RCPedia: Rtcs

Summary

Retrocopy Name	HMGN2P42	Plot displaying the genomic locations of a retrocopy (in chr35) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species	Canis familiaris
Coordinates	chr35:24492674-24492877 UCSC
Strand	+
Parental Sequence	NM_001003101.2
Parental seq. overlap	176 bp
Parental seq. overlap (%)	14.3%
Genomic Region	Intergenic
Retrocopy Summary	HMGN2P42, located on chr35:24492674-24492877, is a retrocopy of the parental gene HMGN2. 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	HMGN2
Full Name	N/A
Also known as	HMG-17
Coordinate	chr2:74142182-74145929
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	HMGN2P52
Chimpanzee	Pan troglodytes	HMGN2P19
Bonobo	Pan paniscus	LOC100986166P3
Gorilla	Gorilla gorilla	HMGN2P21
Orangutan	Pongo abelii	HMGN2P20
Gibbon	Nomascus leucogenys	HMGN2P13
Green monkey	Chlorocebus sabaeus	HMGN2P37
Crab-eating macaque	Macaca fascicularis	HMGN2P10
Rhesus	Macaca mulatta	HMGN2P14
Baboon	Papio anubis	HMGN2P19
Marmoset	Callithrix jacchus	HMGN2P13
Mouse lemur	Microcebus murinus	HMGN2P11
Pig	Sus scrofa	HMGN2P2
Cow	Bos taurus	HMGN2P6
Sheep	Ovis aries	HMGN2P8
Dolphin	Tursiops truncatus	HMGN2P4
Horse	Equus caballus	HMGN2P5
Pale spear-nosed bat	Phyllostomus discolor	HMGN2P8
Velvety free-tailed bat	Molossus molossus	HMGN2P11
Greater horseshoe bat	Rhinolophus ferrumequinum	HMGN2P6
Egyptian rousette	Rousettus aegyptiacus	HMGN2P7
Sloth	Choloepus didactylus	HMGN2P26
Golden snub-nosed monkey	Rhinopithecus roxellana	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Rabbit	Oryctolagus cuniculus	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	Without Homology
Greater mouse-eared bat	Myotis myotis	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	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

This retrocopy transcript is not present in the database for expression quantification

Related Sequence

>HMGN2P42
TGCCACCATGCCCAAGAGAAAGGCAAAAGGAGATGCTAAAGGTGACAAAGGGAAGGTGAAGGATGAGCCACAGAGGAGATCAGCACGGTTGTCTGCTAAACCGGCTCCTCCAAAACCAGAACCCAGGCCTAAAAAGACCCCTgccaagaaaggagagaagctGCCCAGAAGGAGAAAGGGCAAAGCAGAGGGTGGCAAGGATGG

>NM_001003101.2
GGGGCTCCCAGCGctataaaaactttataaacCCCCCGGAGCCCGAGCAGTGTGAAGAAGAAGAGGCGAGAACGACCCCCGGACCGGCCAAAGCCCGCGTGCCGCCGCATCCCCGCGTCCAGCGCTTACGTCCCGCCGCCGTCGCCACCATGCCCAAGAGAAAGgCTGAAGGGGATGCTAAAGGAGATAAAGCCAAGGTGAAGGATGAGccACAGAGAAGATCTGCAAGGTTATCTGCTaaacctgCTCCTCCAAAGCCAGAGCCCAAGCCTAAAAAGGCCCCTGCAAAGaagggagagaaggtacccaaagggaaaaaggggaaagctgatgctggcaaggatggaaATAATCCTGCAGAAAATGGAGATGCCAAAACAGACCAGGCACAGAAAGCTGAAGGTGCTGGAGATGCCAAGTGAAGTGTGTGCATTTTTGATAACTGTGTACTTCTGGTGACTGTAcagtttgaaatactattttttatcaagttttataaaaatgcagaattttgttttactttttttttttaagctatgttgTTAGCACACGGAACACTTCAttgttgttttgggggaaggGCATATGTCACTAATAGAATATTTCCAAAGCTAGATTGATAACGAGGGAAAAACACCTTCCCCTTCtagttttgagaaacttcctCTTGGCTCCCAGGAGGAGGGATTCCTTGATGTTGACACACATGAGCCACCTTGGTGGtgtggaaaaactaaaattcatttttttatgtcctcttctccctctctgccttcaacATAGACTTGACTCCCTTAAACCCAGAGACCTGTTGGAACCTGATCCCATGAAATGGTTCCCAGTATGTCAGGCAATCTGGACTTTACGGTGTCACCACTGAGATGGCGTCCCTcaaaagagttcctttttttagCTTGTGGATCTTCAGATTGAtaattctgccattttcatttcatttcctgaaagtcaGGGTCGGCTTGTGAAAAgttgttaaacaacatgctaaatGTGAACTGTCAACCCTCACTCTAAACTTTCCCTGTTCAGAGCATCACATGAAGACTTCATTGGGTTTTATAGTGGCTTTCTGATTTTGGTAGTCCATTGAAGAAGGGAGTTTGAAAGTTGTTGTATACTGTTAACGATCGTCCGCCCATGTCCTGCCTGAAATAACCATGATTGTTTAtgaaaagtatctttaataaagCTGGATACAGTTTGGCTTGGAA

>NM_001003101.2 

GGGGCTCCCAGCGctataaaaactttataaacCCCCCGGAGCCCGAGCAGTGTGAAGAAGAAGAGGCGAGAACGACCCCCGGACCGGCCAAAGCCCGCGTGCCGCCGCATCCCCGCGTCCAGCGCTTACGTCCCGCCGCCGTCGCCACCATGCCCAAGAGAAAGgCTGAAGGGGATGCTAAAGGAGATAAAGCCAAGGTGAAGGATGAGccACAGAGAAGATCTGCAAGGTTATCTGCTaaacctgCTCCTCCAAAGCCAGAGCCCAAGCCTAAAAAGGCCCCTGCAAAGaagggagagaaggtacccaaagggaaaaaggggaaagctgatgctggcaaggatggaaATAATCCTGCAGAAAATGGAGATGCCAAAACAGACCAGGCACAGAAAGCTGAAGGTGCTGGAGATGCCAAGTGAAGTGTGTGCATTTTTGATAACTGTGTACTTCTGGTGACTGTAcagtttgaaatactattttttatcaagttttataaaaatgcagaattttgttttactttttttttttaagctatgttgTTAGCACACGGAACACTTCAttgttgttttgggggaaggGCATATGTCACTAATAGAATATTTCCAAAGCTAGATTGATAACGAGGGAAAAACACCTTCCCCTTCtagttttgagaaacttcctCTTGGCTCCCAGGAGGAGGGATTCCTTGATGTTGACACACATGAGCCACCTTGGTGGtgtggaaaaactaaaattcatttttttatgtcctcttctccctctctgccttcaacATAGACTTGACTCCCTTAAACCCAGAGACCTGTTGGAACCTGATCCCATGAAATGGTTCCCAGTATGTCAGGCAATCTGGACTTTACGGTGTCACCACTGAGATGGCGTCCCTcaaaagagttcctttttttagCTTGTGGATCTTCAGATTGAtaattctgccattttcatttcatttcctgaaagtcaGGGTCGGCTTGTGAAAAgttgttaaacaacatgctaaatGTGAACTGTCAACCCTCACTCTAAACTTTCCCTGTTCAGAGCATCACATGAAGACTTCATTGGGTTTTATAGTGGCTTTCTGATTTTGGTAGTCCATTGAAGAAGGGAGTTTGAAAGTTGTTGTATACTGTTAACGATCGTCCGCCCATGTCCTGCCTGAAATAACCATGATTGTTTAtgaaaagtatctttaataaagCTGGATACAGTTTGGCTTGGAA

Publications

PMID - Link	Title
No publications available for this retrocopy