RnoINT0102985 @ rn6
Intron Retention
Gene
ENSRNOG00000007607 | Nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:RGD Symbol;Acc:620029]
Coordinates
chr7:142912316-142916372:+
Coord C1 exon
chr7:142912316-142912423
Coord A exon
chr7:142912424-142915497
Coord C2 exon
chr7:142915498-142916372
Length
3074 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
TGGGTCTCCTCCCTCTCCAGAGA
3' ss Score
9.19
Exon sequences
Seq C1 exon
GCGAAAGTTGGGGTAGTGTGCGAGAAGGATTGCAGAGCGCACGCGGAACCAGACTGCGACTGGGTCCTGGGTCGCTGGTCCCGGCCACGGGGAGCGGGAGCCGGCCGG
Seq A exon
GTAGGTACTCCGCAGGGAGCGTGCATCTGTTTCTAGGGGTAGTGCATGAAAGAGATGGAGTGTACGCGCGGGCGGAAAGGGTTTTCGGGTCTGCTTACGAGGAGGGGTGTGTAGGGTGCATTTTGGTATTAAAGGATAGCTCTTGGAGTAGGGTGAGCGCGGGCTTAAGGTTTTAGGAAGTGGGCGAAGGGTCTGCAAGGTGCTTGGTGCCGGTAGGTAGTGGAGGCTTGTCCTCCTGGAGTTTTTCCCCGCTAGGATGCCCAGTGTGAGGCATTCTGTATTCTGGGTTTGGGTGTTGATTGCAGGGTTGAGGTTGTCTGAGCATGGGGCAGGGAGAGGTACATTGAGCGTCAGCGTTGCTGGGACCCATGCAAGTACAAGTAAGATTGGATTTCCACGGCTCTCCTTCCCGGGCTCTCAGTCCCTTTCCCCAGTGTTTACTTAAAACTTCGTAGGCAGTACTTACATTTTCTGATTCCCTTACTGAACTTTCTGTCTGAACGGCGCTGGAAGACCTGGGGATTGCTGAAGGAAATGGCTAGCCAGATTGGCTGGGTAACTGCCGTGTTAGATTCAGTTGTCAGAGTATCTAGAAGGAAACATAGCAGTAACCTGGTGCAGTCAGGGAAAGGGGCACGTGGAGACTAGGTGGAAGTTGCTCGAGATGGAGTCTTGGTGTGTTACCGACTTGGGGAGAACCCTTCTGTCATCCCGGACAGGCTTGCAGACCCCAGTGGTCTCTGTTGAATCTGTTAGGCAGGGTGCAGCCTACCAGCTTGTTCACCTAACAGGTGCAAGCCACCTTGTTGCCAAGGACCTGCCCCAAGCCGGATTCTCCCACTCCCTCCTTCAACCCCGCCTCTTCCTCCTCCTTGNNNNNNNNNNTCCCCCCCACCCCCACCCCCCACCCCACCCCCACCCCCAGGAGGCTAGATGCAGGTCTGTATCTTGTGTTGCCGACTATCTGCCTGAAGCAGGGTAGATTGGTGGGGGTTGATCCGGATGTAGGATGTCCAAGTGGAGAAACAGGATTTGAATGGAGCTGGAACAAATGCCCAGTCCTGACTGGCTGCCACCCTCCTTCCTCCACCCCCAACCCATCCCTGCCCAGGCTTCTTCTTGCAAACAGAGGCAGAAGTGGCCATATTTATTTCTCCCAGGTGCTGTATGCCTGAAGGACTTGCCACACGGCAGGCAGGCAGGGCTGGAACTGGGTTGGGGTGGGAGGCCACTGTTTTCAGGGAAGTTGTATGCCTGCCCGGCCAGCAGAGGAACTGTCCTGTCCGGGGAGCAGAGGAGCACCCAGGGGTGGGAAGGGGATGGGAGAAATACTGGGAGTAGAAGGTTTCAAGGTCCGGCATGTGGTGGCAGTCTCTTCCCATCCCACCCTCTGCTCCAGTTTGTGTGGCTTGTCTTCTCAACTAGAAAGGCTGTACAGACCCCAGACTTGGAGGCGGAAAAGGACACTAGGTCCTGGAGCCTCCTCTGCAGGTTTTCAGACCAGATGTGAACTTAAGGACCTCCTCCAGCTATCTCTGGTCATTCAGGTGCTTCAGGATTGGGGGGTGTGTGTTCCTTTTGCCAAGACCCTGGATACTACAGGAAACAGACATCTACTTTAGCAAAGGGACACAAGCAGGGACAGGTTGTCTCTGTGCACATCCACTAGTAGGTCCCTCCATTCTGCCTAATTAATTAGCTTGTGTCTACTGCTGGGTTCTGAGTGTTCTGTTATAAAATGGCCAGATTTGGAGTTGGGGAGATGGCTCAGTGGCTAAGAGCACCCACGTGGCAGTTCGCAACTGTCTGTAACTACTGTTCCGGGGGAATCTGACACCCTCATACAAACATACATGCAGGTGAAACACCGATTTACATGAAAAATAAAAATTAAGAAAAAAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAGAACCAAAAAAAAAAATTAAGAAAAAAGATAAATGACTGGGTTAGTTGAGAAAGTCCTGTTGCAAGCTGTGCTTTCCCCTGTCCAGAGGCTTCTCTCTAGACCTTCCCGCTCAGTTTCCCGGCCTCCCTTCAGTATATGGTATTTTAAGGTTTTATTTTTGATTTTTAAAATTGTTTTTAACTGCATTTATATGTGTTTCTCTGTGTGTGAGTATGGGTGTCCTATGAGGCTAGAGACATCAGATGTCCTGGAGCTAGAGTTACAGATGGTTGTGAGCCACCTGATGTAGGTGCCGGAAACTGAATTTAGGGCCGGTGGAAGAGAGTGCATGCTCTTAACCACTGGGCAATCTCTCCAGCCCCCAGTGTATGGTATTTAAAAGTCTGTAACAATGTTGCCCAACCCAGTTGAGGAGCTGGGGATAGTGAGGAGACCTAGTTCCCCCCACCCCCCACTCCTGGAAACATCTCAGAAAGTACAGAGTGGGTGCATAGCCTCAGATGGTAGGTTGGGGTGCCAGTGGGATCAGCATGCAGGGGGTGGGGCTGCTTTCTCCTAAGGCTACTGTGGTGGGATATAGTTTTACCTTGACCCACAGCTTCTACTCCATTTCCAGGATGTCTGTCTCCTAGACACTGTGTGGGGAGGTGAGGAAGGGAGGGGTGTATAGAGCCTGGGGTGTGCCGGGGACTGGTTGAAAGTCAGCCGATCTGCTTGGGGGGGATGGAGGGTGGACTGAAGCTCTGTGGGTTGCCTCTCCAAGCCCCCACCTGTGAACAGGGAGGTTGTGGGTTGCAGGAACACAGCTTCCCCCTGTTCCTATGGGGACATGCTGGATAGATGCCTTTCCTAGTTCCCAGGCCCACTGGGGTGTGGCCGGTCTTCTGACTGAGCCCTCTTGGACGGGGTCTCAGCCTATGAGCTTTGCGGCTCTTTGAGGTAGTGCTTGGGCTGTAGCATTAGGATTCTTGGGTTCTGTGGTCCTGTCACCTGGCTGCCCTGGGTCCTACCAACTCTTCTGGCTTCCCTTACTGACCCCTCCTCCTTCTCCCTCCCTCCCTTGGGTCTCCTCCCTCTCCAG
Seq C2 exon
AGATGCCCTGTATCCAAGCTCAATATGGAACACCAGCAACCAGCCCAGGACCGCGTGACCACCTGACAGGTGACCCCCTGGCCCTTGAGTTCAGCAAGCCCACCATGGACCTGGCCAGCCCCGAGACGGCGCCCACCGCACCTGCCACCCTGCCCAGTTTCAGCACCTTCATGGACGGCGGATACACCGGAGAGTTTGACACCTTCCTATACCAGCTGCCGGGGACAGCCCAGCCGTGCTCCTCGGCCTCCTCCACATCTTCTTCCTCGTCCTCGGCCACCTCTCCCGCGTCGGCTTCCTTTAAGTTTGAGGACTTTCAGGTGTATGGCTGCTACCCTGGCACCCTGAGCGGCCCATTAGACGAGACCCTGTCCTCCAGTGGCTCTGATTACTATGGAAGCCCCTGCTCAGCCCCGTCACCACCTACACCCAACTTCCAGCCATCCCAGCTCTCCCCTTGGGATGGTTCATTTGGCCACTTCTCCCCCAGCCAGACTTATGAAGGCCTTCGGGTATGGACTGAGCAGTTGCCCAAGGCTTCCGGGCCTCCGCCACCTCCAACCTTCTTCTCCTTCAGTCCTCCCACCGGTCCCAGCCCCAGCCTGGCCCAGAGTTCCCTGAAGTTGTTCCCAGCACCAGCCACCCACCAGCTAGGGGAGGGGGAGAGCTATTCCGTGCCAGCCGCTTTCCCGGGCTTGGCACCCACCTCTCCGAACTGTGACACTTCCGGCATTCTGGACGCACCCGTAACCTCCACCAAGGCCCGCAGTGGGTCTTCAGGGGGCAGTGAGGGCCGCTGTGCTGTCTGTGGAGACAACGCTTCGTGCCAGCATTATGGGGTCCGCACCTGTGAGGGCTGCAAAGGCTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007607:ENSRNOT00000010171:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.460
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]