RCPedia: Rtcs

Summary

Retrocopy Name	DPPA2P2	Plot displaying the genomic locations of a retrocopy (in chr1) and its respective parental gene (in chr3). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr1:26519120-26520337 UCSC
Coordinates (T2T)	chr1:26357072-26358289 UCSC
Coordinates (hg19)	chr1:26845611-26846828 UCSC
Strand	-
Parental Sequence	XM_011512443.1
Parental seq. overlap	883 bp
Parental seq. overlap (%)	62%
Genomic Region	Intergenic
Retrocopy Summary	DPPA2P2, located on chr1:26519120-26520337, is a retrocopy of the parental gene DPPA2. 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	DPPA2
Full Name	developmental pluripotency associated 2
Also known as	CT100\|ECAT15-2\|PESCRG1
Coordinate	chr3:109293788-109316589
Strand	-
Gene summary	Predicted to enable chromatin binding activity. Predicted to be involved in system development. Predicted to act upstream of or within several processes, including lung-associated mesenchyme development; positive regulation of stem cell proliferation; and regulation of histone methylation. Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	DPPA2P2
Bonobo	Pan paniscus	DPPA2P2
Gorilla	Gorilla gorilla	DPPA2P2
Orangutan	Pongo abelii	DPPA2P2
Green monkey	Chlorocebus sabaeus	DPPA2P3
Crab-eating macaque	Macaca fascicularis	DPPA2P2
Rhesus	Macaca mulatta	DPPA2P2
Baboon	Papio anubis	DPPA2P2
Golden snub-nosed monkey	Rhinopithecus roxellana	DPPA2P4
Gibbon	Nomascus leucogenys	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

>DPPA2P2
CCATCTGTTTGAATGAAATGTACTAGAGAAGGAGGGATGTACTTTCGGACCATGTAAACCTATTATGAAGGAATAGAAGAGGAGACAATTTGAATGAATCTTTGTGATATACAAAACAAAAATCATAGTGACTAGGACTCCACAGTGAAGATGGTTGATAGTGACACAGCCCCATCTGAAAAGCCCCTTTCTGTAAGTCTGAAAACCCTTTAAAATAAAGTCACAGCAATCTAATTTTAAAAAAAATGTATCACCGAATGGACAAGACAGGGGTGTTGCTGAAAATGTCAGACTCAAATTTGGATAGCAGCAAGAAGAATTTCTTTGAGGGGGAAGTAGCTGATGAGGAAAGTGTGATTTTGACATTGCTGCCAGTTAAAGATGACCCAAATATGGAACAAACAGAACCAAGTGTTTCTTCAACTTCTGATGTCAAACTGGAGAAACCTATGAAATACAATCAAGGTCATCTACTTCAAACAAATTAACAATTTACAGCTCCACAAAAAGCTAGATGCAAAATACCAGCTCTTCCCTTGCCGACCATTTTGCCTCCCATTAATAAGGTGTGTTGGGACACTTTGCGGGACTGGTGCCAACAACTCAGTTTGAGTACTAATGGCAAGAAAATCGAAGTTTATCTGAGGGTCCATAGGCCTGCTTACCCTGAACAACAGCAAGATATGCCTGAAATGTCACAAGAGACCAGATTACAGCGGTGTTCAAGGAAACACAAGGCAGTGACCAAGAGAGCAAGGCTTCAGAAAACTTATGAGATGAATGAGAGAGCAGAAGAGACGAATACAGTCGAAGTGATAACTTCAGCGCAGGGAGCCATGTTGGCATCAAGGGCAAGAATTGCTGCAAGAGCTGTTGAGCCTGAGGCTGTGAATTCAAGTTCCATTCCTGTTTCTCTTGAGGCCTTTTTGATGCAAGCCGCTGGTGTCAGGTGGTGTGTGGTCCATGGCAGACTTCTCTCGGCAGACACAAAGGGTTGAGTACGCCTGCAGTTTCATGCAGGTCAGGCTTGAGTGCCTACCACTCACAGGAGGATGATTTCTCTCTTCTTGTTACCTGCCTGCATTTTCCCATCCCCAGGCACAGAAGATAATATGTTATGCCCCAACTGTGCT

>XM_011512443.1
ctgggattacaggcatgagccatcgcacccagccTAATTTTTAAAAAAACATTGTCACTGAATGGACAAGACAGGGGTGTTGCTGAAAATGTCAGATGCAAATTTGGATAGCAGCAAGAAGAATTTCTTGGAGGGGGAAGTAGATGATGAGGAAAGTGTGATTTTGACACTGGTGCCAGTTAAAGATGACGCAAATATGGAACAAATGGAACCAAGCGTTTCTTCAACTTCTGATGTCAAACTGGAGAAGCCTAAGAAATACAATCCAGGTCATCTACTTCAAACAAATGAGCAATTTACAGCTCCACAAAAAGCTAGATGCAAAATACCAGCCCTTCCCTTGCCGACCATTTTGCCTCCCATTAATAAGGTGTGTCGGGACACTTTGCGGGACTGGTGTCAACAACTCGGTTTGAGTACTAATGGCAAGAAAATCGAAGTTTATCTGAGGCTTCATAGGCATGCTTACCCTGAACAACGGCAAGATATGCCTGAAATGTCACAAGAGACCAGATTACAGCGATGTTCGAGGAAACGCAAGGCAGTGACCAAGAGAGCAAGGCTTCAGAGAAGTTATGAGATGAATGAGAGAGCAGAAGAGACCAATACAGTTGAAGTGATAACTTCAGCACCGGGAGCCATGTTGGCATCATGGGCAAGAATTGCTGCAAGAGCTGTTCAGCCTAAGGCTTTGAATTCATGTTCCATTCCTGTTTCTGTTGAGGCCTTTTTGATGCAAGCCTCTGGCGTCAGGTGGTGTGTGGTCCATGGCAGACTTCTCTCGGCAGACACAAAGGGTTGGGTACGCCTGCAGTTTCATGCAGGTCAGGCCTGGGTGCCTACCACTCACAGGAGGATGATTTCTCTCTTCTTGTTACCTGCCTGCATTTTCCCATCCCCAGGCATAGAAGATAATATGTTATGCCCCGACTGTGCTAAGAGGAATAAGAAGATGATGAAAAGATTAATGACAGTAGAGAAGTAGCAGCAACCTGTTTGAATACAAtGTACTAAAGGAGGGATGTACTTTCAGATCATGTAACCTATTACGAAGGAGTGGAAGAGGAGACAATTTGAATGAATCCTCATGATCTACAAAACAAAATCATAGTGACTAGGACTCCACAGTGAAGATGGTTGACTAGTGACACAGCCCCATCTAAAGAATCCCTTTCTGTATGTCTGAAAACCCATTAAAATAAAGTCACTGCAATTGGCCTTGTA

>XM_011512443.1 

ctgggattacaggcatgagccatcgcacccagccTAATTTTTAAAAAAACATTGTCACTGAATGGACAAGACAGGGGTGTTGCTGAAAATGTCAGATGCAAATTTGGATAGCAGCAAGAAGAATTTCTTGGAGGGGGAAGTAGATGATGAGGAAAGTGTGATTTTGACACTGGTGCCAGTTAAAGATGACGCAAATATGGAACAAATGGAACCAAGCGTTTCTTCAACTTCTGATGTCAAACTGGAGAAGCCTAAGAAATACAATCCAGGTCATCTACTTCAAACAAATGAGCAATTTACAGCTCCACAAAAAGCTAGATGCAAAATACCAGCCCTTCCCTTGCCGACCATTTTGCCTCCCATTAATAAGGTGTGTCGGGACACTTTGCGGGACTGGTGTCAACAACTCGGTTTGAGTACTAATGGCAAGAAAATCGAAGTTTATCTGAGGCTTCATAGGCATGCTTACCCTGAACAACGGCAAGATATGCCTGAAATGTCACAAGAGACCAGATTACAGCGATGTTCGAGGAAACGCAAGGCAGTGACCAAGAGAGCAAGGCTTCAGAGAAGTTATGAGATGAATGAGAGAGCAGAAGAGACCAATACAGTTGAAGTGATAACTTCAGCACCGGGAGCCATGTTGGCATCATGGGCAAGAATTGCTGCAAGAGCTGTTCAGCCTAAGGCTTTGAATTCATGTTCCATTCCTGTTTCTGTTGAGGCCTTTTTGATGCAAGCCTCTGGCGTCAGGTGGTGTGTGGTCCATGGCAGACTTCTCTCGGCAGACACAAAGGGTTGGGTACGCCTGCAGTTTCATGCAGGTCAGGCCTGGGTGCCTACCACTCACAGGAGGATGATTTCTCTCTTCTTGTTACCTGCCTGCATTTTCCCATCCCCAGGCATAGAAGATAATATGTTATGCCCCGACTGTGCTAAGAGGAATAAGAAGATGATGAAAAGATTAATGACAGTAGAGAAGTAGCAGCAACCTGTTTGAATACAAtGTACTAAAGGAGGGATGTACTTTCAGATCATGTAACCTATTACGAAGGAGTGGAAGAGGAGACAATTTGAATGAATCCTCATGATCTACAAAACAAAATCATAGTGACTAGGACTCCACAGTGAAGATGGTTGACTAGTGACACAGCCCCATCTAAAGAATCCCTTTCTGTATGTCTGAAAACCCATTAAAATAAAGTCACTGCAATTGGCCTTGTA

Publications

PMID - Link	Title
No publications available for this retrocopy