RnoINT0103005 @ rn6
Intron Retention
Gene
ENSRNOG00000012682 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:RGD Symbol;Acc:68350]
Coordinates
chr3:23016671-23020441:-
Coord C1 exon
chr3:23020313-23020441
Coord A exon
chr3:23016788-23020312
Coord C2 exon
chr3:23016671-23016787
Length
3525 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACTCGATCCTCCTTTCACAGGCG
3' ss Score
8.16
Exon sequences
Seq C1 exon
CCGCTGCTGGGGGAAGAAGTTCCTGACAGCCCGATAGCCACTGCCCTACCTGGGGCCTGGGAACCTCCCCACCAGGACCCTGGTGCCCAGTGTCCACCCTTATCCGGCTGAGAATTCTCCTTCCGTTCA
Seq A exon
GTAAGTGAAGGCCGGGGCCCAGGCCTCTACTGGCCAGCCTCCCTCCTCAGTGCCTTGCTCCGGCCTAGACTGGCCATTGCCTGCTCTACAGAATGACCAGTTCCTACCACTCTGGGCAGGGAAAAGGCCAGGGGTCTCCCCAGGTCCATTTCCCCATTACAACACCCCTCATCTCTTCCTATGGTGTGCTACAGAGGAGTTAGGCCTATGGCGACAGACCCTAGGGTTTGAGGGTGGTTGGTGGTGTCTTAGAGGTGGCCGGGGGTTCCTGAGAGTATGGTGTTCCGTGTCTGTCCTGAGGGTCTTCTGGATTTGGAGTCTTGCTGCCTGAGTGTCTGGCTTGCCTCTGTGTAGGTATCTGAGCCTCCATGTGTGTATGTCTGTGTTTCTACTGTCAGTCAGGGTCAGAGTCTTACTTTGCTTCCCTGGGTAGATGGATGAAAGGGTGTGAGTCACTGTAAGGGTATACAGGGAGAGGGGGCATTCAGTGGAACCCTGGAAGAAAGGGCTGAGATACAGGCAGAAAGAGAGAGAGCAGCTTGGTGCCCATCCCCCATCCCACCAGGGATTTAGCCCAGAGCCCACATCATCCCAGATGCCCCTGGTGGGCTACTCTAGAGATGCCAGTCAGGAGCCCAGCCCCCATTTCTTCGTCCCCGCTGCCTACTGGCCTCTGTGCCTAGGTTCATCTGGGGACTTTTGTTTTGGTTTTGTTTGTGTTTTTGCGACTAGAAATGAAATGGCAGAGCCTCACACTGGGCGTGGTCTGCCATTGAACCCCATTCCCTCCCCAGTTTCACTTTCTGAGGGTTCCTATCTGAAGGGGATTTGTGCAAAAGCCTATATAGCCCCTATCCCTGAGGTGTAAGTGCTCAGTGTGGGGAGAGGGCCTGACACGCCTCTGGCTCTGGCTCTGTCCTTCTACGATTCACCCACGCAATTTCACTCAACACAGCTCTGTAGGACAGGAAGGCAGTGACTTGCCTGAGCTAGGACAGCCAAGTCCGTCAGATTCTGTGGTGCTTCCCTCCATGAATGTCTTGAGAGGCTCGCTGTGCTGGGTCTTCAGCTTTATGCAAGCACCCTAGTCCGGCACTCACAGAAACCCGAGCTACGGGGTGGGATCCATACCGAGTTTTGGATGGGTGGTTCTCGGCCAAGGCATAACTGCTGTACTTCCCCACTGAGGCTTTCTGGAATCCATTTCCAGCCTCCCGAACTGCCTTCCACCCCCTGGTGGCTAAGGGGACTGGGCTGGGTTGAGTAGGCCTCTTCAAAGATCTCTCAACCACAGTTACTTAACTTGAAAAGCTGTGTGGTCTGGTGGACGTTTGCAGCCCAGAACAACTGCTTTGCCACCTCACCCGCAGGACCAGTATTCCAGAGGCTCCCGTTCTCTCCCCCTCCCCCTATGCCCAAGCTAGAGGATAGCTCACAGGGGCGCGTGGGTACAGCTCCACAGCTTAGCTTTTGGGTCTCTGAGCCCATGGAGCTCAGGCTGCTTACCAGACCTTGGGATGTCGCAGAGTGGGATAACCATGCTTCCCATTTCCACACGAGCACCCTGAGGGAGACTCCTGGAAATGGGGTTCGCCCCGAACTCTTGCTGTCCACTCCACCGCATCCATTTTCAGCCACCCTCTGGAAGAGCTGGCTTCGGCAGCCTGAGTAGGCAAATGTGGCAGTGCTAACTCAAAAGTCTAGTTTCTTCCTTGCTTGTGCCTTGCCCACCACCCCACTCATGCCCTTAACCAATTTCACACGGCAAAACGACCAGCGTTCAGGCCTTGGCACCCCTAAACTGGACTAGCAAACCGGAGCTCGCCTCCTCCCTGCGCAGGCGGAGGCCCGAAGCTTCCCCGCGCACGGCACCTGACCGTATTCTGGGGTGCTCAGGGTCCCCAATTCTCTTAGAACTCGCGGGCTTCGGAGGATCGAGCTGGGACTGGAGGGCCAGGAGGTGAGGGTGAAGGCCGAGAGGGGCTGTAGAGAGGGTAGGACACAGGCCGGGTTGTGGGGAGGACAAGGACCGCGCCTCCGCCCCCGGATACCGCACGCGCGCATATAGAGCGGCCACCCCGGCCCCGCGCGGCGGGTTCGCGAAGCGCGCAGTGCGGCGGAGGGGCCCGGGTCCCAGGTGCGCCTCGAGCAGCCCCGCAGGCGGCGGGCGCGGGGAGGCGGGGGCAGAGCGGGACGGTCTCCCCGCCCCCGGCCCGAGTGGCCGTCATTGCGGGCGGGCGGGCGGGCGGGCGGCGCTGAGCCCGGGTGCGGCTTCATCGCGGGCGGCGGCGCGGCCAAAAGGTGCGGGGCTCGGTGCGGGCCGAACGCGGGGTGCTGCTCGCGGGAGCGGCCTGTGTGGGCGCCGCCGTCGTACCGGCCCTCACATTCCCGGCCACGGCTCTCGGGATCTGGACTCCCCGTCTGAGGTCTACCGGAGCCTGTATCCCCTTCTCTGTACCCCGTCTCCGCCGGAGGTCTCCGCCCCGCGCCCTCGACCCCGCTGCGCCCTCCACGCCCGCTCTCGGCCCGACGTCTCGGCTCGCCGGTGGGTGCCGTCGCTGCGTGGCTTTGTCTGCGGACCCAGCGGCCCGGCTCCAGGGTTCTCTGCTTCTCAGGGTCGGCCCCTGTCCCTCCACGGGGCCACGCCTTGGAGCTCTCTGCCCGCGTGTCTCCCCATCTCCGACCCTCTCGCTGGGCACCTTCATCTCTCCAGGTTTTCCGTTTGTGTTTCTGTCACTCTCGCTGCCTCGGTCTTCCCGGGGTGTCTCTCCTTGCTCGGTGTCTCTCACTGTGTCTCTGACTCTGTGTCTCCTTGGTTTTCTCGTTGGGCCTGTCACTCCTAGCCTCTGATTCTGTCTTTTTCGTTGCCCATCATCACTGGTCTTTCATCTTTTTACTACGTACTGTGTATCGATCTTTAGATCATCTATCAGTCACCGTTCATCATCTGTCCATCATGACCTCACCTATCATTTATCTATCTACATAATCTATCAATATCTACCTACCTACCTACCTACCTACCTACCTACCTACCTAACAATCAACCATCTACGAATCTCTCCCAATGTCTTTGACACAGCATTCCTGTCCCCGTCACCCAGGATCCCCTCTCCGTTGAGCAGTGCTGGCTGGGGTCTCTCTGTGTCTCTTCTAGACTCGTCTCTGCCTTAGGTCTCTGTCGGGCCCCCAGACCACTCCAGCTGTGTGCCCTACTTCGCCCTGGTTCCCTGGCGTCTGTCTTCCCCGCGCCTGAGCCTATCTGATTTTCTCAGAATCGGGGTTTTGTTCTCAGACAAACGAATCGGGATGGAAATGCATCGAATCCGAGGGTCCCGAATCGGGCGCGGCAGAGGCGGCAAGGAAGCATCCCTGGAGCGCGGCGGGTGGCTGAGCTGCAGCGCCGGGACGCGGCCCGCAAACCCCCGCACCCGGCCGGTGCTGGGGACCGCCCGGTGTACACAGACCAGGGCAACCCCAGGCCAGTCGCCGTTGGCCCGCGCTGACTCGATCCTCCTTTCACAG
Seq C2 exon
GCGGACGCCGCGGGCATGGACTATTCGTACGACGAGGACCTGGACGAGCTGTGTCCAGTGTGTGGTGACAAGGTGTCGGGCTACCACTACGGGCTGCTCACGTGCGAGAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012682:ENSRNOT00000017651:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=67.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
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]