RCPedia: Rtcs

Summary

Retrocopy Name	PTP4A1P2	Plot displaying the genomic locations of a retrocopy (in chr12) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr12:133032905-133034166 UCSC
Coordinates (T2T)	chr12:133090245-133091506 UCSC
Coordinates (hg19)	chr12:133609491-133610752 UCSC
Strand	+
Parental Sequence	NM_001369859.1
Parental seq. overlap	1102 bp
Parental seq. overlap (%)	28.8%
Genomic Region	Intergenic
Retrocopy Summary	PTP4A1P2, located on chr12:133032905-133034166, is a retrocopy of the parental gene PTP4A2. 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	PTP4A2
Full Name	protein tyrosine phosphatase 4A2
Also known as	HH13\|HH7-2\|HU-PP-1\|OV-1\|PRL-2\|PRL2\|PTP4A\|PTPCAAX2\|ptp-IV1a\|ptp-IV1b
Coordinate	chr1:31906421-31938368
Strand	-
Gene summary	The protein encoded by this gene belongs to a small class of the protein tyrosine phosphatase (PTP) family. PTPs are cell signaling molecules that play regulatory roles in a variety of cellular processes. PTPs in this class contain a protein tyrosine phosphatase catalytic domain and a characteristic C-terminal prenylation motif. This PTP has been shown to primarily associate with plasmic and endosomal membrane through its C-terminal prenylation. This PTP was found to interact with the beta-subunit of Rab geranylgeranyltransferase II (beta GGT II), and thus may function as a regulator of GGT II activity. Overexpression of this gene in mammalian cells conferred a transformed phenotype, which suggested its role in tumorigenesis. Alternatively spliced transcript variants have been described. Related pseudogenes exist on chromosomes 11, 12 and 17. [provided by RefSeq, Aug 2010]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	PTP4A2P2
Bonobo	Pan paniscus	PTP4A2P2
Gorilla	Gorilla gorilla	PTP4A2P3
Orangutan	Pongo abelii	PTP4A2P2
Gibbon	Nomascus leucogenys	PTP4A2P1
Baboon	Papio anubis	PTP4A2P1
Green monkey	Chlorocebus sabaeus	Without Homology
Crab-eating macaque	Macaca fascicularis	Without Homology
Rhesus	Macaca mulatta	Without Homology
Golden snub-nosed monkey	Rhinopithecus roxellana	Without Homology
Marmoset	Callithrix jacchus	Without Homology
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

>PTP4A1P2
TGTTGCACATTTATGGTGATTCTGAGTGTGGGAGCAGACTTCTGCCAGGCTTAGCACAGCATTTTCACCGACAAATGAGCTTTGAGGTTCTACGTGCTGTCATTAATACTACCTTGAAAACTCTAGACACCAAGACTGGCCTCAGAAATAGATACCTTTTTAAAAAAATTGCAAGTATATTTCTTTTAACGATTCCAGTAAAATTAAGCATCAAGTAAACAAAAGTGGAAAGTGACCTACACTTTAAACTTGTTGAACTAAATGTAATAAAGGCTGCTTAAGTTTTTTATGTCCTTGGATTTTTTGGAGTCCAGAGGTGTCCATCTGCAGAAATTGAGGCCCAAGTTGAATTTGGATTCCAGTGGATTCTGAACAATTCTGCTTATCTTGAAGACAGAAGCTTCATAAGGAATAGACAAGTTAAATAGAAAAAACACTGATCAATAGGCAGTTTAGTGATCTAAAAATAAAACATTAAAAAGTTTTCTGCTGTGAAACATTTCAAGATTTATTGATTTTTTTTCACTTTCCCCATTACACTCACACACATGCTCACACTTTTTCTTTGCCATAATGGACTGTTCAGCCCCTGTGGAGATTTACAGGAACATGCATTTTCTCATAACCCACAAGTCTACCAGTGCCACTGCAACAAGTTCACAGAGGAATGTGAGACGTGTGGAGTGACACCTTTGGTTTGAGTTTGTGATGCTACATTTGGTAAAGTTCCAGTTGAAAAAGAAGGAATCCATATTTTAGATTGGTCTTTTGACGATGAAGCTCCACCACCTAATCAGATAGCAGATGACTGGCTAAACCTGTTAATCACTAAAGGGCGTGAAAAGCCAGGTTGCTGCCTTGCAGTGCATTGTGCTGTGGGATTGGGAAGGGCACCTGTGCTGGCAGCGCTTGCTTTGAATATGGAATTAAGTATGAAGATGCAGTTCAGTTTATAAGACAAAAAAGAAGGGGAGCATTCAATTCCAAACAGCTGCTTTACTTGGAGAAATGCCGACCTAAGGTGCAATTACACTTCAGAGATACCAGTGGGCATTGCTGTGTTCAGCAGAAATGTAAATGAAGACCGGCTGGATTGTGGCATTTTAGAGGAACTCTTAGTACTTGGAAATGTGAATCTGGAGTCTTACCTGTATCATCCAAGTAGTGATAGACTCAGTACTCAGCCACTCTCCCAATAGCTGGAAAAATGCAAACAAAAAAAGAAATCCCTCTATAAAATCAATAAAATGTTTAAGAAAAGA

>NM_001369859.1
GTGTGTGTGGAAGGGAGAGAGCTGTGCGAGCGTGGGGGAGAGTGAGTTGGTGAAGGGAGGGCGTGAGCTTGATCCTGGATAGTGTTTGTATGATGTGCACACGTCTCTGCAAATGCTTGTTTGAAGATTGGCTGTGCTGCATTTTGGTATAATTGGGAGGTGACATATTGTCCCTTATCTCAGTAAACATTTGGAGGAAGAGGACGAGAAAGATTGAATTTTGCATTCTTTAATTGGGAAGAAAAGGAAGGTGAATCCATGTTGAGCTGAGCTAGTTTTTCGTTGGAATATACGTTGCACATTTATGGCGATTCTGAGTGTGAGGGCAGACTTCTGCCAGGCTCAGCACAGCATTTTCGCTGACAAGTGAGCTTGGAGGTTCTATGTGCCATAATTAACATTGCCTTGAAGACTCCTGGACACCGAGACTGGCCTCAGAAATAGTTGGCTTTTTTTTTTTTTAATTGCAAGCATATTTCTTTTAATGACTCCAGTAAAATTAAGCATCAAGTAAACAAGTGGAAAGTGACCTACACTTTTAACTTGTCTCACTAGTGCCTAAATGTAGTAAAGGCTGCTTAAGTTTTGTATGTAGTTGGATTTTTTGGAGTCCGAAGGTATCCATCTGCAGAAATTGAGGCCCAAATTGAATTTGGATTCAAGTGGATTCTAAATACTTTGCTTATCTTGAAGAGAGAAGCTTCATAAGGAATAAACAAGTTGAATAGAGAAAACACTGATTGATAATAGGCATTTTAGTGGTCTTTTTAATGTTTTCTGCTGTGAAACATTTCAAGATTTATTGATTTTTTTTTTTCACTTTCCCCATCACACTCACACGCACGCTCACACTTTTTATTTGCCATAATGAACCGTCCAGCCCCTGTGGAGATCTCCTATGAGAACATGCGTTTTCTGATAACTCACAACCCTACCAATGCTACTCTCAACAAGTTCACAGAGGAACTTAAGAAGTATGGAGTGACGACTTTGGTTCGAGTTTGTGATGCTACATATGATAAAGCTCCAGTTGAAAAAGAAGGAATCCACGTTCTAGATTGGCCATTTGATGATGGAGCTCCACCCCCTAATCAGATAGTAGATGATTGGTTAAACCTGTTAAAAACCAAATTTCGTGAAGAGCCAGGTTGCTGTGTTGCAGTGCATTGTGTTGCAGGATTGGGAAGGGCACCTGTGCTGGTTGCACTTGCTTTGATTGAATGTGGAATGAAGTACGAAGATGCAGTTCAGTTTATAAGACAAAAAAGAAGGGGAGCGTTCAATTCCAAACAGCTGCTTTATTTGGAGAAATACCGACCTAAGATGCGATTACGCTTCAGAGATACCAATGGGCATTGCTGTGTTCAGTAGAAGGAAATGTAAACGAAGGCTGACTTGATTGTGCCATTTAGAGGGAACTCTTGGTACCTGGAAATGTGAATCTGGAATATTACCTGTGTCATCAAAGTAGTGATGGATTCAGTACTCCTCAACCACTCTCCTAATGATTGGAACAAAAGCAAACAAAAAAGAAATCTCTCTATAAAATGAATAAAATGTTTAAGAAAAGAGAAAGAGAAAAGGAATTAATTCAGTGAAGGATGATTTTGCTCCTAGTTTTGGAGTTTGAATTTCTGCCAGGATTGAATTATTTTGAAATCTCCTGTCTTTTTAAACTTTTTCAAAATAGGTCTCTAAGGAAAACCAGCAGAACATTAGCCTGTGCAAAACCATCTGTTTGGGGAGCACACTCTTCCATTATGCTTGGCACATAGATCTCCCTGTGGTGGGATTTTTTTTTTCCCTTTTTTTGTGGGGGAGGGTTGGTGGTATATTTTTCCCCTCTTTTTTCCTTCCTCTCCTACATCTCCCTTTTCCCCCGATCCAAGTTGTAGATGGAATAGAAGCCCTTGTTGCTGTAGATGTGCGTGCAGTCTGGCAGCCTTAAGCCCACCTGGGCACTTTTAGATaaaaaaaaaaaaaaaacaaaaaacaacaccaaaaaaaCAGCAGTGatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataatataatatatatatatatatatatatTTTCCAGGTGGTTTTTAGTCTTTACTGATGAAAGGGTGTTCATGTTAGTTTCTTCAAAACCCTATCTAATACTAGGCAAAGTAGCCAAGAGCCTTTTGTTTTGTTTTTATTTTGATAAATTAGTGGAGAAATGGCATTTTAAGAGGAGTCTCTTCTCAACTTACCTGAGAGTCGAATTCTTCTCTTCCCTAACCAATGAAGCTAAGTGGTTATCCCAGAAACTTGTCTTCTAAAAGGGAGGACTCCAGGCCATCAATAAAGATGTCCAGGCAGTGAGCGTACTTTTTACACCCTGTAGAATTGTGGGCTGTAGCGTTACTCTGATTTTCTGTCTAGTATCAGAGAATGCTGGTAGCTTAAAATTTTTATTTTAGGACTTGTACTCTGAATTTTCAGGAACCGTCAAAGGAGCAGCAGCAAATTCACATATTTTCGACTTGAGAAATGCTTGTGGTATGTGTTTTCCAAACTGCCCCCTATATGTAAAGTTCAGTTTAACCACTGATTGCCTTGTTATTACTAGGTTTTTTGAGATTAAAAAAAAAAAATCCCTGGTTTAAAACCAACAATGATGCCTAGTGAGTATGTGTCCACAGGCCATAACAGGGTAGAAGAGAGACATCGTGCAACCCAATGAGTAGTGAAGGGACTGTGTTGCTTGTGAAGCGGTGTAGTAGCATTTTTGCAGATTCTTGGCTGGGTTTAGTGTACTGATCTAGAAAAGCTGTTTTTCTGCTCCTTTGTGGAAGGCAGTTATGATCAGGCTGCATGGACAAAGCAGGTAGAGGGGCACCATCAGGGGCTCTTGCACTATTTTCACCTCTAAATATTACGTACTCAGTAGTGCCCTGCTTCTAGGGCTCTGAATACGGGCTTAAAGTCATCTTGTCCTGCTGGAATTTGCTGTGCAGAGCCATAAGCCTCCCATTTTGTTAGCGTCAGCTAGGCCAATAGGAACAGACCGGGACCTTGTCTCACACTGATGATACCTCACATGTTGACCGGCTATGTGAACTGCCTATTTCCTATGCTGGAGTTTTGATTTTTAACTAAACGCAAATCTGTAGATTCTCTCCTCTCCCATCCCAGAAAACAAAACAAAATAATGCTTTTCGAAATTGTTTCTAGGACTTTAAAACATAATGGTATATCCAAAATTCTTTATTTCAGAATGCAACAATAGATTCCATTAATATAGACTCAAGATCAAAACAGCATACCTGCTAAGCTAAGATAGATGGTGTTGATTCCACTGGGTTTTGATCAATACAATAACAAACCTTTTTCCTTTGACATACTCTGAATTTTGTTGTTTGGGGGGAGGGGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtgtgtgtgtgtgtgtgCACGCGCAGTGTCCATCAGTATCAGTGCCTGCCTGAGTTAGGAAAATTACATTCCTGGTTCTGTATTGAGGAGAAGGATGTATAAAGCAACATGAAACATTAGCCCTCCTTTTATTTTAAAGACTAATGTTAATTGTTCTTAAAACTGGATTTTTTTTCCTTAAAGCAATTTTTTTCTTTTCGATTTAATGAAGTATTGCTAGCTGAAGCCAGTTTGACATAGAGAGATGTCAGATTGATTTGAAAGGTGTGCAGCCTGATTTAAAACCAAACCCTGAACCCTTTTAAAGAACAATAAAACATATTTTACACGCTC

>NM_001369859.1 

GTGTGTGTGGAAGGGAGAGAGCTGTGCGAGCGTGGGGGAGAGTGAGTTGGTGAAGGGAGGGCGTGAGCTTGATCCTGGATAGTGTTTGTATGATGTGCACACGTCTCTGCAAATGCTTGTTTGAAGATTGGCTGTGCTGCATTTTGGTATAATTGGGAGGTGACATATTGTCCCTTATCTCAGTAAACATTTGGAGGAAGAGGACGAGAAAGATTGAATTTTGCATTCTTTAATTGGGAAGAAAAGGAAGGTGAATCCATGTTGAGCTGAGCTAGTTTTTCGTTGGAATATACGTTGCACATTTATGGCGATTCTGAGTGTGAGGGCAGACTTCTGCCAGGCTCAGCACAGCATTTTCGCTGACAAGTGAGCTTGGAGGTTCTATGTGCCATAATTAACATTGCCTTGAAGACTCCTGGACACCGAGACTGGCCTCAGAAATAGTTGGCTTTTTTTTTTTTTAATTGCAAGCATATTTCTTTTAATGACTCCAGTAAAATTAAGCATCAAGTAAACAAGTGGAAAGTGACCTACACTTTTAACTTGTCTCACTAGTGCCTAAATGTAGTAAAGGCTGCTTAAGTTTTGTATGTAGTTGGATTTTTTGGAGTCCGAAGGTATCCATCTGCAGAAATTGAGGCCCAAATTGAATTTGGATTCAAGTGGATTCTAAATACTTTGCTTATCTTGAAGAGAGAAGCTTCATAAGGAATAAACAAGTTGAATAGAGAAAACACTGATTGATAATAGGCATTTTAGTGGTCTTTTTAATGTTTTCTGCTGTGAAACATTTCAAGATTTATTGATTTTTTTTTTTCACTTTCCCCATCACACTCACACGCACGCTCACACTTTTTATTTGCCATAATGAACCGTCCAGCCCCTGTGGAGATCTCCTATGAGAACATGCGTTTTCTGATAACTCACAACCCTACCAATGCTACTCTCAACAAGTTCACAGAGGAACTTAAGAAGTATGGAGTGACGACTTTGGTTCGAGTTTGTGATGCTACATATGATAAAGCTCCAGTTGAAAAAGAAGGAATCCACGTTCTAGATTGGCCATTTGATGATGGAGCTCCACCCCCTAATCAGATAGTAGATGATTGGTTAAACCTGTTAAAAACCAAATTTCGTGAAGAGCCAGGTTGCTGTGTTGCAGTGCATTGTGTTGCAGGATTGGGAAGGGCACCTGTGCTGGTTGCACTTGCTTTGATTGAATGTGGAATGAAGTACGAAGATGCAGTTCAGTTTATAAGACAAAAAAGAAGGGGAGCGTTCAATTCCAAACAGCTGCTTTATTTGGAGAAATACCGACCTAAGATGCGATTACGCTTCAGAGATACCAATGGGCATTGCTGTGTTCAGTAGAAGGAAATGTAAACGAAGGCTGACTTGATTGTGCCATTTAGAGGGAACTCTTGGTACCTGGAAATGTGAATCTGGAATATTACCTGTGTCATCAAAGTAGTGATGGATTCAGTACTCCTCAACCACTCTCCTAATGATTGGAACAAAAGCAAACAAAAAAGAAATCTCTCTATAAAATGAATAAAATGTTTAAGAAAAGAGAAAGAGAAAAGGAATTAATTCAGTGAAGGATGATTTTGCTCCTAGTTTTGGAGTTTGAATTTCTGCCAGGATTGAATTATTTTGAAATCTCCTGTCTTTTTAAACTTTTTCAAAATAGGTCTCTAAGGAAAACCAGCAGAACATTAGCCTGTGCAAAACCATCTGTTTGGGGAGCACACTCTTCCATTATGCTTGGCACATAGATCTCCCTGTGGTGGGATTTTTTTTTTCCCTTTTTTTGTGGGGGAGGGTTGGTGGTATATTTTTCCCCTCTTTTTTCCTTCCTCTCCTACATCTCCCTTTTCCCCCGATCCAAGTTGTAGATGGAATAGAAGCCCTTGTTGCTGTAGATGTGCGTGCAGTCTGGCAGCCTTAAGCCCACCTGGGCACTTTTAGATaaaaaaaaaaaaaaaacaaaaaacaacaccaaaaaaaCAGCAGTGatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataatataatatatatatatatatatatatTTTCCAGGTGGTTTTTAGTCTTTACTGATGAAAGGGTGTTCATGTTAGTTTCTTCAAAACCCTATCTAATACTAGGCAAAGTAGCCAAGAGCCTTTTGTTTTGTTTTTATTTTGATAAATTAGTGGAGAAATGGCATTTTAAGAGGAGTCTCTTCTCAACTTACCTGAGAGTCGAATTCTTCTCTTCCCTAACCAATGAAGCTAAGTGGTTATCCCAGAAACTTGTCTTCTAAAAGGGAGGACTCCAGGCCATCAATAAAGATGTCCAGGCAGTGAGCGTACTTTTTACACCCTGTAGAATTGTGGGCTGTAGCGTTACTCTGATTTTCTGTCTAGTATCAGAGAATGCTGGTAGCTTAAAATTTTTATTTTAGGACTTGTACTCTGAATTTTCAGGAACCGTCAAAGGAGCAGCAGCAAATTCACATATTTTCGACTTGAGAAATGCTTGTGGTATGTGTTTTCCAAACTGCCCCCTATATGTAAAGTTCAGTTTAACCACTGATTGCCTTGTTATTACTAGGTTTTTTGAGATTAAAAAAAAAAAATCCCTGGTTTAAAACCAACAATGATGCCTAGTGAGTATGTGTCCACAGGCCATAACAGGGTAGAAGAGAGACATCGTGCAACCCAATGAGTAGTGAAGGGACTGTGTTGCTTGTGAAGCGGTGTAGTAGCATTTTTGCAGATTCTTGGCTGGGTTTAGTGTACTGATCTAGAAAAGCTGTTTTTCTGCTCCTTTGTGGAAGGCAGTTATGATCAGGCTGCATGGACAAAGCAGGTAGAGGGGCACCATCAGGGGCTCTTGCACTATTTTCACCTCTAAATATTACGTACTCAGTAGTGCCCTGCTTCTAGGGCTCTGAATACGGGCTTAAAGTCATCTTGTCCTGCTGGAATTTGCTGTGCAGAGCCATAAGCCTCCCATTTTGTTAGCGTCAGCTAGGCCAATAGGAACAGACCGGGACCTTGTCTCACACTGATGATACCTCACATGTTGACCGGCTATGTGAACTGCCTATTTCCTATGCTGGAGTTTTGATTTTTAACTAAACGCAAATCTGTAGATTCTCTCCTCTCCCATCCCAGAAAACAAAACAAAATAATGCTTTTCGAAATTGTTTCTAGGACTTTAAAACATAATGGTATATCCAAAATTCTTTATTTCAGAATGCAACAATAGATTCCATTAATATAGACTCAAGATCAAAACAGCATACCTGCTAAGCTAAGATAGATGGTGTTGATTCCACTGGGTTTTGATCAATACAATAACAAACCTTTTTCCTTTGACATACTCTGAATTTTGTTGTTTGGGGGGAGGGGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtgtgtgtgtgtgtgtgCACGCGCAGTGTCCATCAGTATCAGTGCCTGCCTGAGTTAGGAAAATTACATTCCTGGTTCTGTATTGAGGAGAAGGATGTATAAAGCAACATGAAACATTAGCCCTCCTTTTATTTTAAAGACTAATGTTAATTGTTCTTAAAACTGGATTTTTTTTCCTTAAAGCAATTTTTTTCTTTTCGATTTAATGAAGTATTGCTAGCTGAAGCCAGTTTGACATAGAGAGATGTCAGATTGATTTGAAAGGTGTGCAGCCTGATTTAAAACCAAACCCTGAACCCTTTTAAAGAACAATAAAACATATTTTACACGCTC

Publications

PMID - Link	Title
No publications available for this retrocopy