RCPedia: Rtcs

Summary

Retrocopy Name	RNF7P1	Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr3). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr3:57519242-57520051 UCSC
Coordinates (T2T)	chr3:57559592-57560401 UCSC
Coordinates (hg19)	chr3:57504969-57505778 UCSC
Strand	-
Parental Sequence	NM_014245.5
Parental seq. overlap	750 bp
Parental seq. overlap (%)	28%
Genomic Region	Intragenic (DNAH12)
Retrocopy Summary	RNF7P1, located on chr3:57519242-57520051, is a retrocopy of the parental gene RNF7. Retrocopies of protein-coding genes, also known as processed pseudogenes, are intriguing genomic elements with implications in genome evolution and diseases. While some retrocopies are non-functional, there are examples of retrocopies (retrogenes) acquiring regulatory roles or exhibiting neofunctionalization unrelated to their parental genes.

Parental Gene

Gene Name	RNF7
Full Name	ring finger protein 7
Also known as	CKBBP1\|ROC2\|SAG\|rbx2
Coordinate	chr3:141738298-141747560
Strand	+
Gene summary	The protein encoded by this gene is a highly conserved ring finger protein. It is an essential subunit of SKP1-cullin/CDC53-F box protein ubiquitin ligases, which are a part of the protein degradation machinery important for cell cycle progression and signal transduction. This protein interacts with, and is a substrate of, casein kinase II (CSNK2A1/CKII). The phosphorylation of this protein by CSNK2A1 has been shown to promote the degradation of IkappaBalpha (CHUK/IKK-alpha/IKBKA) and p27Kip1(CDKN1B). Alternatively spliced transcript variants encoding distinct isoforms have been reported. [provided by RefSeq, Jul 2008]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	RNF7P1
Bonobo	Pan paniscus	RNF7P1
Gorilla	Gorilla gorilla	RNF7P1
Orangutan	Pongo abelii	RNF7P1
Gibbon	Nomascus leucogenys	RNF7P1
Green monkey	Chlorocebus sabaeus	RNF7P2
Crab-eating macaque	Macaca fascicularis	RNF7P1
Rhesus	Macaca mulatta	RNF7P1
Baboon	Papio anubis	RNF7P1
Golden snub-nosed monkey	Rhinopithecus roxellana	RNF7P1
Marmoset	Callithrix jacchus	RNF7P2
Mouse lemur	Microcebus murinus	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Rabbit	Oryctolagus cuniculus	Without Homology
Pig	Sus scrofa	Without Homology
Cow	Bos taurus	Without Homology
Sheep	Ovis aries	Without Homology
Dolphin	Tursiops truncatus	Without Homology
Horse	Equus caballus	Without Homology
Dog	Canis familiaris	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Velvety free-tailed bat	Molossus molossus	Without Homology
Greater mouse-eared bat	Myotis myotis	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	Without Homology
Greater horseshoe bat	Rhinolophus ferrumequinum	Without Homology
Egyptian rousette	Rousettus aegyptiacus	Without Homology
Sloth	Choloepus didactylus	Without Homology
Tasmanian Devil	Sarcophilus harrisii	Without Homology
Opossum	Monodelphis domestica	Without Homology
Platypus	Ornithorhynchus anatinus	Without Homology
Chicken	Gallus gallus	Without Homology
Turkey	Meleagris gallopavo	Without Homology
Zebra Finch	Taeniopygia guttata	Without Homology
Budgerigar	Melopsittacus undulatus	Without Homology
Painted Turtle	Chrysemys picta	Without Homology
Lizard	Anolis Carolinensis	Without Homology
Frog	Xenopus tropicalis	Without Homology
Zebrafish	Danio rerio	Without Homology
Drosophila	Drosophila melanogaster	Without Homology

Expression

The Genotype-Tissue Expression project - (GTEx)

Related Sequence

>RNF7P1
TTCCCCAACCCAACGTCGGCCATCGGCTCCGCGGCGCTACCATGGCCGACGTGGAAGACGGCGAGGAACCCTACGCCCTGACCTCTCACTCCAGGAGCGCAGGCTCCAAGTCGGGAGGCGACAAGATGTTCTAGCTCAAGAAGTGGAACGTGGTGGCCATGTGGAGCTGGGCCGTGGAGTGAGATATGTGCGCCATCTGCAGAGTCCAGGTGATGGATGCCTGTCTCAGATGTCAAGCTGAAAACAAACAAGAGGACTGTGTTGTGGTCTTGGGAGAATGTAATCATTCCTTCCGCAACTGCTGCATGTCCCTGTGGGTGAAACAGAACAATCGCTGCCCTCTCTGCCAGCAGGACTGGGTGGCCCAAAGAATCGGCAAATGAGAGCGGTTAGAAGGCTTCTTAGTGCAGTTGTTCAGAGCCTTGGTGGATCTTGTTATCAAGTGCCCTTCAAAGGCTAGAACACTCCAGGGGATTACTTCTTCAAATAGGAGTCGATGGATCTGTGGTCCTTTGGGACACATCAAAGGCTTGGTTTAGCATTTTGTCAGTTTTATTTTCAGAAATTCTCTACAATTAAGAAGATAATTTATTAAAGATGATCCTTTCTACCTCTGTGGTATGTGTCGCACACATAGCTTAGGAGTGCTATAAAAAAGGAGAGAACTCCAAACTGAATCACCTTTATAATTTACCCATTTCTATACAACAGGCTGTGGAATCAGTTTCATTCAGAGGAGAACTTTTTGCATGCTTACGGTTGATCAGTTAAAAAAGAATGTTATGGTAACAAATAAAGTGCAGTTTAAAC

>NM_014245.5
CTTCCCCAAGCCAACGTCTCCGCCGTCGGCTCCGCGGCGCCGCCATGGCCGACGTGGAAGACGGAGAGGAAACCTGCGCCCTGGCCTCTCACTCCGGGAGCTCAGGCTCCAAGTCGGGAGGCGACAAGATGTTCTCCCTCAAGAAGTGGAACGCGGTGGCCATGTGGAGCTGGGACGTGGAGTGCGATACGTGCGCCATCTGCAGGGTCCAGGTGATGGATGCCTGTCTTAGATGTCAAGCTGAAAACAAACAAGAGGACTGTGTTGTGGTCTGGGGAGAATGTAATCATTCCTTCCACAACTGCTGCATGTCCCTGTGGGTGAAACAGAACAATCGCTGCCCTCTCTGCCAGCAGGACTGGGTGGTCCAAAGAATCGGCAAATGAGAGTGGTTAGAAGGCTTCTTAGCGCAGTTGTTCAGAGCCCTGGTGGATCTTGTAATCCAGTGCCCTACAAAGGCTAGAACACTACAGGGGATGAATTCTTCAAATAGGAGCCGATGGATCTGTGGTCCTTTGGGACTCATCAAAGCCTTGGTTTAGCATTTTGTCAGTTTTATCTTCAGAAATTCTCTGCGATTAAGAAGATAATTTATTAAAGGTGGTCCTTCCTACCTCTGTGGTGTGTGTCGCGCACACAGCTTAGAAGTGCTATAAAAAAGGAAAGAGCTCCAAATTGAATCACCTTTATAATTTACCCATTTCTATACAACAGGCAGTGGAAGCAGTTTCAGAGAACTTTTTGCATGCTTATGGTTGATCAGTTAAAAAAGAATGTTACAGTAACAAATAAAGTGCAGTTTAAAACCCAACTCTTACTCTTAATTTGTTCCTAATACGTATTTTTGGCAGGGAGAGGGAACGGTCCATGAAATCTTTATGTGATATAAGGATTTTAAGTTTGGGCCAGTGAACAGGGTAAATAAAATTTAACTTTTGAGCATATGGAATTTTGATTGCCTTTAAAGTTACTATTCTGTATCATTGATTCATCAAGAAAACCTAGATCTGCACTCACCTCACTGTTCAATCATTGAGTGGTAAAGGACAGAAGTATTTTCTAGTTCTGGTCAGATGATATAAttttttttttttttttttgtgggggtgaagtcttgctctgccacccaggctggagtgcagtggcatgatgtcaactcactgcaacctccgcctcccgggttcaagtgattctcctgcctcagcctcccgagtagctgggattacaggtgtgtgccaccacacccggctaatttttgtatttttagtagagacgggatttccccatgttggccaggctggtctcaaactcctgacctcaggtgattcgcccacctcagcctcccaaagtgctgggattacaggtgtgggccactgcacctggccCAGATGATATAATTTAACTGTGTTTTAGGTAACATGTTAATGAGGGAAAATGTTTACCAGTGTAGCATTGGATCAAAAAGTTTATCACACAGTGTTTTAATAAATGGTTTATTCTGCTTACCTTATTTGAATTGTCATTATAATTTTATATGCAACCTTAATTTGTCAAGTAAATACTTTCATTTAATTTGAAAGAATTCATATTCATTTGCTCTTTCATTTGACAATAATAAAATTTAAGGTTTATTACCTGGAAAGAGTGCAAGAAAATACTAAACAACTTTATCAAACTGATTCACACTGAGGGGAGGTTATTTTGTAACAAATAATGGACCACAAGTTCATTTTGTATTCTTCTGTAGTAGAGGCTACTGATATGAATTTAAGAAAAAACCTTAGAATCTTAACTTTTCACATCTGCAGATGCAGTGTGCCATTCTGAATTTTTCAATCTAAGGGATGTGGATACATAGAATGTTTAAAAAGATAACAATTAGAATGAAAAATTAAAATTATGTATGCTTTTATATGGGTTACTTTTTATTGATCACATTTCTCTGGAAATTTTTCTTTATATTTTTTCACAGTTGTCTTTCTAGCTACTGAAAAAATTATACAAATATCTTTGGCCATTTAAATGTTTATCATTGTGCAGTGAACTGTTTTAGTAACTTTCTGTTTGACCTTTTTAGAAGGTTGCATCCTTAAAATGTGAACCAGATACATGGCTTTGCATTGAAGAGGAAAGCAGTAGAATGTCAGGTTACTTTAGGCAGTGTGACAGTATATAAATGAAATGTGGAGGATGGTGGTAACAATTTGATTTTCCACACAGCAAAACCACAGTCCCGCCACCTAACAAAGCCCTGTTTATGCCACACACCAGCATCTGAGGGAAGAGGAGGCACTGTGACAAAGCAGCGCTGATGCTGCTCAGCCTGCGATGATTACAGCTCATCTGCACAGCCATCTGAAAGTTTAATACATACTCATCAGAGGGAACATGCCGGGACAATTTTGGGTTCCAATACAAAAGTTAAGCATCAAACAGGTTTTTCTTTCCATTTGATTAAATGTGCTGATTTTATTTTACTGTTGCATTAGAAACAAACAAGTTATCTTTCGCTATTTAATTTTCCCTCTATGCAAATTGTGTTATTACAGCTGACCGCTATcagtaaatcttaattctgtcagtcccattgcttccttttttataaaaatactgtgtccccctttactgtcatgaagtgaaattcataaatatatttcctacacatataa

>NM_014245.5 

CTTCCCCAAGCCAACGTCTCCGCCGTCGGCTCCGCGGCGCCGCCATGGCCGACGTGGAAGACGGAGAGGAAACCTGCGCCCTGGCCTCTCACTCCGGGAGCTCAGGCTCCAAGTCGGGAGGCGACAAGATGTTCTCCCTCAAGAAGTGGAACGCGGTGGCCATGTGGAGCTGGGACGTGGAGTGCGATACGTGCGCCATCTGCAGGGTCCAGGTGATGGATGCCTGTCTTAGATGTCAAGCTGAAAACAAACAAGAGGACTGTGTTGTGGTCTGGGGAGAATGTAATCATTCCTTCCACAACTGCTGCATGTCCCTGTGGGTGAAACAGAACAATCGCTGCCCTCTCTGCCAGCAGGACTGGGTGGTCCAAAGAATCGGCAAATGAGAGTGGTTAGAAGGCTTCTTAGCGCAGTTGTTCAGAGCCCTGGTGGATCTTGTAATCCAGTGCCCTACAAAGGCTAGAACACTACAGGGGATGAATTCTTCAAATAGGAGCCGATGGATCTGTGGTCCTTTGGGACTCATCAAAGCCTTGGTTTAGCATTTTGTCAGTTTTATCTTCAGAAATTCTCTGCGATTAAGAAGATAATTTATTAAAGGTGGTCCTTCCTACCTCTGTGGTGTGTGTCGCGCACACAGCTTAGAAGTGCTATAAAAAAGGAAAGAGCTCCAAATTGAATCACCTTTATAATTTACCCATTTCTATACAACAGGCAGTGGAAGCAGTTTCAGAGAACTTTTTGCATGCTTATGGTTGATCAGTTAAAAAAGAATGTTACAGTAACAAATAAAGTGCAGTTTAAAACCCAACTCTTACTCTTAATTTGTTCCTAATACGTATTTTTGGCAGGGAGAGGGAACGGTCCATGAAATCTTTATGTGATATAAGGATTTTAAGTTTGGGCCAGTGAACAGGGTAAATAAAATTTAACTTTTGAGCATATGGAATTTTGATTGCCTTTAAAGTTACTATTCTGTATCATTGATTCATCAAGAAAACCTAGATCTGCACTCACCTCACTGTTCAATCATTGAGTGGTAAAGGACAGAAGTATTTTCTAGTTCTGGTCAGATGATATAAttttttttttttttttttgtgggggtgaagtcttgctctgccacccaggctggagtgcagtggcatgatgtcaactcactgcaacctccgcctcccgggttcaagtgattctcctgcctcagcctcccgagtagctgggattacaggtgtgtgccaccacacccggctaatttttgtatttttagtagagacgggatttccccatgttggccaggctggtctcaaactcctgacctcaggtgattcgcccacctcagcctcccaaagtgctgggattacaggtgtgggccactgcacctggccCAGATGATATAATTTAACTGTGTTTTAGGTAACATGTTAATGAGGGAAAATGTTTACCAGTGTAGCATTGGATCAAAAAGTTTATCACACAGTGTTTTAATAAATGGTTTATTCTGCTTACCTTATTTGAATTGTCATTATAATTTTATATGCAACCTTAATTTGTCAAGTAAATACTTTCATTTAATTTGAAAGAATTCATATTCATTTGCTCTTTCATTTGACAATAATAAAATTTAAGGTTTATTACCTGGAAAGAGTGCAAGAAAATACTAAACAACTTTATCAAACTGATTCACACTGAGGGGAGGTTATTTTGTAACAAATAATGGACCACAAGTTCATTTTGTATTCTTCTGTAGTAGAGGCTACTGATATGAATTTAAGAAAAAACCTTAGAATCTTAACTTTTCACATCTGCAGATGCAGTGTGCCATTCTGAATTTTTCAATCTAAGGGATGTGGATACATAGAATGTTTAAAAAGATAACAATTAGAATGAAAAATTAAAATTATGTATGCTTTTATATGGGTTACTTTTTATTGATCACATTTCTCTGGAAATTTTTCTTTATATTTTTTCACAGTTGTCTTTCTAGCTACTGAAAAAATTATACAAATATCTTTGGCCATTTAAATGTTTATCATTGTGCAGTGAACTGTTTTAGTAACTTTCTGTTTGACCTTTTTAGAAGGTTGCATCCTTAAAATGTGAACCAGATACATGGCTTTGCATTGAAGAGGAAAGCAGTAGAATGTCAGGTTACTTTAGGCAGTGTGACAGTATATAAATGAAATGTGGAGGATGGTGGTAACAATTTGATTTTCCACACAGCAAAACCACAGTCCCGCCACCTAACAAAGCCCTGTTTATGCCACACACCAGCATCTGAGGGAAGAGGAGGCACTGTGACAAAGCAGCGCTGATGCTGCTCAGCCTGCGATGATTACAGCTCATCTGCACAGCCATCTGAAAGTTTAATACATACTCATCAGAGGGAACATGCCGGGACAATTTTGGGTTCCAATACAAAAGTTAAGCATCAAACAGGTTTTTCTTTCCATTTGATTAAATGTGCTGATTTTATTTTACTGTTGCATTAGAAACAAACAAGTTATCTTTCGCTATTTAATTTTCCCTCTATGCAAATTGTGTTATTACAGCTGACCGCTATcagtaaatcttaattctgtcagtcccattgcttccttttttataaaaatactgtgtccccctttactgtcatgaagtgaaattcataaatatatttcctacacatataa

Publications

PMID - Link	Title
No publications available for this retrocopy