCTGCTGCTACTACTACTACTACTGATACTGATACTGCTACCACTACTACTACTACTGCTACTACTACTACTGCTACTACTGCTACTACTACTACTGCTACTACTACTACTGCTACTACTGCTACTACTACTGCTGCTACTACTACTACTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACTGCTGCTACTACTACTACTGCTGCTGCTGCTACTACTATTACTACTACTATAGAACCTAGGTTCCTTGGCAGGGGACTTGGGAGCAGTTGAAGTAACCTGGCACCCTGTTGTGATGTGTGAGAAACAGGACACCAAAGTCCCATNNNNNNNNNNNNNNNNNNNNNNNNNGTAGCACAGCAGCAGCAGCAGCAGTAGTAGCAGCAGCAGCAGTAGTAGCAGTAGCAGCAGCAGTAGTCAGCAGCAGCAGCAAGTAGTACAGCAGTAGTAGCATAGCAGCAGCAGTAGTAGCAGCCAGCAGCAGTAGTAGCAGCAGCAGCAGTAGTAGCAGCAGTAGAAGTACTAGCAGCAGCAGTATGTAGCAATAGCAACAGCAGCAGCAGCAGCAGCAGCGCAGCGAGCAGCAGCAGTAAGCAGTAGTAGCAGGNNCAGCAGCAGTAGAAGAATCAACCTCTAAGTTCTGCTCCCTAAAGCTTGAATGGTTTTCCAGGCAGATACTCTGCAAGTATTACATGTGTTGGGAGTTGTTGGGGGTAAGGCTTCTAGGAACACAGACCATGTAGATAAAGGGTCTGTCTTTTATTCTTTTTCTCTCGTTCTTTCCCTTTCTTAAATGTCTAGTTCCATAGATTTAAACCACAGGGTTTTACAGGTACTATGTAAGTGCTCAACCATTGAGATGATATCCCCAACCTCTTGACATATGCTATATAAGTGCTCTGTTATTGAGATAACATCCCCAACTCCTTCTCATTTATTTTGAGATAAGATCTCACTAAATTTCCCAGGCAGACTGCAAACTTAGAATTCTCCTGCCTCAATCTTCTGAGTACCACACCTAGCTTAGACATGCTTTAAGTTCCGATTCTTATTTTAAGTAGCAGATACAATCTATAATACAAGGTCATATTGAATGGATTTCAGAGGGTATAAGGACTATTCACACACTGACTAAGGAAAGAGGGCTATACTTCCTGTACTTGGCTTACCACAAGAACAGACAATTAAGCTGCATTTTGAAGTGAGAATTTCCTAAGTACAGTATAGAGGGCAGTGTGAAAGCAGGAGACTAAAAGAACTCCTATAAGAGCTGGGATGTGGTGGCTCATGTCTTTAGTCCCAGACCCAGGCAGAGGTAGGCAAATCTCTGAGTTCAAGGTTAGCCTGCTCTACAAAGCAAGTACCACAACAGCCAAGAATGCACAGTAAGACCCTGCCTGGAGACAGGAAGGAAGGAAGGAAGGAAGGAAGAAAGGCAGGCAGGCAGGCAGGCAGGCAGGCAAGAAGGAAGGAAGGAAGGAAGCAAAGAAGCAAGCAAGCATCACCTAGAAATAATCTTAGATGACTATGTGTAAGGCTTCAAAATCAGGACACAGAAAACCGAGGGAAGAGAAGTGAATGGAGACAAAGGTACAGACAAGGCAGTTCACAGAGATGCACTTGAAAACATGTATACCTGTAATACCACTTTTGGAAATGGAGGATGGAGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTTTGAGAGTTGTTTTTGTTGTTCATTTGTTTGTTTATTTGTCTTTCGAGACAGGGTTTCTCTGTGTAGCAGACTGGCTGTCCTGGAACTCCCACTGCAGACCAGGCTGCCTCAAACTAACAAAGATACTCATTCCTGCCCCTGTCTCCTGAGTTTTGGGATTAAAGATATGCACCACCACCTTGTTTGGTTTTTTGTTTTTTGTTTTGTTTTGTTTTTGTTTGCTTTTTTTTTTTAATAAGACCTTGGATTTGATGTGTCGGATAGGTTTCGTGTGGTGTGGGCAAGACTAGAGCATGGCTTGAGTGAGAGACTACTCTGTATCCATGGAGAGGAAATCGAGGCAGGATGACACAGCAGTGACTTGGGAAATAGGGATCAGTGATGTGGCTTTGGCAGGACTCTGTGAGTAGGGAAAGTTGTAGGCCCAAGCTGTCTTAGCTAGGACGAGGCCTCTGGGAAGAACACGGTAGGAGATGAGCCCTTCTGTGTTGGCTTGGTGTCTGAGTTGCATACATGGAGGATCAGGAGGTCATCAGATCTGGAAGTTGAACATCTGGGGTCAGGTTAATCACTGCCAAGCATCCCGTTTCTGCTAAAATTCCAGGGCGAGGAGTCTAATTGGCCATAGCTCTTTCCTATTTTGCTGTACTACTCCCACTCCCCCAGGCAGCCTTTGCTTCTTCATAGCTCCTGAGTGTGAGTGCCTGCTGTCAGGAAAAGGCTTCCCAGATGATGCACGGCCAGCTCCTTTTCTCTTCTCAATACTGAATCAAGTTTATGGTGCCTATTCCTCATCAGACTGTTATCACACACGGAGGTGGACAAATGTGATTTAAAGCAGATTGTAGCACCAGCCAGTGACTGCTCCTAGCCCTAATCAACACCCTCTCACTCCCTGGAGAAGACACTTTGGACTTTAATGGGCACTTTTGACTCGTTCTCTAGCTGGGGAAACACAGTCTTTTTGCTCCTTTTTACAGAATGACAGCCACAGAGACTCTGAGTATATAACAACCAACAGAGTTTGTTACACCAATTTTATTATTGTCTTACTTACCTGATTGTTGCATCCTTGCCACCATGCTATGAGATTGGCAGATATATAACGTTGAGTTTCAGAGAGAAGAAAATGCAAGGCTACAAAGGGAGAAACAGATGAAAATTGCTTCACAGGCCTGCTGTGCTCCAAAGCCAGAGCTCGTCACCATTACACGTACCAAGTTCTTAGGGGGAATGATTTCCTAGTGTCTCCTGGGGGCTGTAATCTGACTTGTATGTGTACGAAGGTGGCAGTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTCTCTTTTTCAGAGCTGGGGACCGAACCCAGGGCCTTGCACTTCTACCACTGAGCTAAATCCCCAGCCCCGAAGGTGGCAGTTCTTAAAGACTGCAGCGATGGCTGCTGCTGGGGAGGTGCGTTTAGATGAGTGGGGAAGAGCTGGTCCCTCTGCCCCTGAGCAGGATATAACTCACACCGTGTCAGCTTCAGTTGCTGACTGAATGGTTCAGTGGTTTGGGGGATCCTGGCAGGAATGTTTTCCTTGCCCTAGAATGCTTGTGTGATAGGAACCTAGGAGAAGAATGGGTGTGTTTGTCTGGCTTTATGGCTTTGAATGCTGATAATTTGTAGACAGGGAATACAGGGGCATCAGGACTGTGGAGTGGGGGGCAGATGTGGAGGAGGAATGGCTGGAAGAGAAAGCAGGCCCGTGGAACAGAGAACAACTTTGTTTATCAAAGGGTGGGATGCGGGTGTGGAGGAAAGCTTTGCAGCCAAGCTGTGGAGACAGAGTGGGACTGCTGGGCTGGCTGCCAATACCAGCCACTGCCAAGGGACTGTGATGGCGACTGCTTGTAAGATACTTGGAAACGGGGGATGTACTAGTCCCAAGAGAAAGGACAGAACATATATACAGGTCCAAACACTTGAGGACTCCTTTGTGTCCCTTAAGTCAAGATAGCGAGGAAAAGGGTTGGCACTGCCAGCCCAGGGTCTGGATGATAGCCACACACCTGCAGACCCCACCGTGCAATAGTGAGCGCTTGGAGCGAGAGCTGGCTGATTAAGGGACAGAGCATTATTATTTGTGCTTGCTGCATTGCTCGGCTGGTTACCAGACGGATGTCAACAGCATTCTATCCGCCTTCCTTGTTATGCTCCACCTTAGCTTATCCCCACACTACTACTCCATGCAGACAGCATAGGAAATCAGCAGTAAAACCCCTTTTCTCTCTCAACAACTTAAGTAGCCAGCAAGTACTATTATAAGGAGTGGTCTTCACCCCCAGGCACACTACTTCCTACGAGATTCATCATCAAGCAAGTGGCACAGAAGTGCCTGGCACCTCCTAGGGCCAGGCCTTAGGATGAGATGCCATTATGGTTTCTCATGAGAGAGCATACGGCAGCCTCTCCCAGGTAGCACAGAAGAACTTGACAGGATTGGGGCAGATGGTACAGCCCTAGGAAAACCCCTGTGCTTGGAATTCAAAAGCCCTGGCTCTTTCTTACTATGCTACTTCAGGAGAGTCATACAGAAGTGTGTGGTTCATCTCACAGTTATCAGGAAAATGCCTGTGAAAGGGCCTTTCTTTATGTTAGGAGCAGTCAGTGGCTGCTCTGAACCTTCATTCCCACACAGGAACAAAGGAGATTTTGACTAATACACTTTTTTTAATTGGGAGGATGAGGCTATATATATAGTGCTAAAAGTACCCAGCATTCAACATGTAGTAGAATGGCTGGTAAGGGTTTTAGAGTGGATACTCAAAAAGAATTTGTTTGTTAATCAGTCTGGGACAGTAGTAATAAAGTCATAAAGGCCATTGGATTAGAACAGTGAGGAACTTGAATTAGCCATCACAGCTTACAGCCGCTCATATAGCAAACTGAGAGTCTCCTTGCTTTGTCAGCATGTCTGGGCCTCTTTACCTAAACATTCTCTATCCCCAGGGTCCCCAAAGTATAAAGTGTGGCCAGATTTGGTCCTGACTGCTAGAGCCAAGCTTCCTAAACTATTTGTCACATCCCTGCATGAGGCTGTGTAACTGAATGTGAGGGCATTACTAAAAGATTTTTAAACCTTCAACAAGTAGACATTATTTCAAAATCAAACTCCCTGTGTATCCTTTGTGTCTCCCTGTGAGCGCTGGCTGTACTCTGGCGGCCCATGAGCATGTTGCTCAGAGCATCCCTCATGCCTAGCTTCTAAACGCTCGTTTGATAACACATTGATAGCACACGCCCTCATACATAAGTATTGCCAGAGATACCTTGGCTTAGATCCCACGCTACTATAGTTTTTGCTCTTCGAGAAACAAGATGGCTTAGTTATAGGAAACGAAGACTGAGTATCCTCCTAATCATTCTTCATTGTTTTAAGTGTCAAATTAGATGTTTTTAGATTATGCAAAGTTTTATTTTAGCCAGGTATGGTAGAACATGTCTTGAAACCTTAGCATTTAGAGGACAGAGTCAGAAGAACTGAGAGTTTGAAGGCCATCTTCACCACACACCGAGATCAAAGCCAGCCTGGGCTATATGAGACCTTTTTTTTTTTTTTTTTTAAGTTTGCTGTTTGAGTTTCTAACTTGAAATTAATTTTGAAAAAAATGTTAAATTCATTTGACTTGGAATTAGGGCATAATTTTTAACAATTTATGAAATAACCCTAAATATACTTCTGCCACTTCATACCTAAACCATTGATGGCTATAAGATCAAGATATCAAGTAAGCCAGATGTGTTAGAACATTCATTTAATCCCCAAACTCAGGAGGCAGAGATGAGCAAGACTGAATTTGAGGCCATCCTGTTTTATGTAGTAAGTTCTAGACCAGCCAGGGTCTAGAAACTTGGTCTCCAAAAAAAAAAAAAAAAAAAGGCATTAACTCTGAAAACTTTGGTTCATGTCCTGCAGTGTCATCTACACAGAAGCAATTTAATTCTTCATAAAAATAGCAAGCATGTCTATCTCATTTATTCAACATGGATTTTTTATCTTTAACAAATGGTAAGATTACATGCCAAAGAATTGCCTTAAGTTTATTAGGACTAGAGAAAAGCACTTTCTAGGGTAAAGTACTTATAGCATGAGGACCTCTAGTTCAGTTATCTGTACTCGTGAGAAAACCCGGGAATGTCTGTAGCCACAGCACTGAGTGAGAGCAGAGACAGGCAAGTCCCTAGAGTTTGCTGGCCAGCTAGTCTAGCCAAATTAGTGAGATTTGGACTTCAATTAGAGACTAGTATCCCTAAAAAATAAGGTGGAGAACAATAGTAAAATGCACAGTGTCAACCTTGGGCTCCTTATGTATCCCTTACACACACACCTTACACACACACACACACACACACACACATACACACACACCTTACACACACAGCACCACATACACCAATACATAAAAAGAATAGAAATAAGATGAATTCCACTATGGTTTATTATTAGTATTATTAGATTTGTATACCTGTTTTATTACCTGTGTATCTGGAGTCCTGTAAGAATTCATCAGGCAAGAAGTCATGTGTAAATAGTTCAAGAAGCCTGTCTGTTCTGCATGAGCCAACTATCCTGGATACTAGAAGAGCCTTGGGAAGCTAGTCCAGGTTCCAGGTTCTCGTCCCACCACTAGCTAGATGTATTTTGGTGGGCCAATCCCCTCTCAGCTGTTGAACTTGAGTTTCTCGGCTGTATGTAGCTAGTGATTGTTTCACCCAGCTCTTAGGGTTGCGAATGCACAGAAGGTGCCCAGCACAAAGCCTCTTGTGGTATAAAGTCTCAGCAAGTGTTTCCTTCTACCCTGGGCTGAAGTCAGGAATGCCAGAAGATGTTTTTATTGTATATAATCTCAGCCTTGCTAGAAACAGGGAATTAGACAAACATAATTGGAAGCGTTTTCCACATTGTGGCTGAGGCTCTCAGAGAGTCACCATGGCAGCTGTCATTGATACTGCAGACTTCATCTCCACAAAAGCTGTGTCTTAATATTGTCACATCCCTCCTCTTTCTACCCCAGAGCTCCTTCAGCTCTTGTTAGCATAACCAGGCAAACATTTTGCAGAGGAAGCCCTAAAAGCTTACAAGGGTCAAATGACTCCCAGAATCTCACAGCTGTATGTGGTAGAGTTGCATTCGAACCTGGTTTTACTTGACTGTCTGACCTTGGAAACAGCAATTTACATAATCTATACTGGCTGCTATACAAAGCGTGGATTTCCCCGTGGGCTCCCTCTCCCGCAAGTGGAGCTTCTTTCCTATCATAGATAACATCTGTGTGGCCTTCCAGGCCTTTGCTTGTATCCAAGGTAAAAACCTGTATCTGTTCTCCAG
Seq C2 exon
ATTTAGTGATGAAGGGATGGAGGTGATTGAACGACTCATCTACCTGTATCACAAGTTCCATCAGCTAAAGGTCAGCAATGAGGAGTATGCATGCATGAAAGCAATTAACTTCCTGAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013232:ENSRNOT00000018751:6
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=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(43.0=96.5)
A:
NA
C2:
PF0010425=Hormone_recep=FE(21.2=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:
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]