RCPedia: Rtcs

Summary

Retrocopy Name	MTCH2P4	Plot displaying the genomic locations of a retrocopy (in chr16) and its respective parental gene (in chr11). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr16:57714000-57715032 UCSC
Coordinates (T2T)	chr16:63509206-63510238 UCSC
Coordinates (hg19)	chr16:57747912-57748944 UCSC
Strand	+
Parental Sequence	NM_001317232.2_2
Parental seq. overlap	611 bp
Parental seq. overlap (%)	24.2%
Genomic Region	Intragenic (DRC7)
Retrocopy Summary	MTCH2P4, located on chr16:57714000-57715032, is a retrocopy of the parental gene MTCH2. 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	MTCH2
Full Name	mitochondrial carrier 2
Also known as	HSPC032\|MIMP\|SLC25A50
Coordinate	chr11:47604309-47642597
Strand	-
Gene summary	This gene encodes a member of the SLC25 family of nuclear-encoded transporters that are localized in the inner mitochondrial membrane. Members of this superfamily are involved in many metabolic pathways and cell functions. Genome-wide association studies in human have identified single-nucleotide polymorphisms in several loci associated with obesity. This gene is one such locus, which is highly expressed in white adipose tissue and adipocytes, and thought to play a regulatory role in adipocyte differentiation and biology. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. A recent study showed this gene to be an authentic stop codon readthrough target that can produce two isoforms from the same mRNA by use of alternative in-frame translation termination codons. [provided by RefSeq, Dec 2017]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	MTCH2P4
Bonobo	Pan paniscus	MTCH2P4
Gorilla	Gorilla gorilla	MTCH2P4
Orangutan	Pongo abelii	MTCH2P4
Green monkey	Chlorocebus sabaeus	MTCH2P3
Crab-eating macaque	Macaca fascicularis	MTCH2P6
Rhesus	Macaca mulatta	MTCH2P6
Baboon	Papio anubis	MTCH2P5
Golden snub-nosed monkey	Rhinopithecus roxellana	LOC104668422P6
Marmoset	Callithrix jacchus	MTCH2P4
Gibbon	Nomascus leucogenys	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

>MTCH2P4
AGTCCATGGTCAAGTTTTGCAGTAGTCAGGACCTGGAAATGTACAGAAAGCTGTCTCATCTTCCTTTGACCGAGTTATCATGGAGATAACTCAAGTGATAATCACTCGTTCTGTTGCTACCGCCATCACACATCCCTTCTGCATGATTACTGAGATTTGTGGTACAATTCACTGACAGAGAGTCCAAGTACTGTGAACTTTGTGACTCCATAGTAACCATCTATTGAGAAGAAGGCATCCTAGGATTTCTCATGTGTCTTATTCCTCACCTCCTAGGCAACATCATTTCTTTATGGCTCTGTAACTCACTGGCCTACCTCATCAATACCTATGCACTCTGGTGaTATGCACTGGACAGTGAGGTTTCTATCGGGAATGAAATGAAGAGTATGAAGAGTTATTCTCAAGATGTCACAGCACTGTTTGCCAGTATGTTGACCTATCCCTTTGTGCTTGTCTCTAATCTTATGGCTGTCAACAGCCATGGGCTTGCTGGTGGACCCCCTTCTTCCTTCCCAGTATATACTACTTGCATACATTGCTGGTGCATGCTACAAAAAGAGGGAAATATGAGCCGAGGAAATAGCTTGTTTTTCCCAAAGCATCCCTTTGGGAAGACTTGTTGTGACCTGAGAATGCTAATTTGAAGATGTAGGGCAGGACAGTGACATTTCTATAGTCCCAGATGCACCAAATTATGGGAGACAATGTTGATTTCTATA

>NM_001317232.2_2
AGTGAAACCGGCGGCCCTGGCACGTGACCTAGGACCGGCTCACCGGGTCGCTTGGTGGCtccgtctgtctgtccgtccgcccgCGGGTGCCATCATGGCGGACGCGGCCAGTCAGGTGCTCCTGGGCTCCGGTCTCACCATCCTGTCCCAGCCGCTCATGTACGTGAAAGTGCTCATCCAGGTGGGATATGAGCCTCTTCCTCCAACAATAGGACGAAATATTTTTGGGCGGCAAGTGTGTCAGCTTCCTGGTCTCTTTAGTTATGCTCAGCACATTGCCAGTATCGATGGGAGGCGCGGGTTGTTCACAGGCTTAACTCCAAGACTGTGTTCGGGAGTCCTTGGAACTGTGGTCCATGGTAAAGTTTTACAGGAGTTAGGACCTGGAAATGTACAGAAAGAAGTCTCATCTTCCTTTGACCACGTTATCAAGGAGACAACTCGAGAGATGATCGCTCGTTCTGCTGCTACCCTCATCACACATCCCTTCCATGTGATCACTCTGAGATCTATGGTACAGTTCATTGGCAGAGAATCCAAGTACTGTGGACTTTGTGATTCCATAATAACCATCTATCGGGAAGAGGGCATTCTAGGATTTTTCGCGGGTCTTGTTCCTCGCCTTCTAGGTGACATCCTTTCTTTGTGGCTGTGTAACTCACTGGCCTACCTCGTCAATACCTATGCACTGGACAGTGGGGTTTCTACCATGAATGAAATGAAGAGTTATTCTCAAGCTGTCACAGGATTTTTTGCGAGTATGTTGACCTATCCCTTTGTGCTTGTCTCCAATCTTATGGCTGTCAACAACTGTGGTCTTGCTGGTGGATGCCCTCCTTACTCCCCAATATATACGTCTTGGATAGACTGTTGGTGCATGCTACAAAAAGAGGGGAATATGAGCCGAGGAAATAGCTTATTTTTCCGGAAGGTCCCCTTTGGGAAGACTTATTGTTGTGACCTGAAAATGTTAATTTGAAGATGTGGGGCAGGGACAGTGACATTTCTGTAGTCCCAGATGCACAGAATTATGGGAGAGAATGTTGATTTCTATACAGTGTGGCGCGCTTTTTTAATAATCATTTAATCTTGGGAAAATTCAGGTGTTTGGTGTCTGCCTTTTTTGTTCTTTTTTCCAGCACAACATAACTTACCACTGATACTCCCCCTTTAGTTATTCTGAATTAGGATATTTTTGCTCCAAATTCTTATTTTACTTAACCAGAAGGGAAAAAAAGTTGTATTTTCCTGAAGCTACAGGCACTTTGTCATGTGATTTTTGAGTCTCAATTTAAGGCTTTGTAAAATGAAGAGTAGAATTCCAAGAAAAATGAGAAATAATTTTGTAAAACTTAACAAAATCACTAAATTAAACTATATGGGAGGTTATGAATTACTTTTTCTTGGGTAGACCCTAAAATGTCAGTAGCATGCACCAGAATCTGACTCCCATTATGCTTCTAAGCACATTTCATTGACCTTGTCTCTCATACTTCAAGAAAAGGACAGTACATTGCTACATTACCCTAGAAAGTCTGTGTGAGGATCTGCCCCTTCAGTCTGTTATTGCAAAGTAATAAAATGTCACCTACAGggagcctctgagcctactctagttcaagaggctacctgaAAAAAAATAAATAAGATAAAGGGTCAGCAACAACAAAGAAAAAGACAATTACAGAAAATAAGCAAGATTTGGAAAGGAAGTATAATGGCACTTTTTTCCTCAAAGGAAGTTCTTGTTTTCACATAAAATATGAAAAGCAGATCCTGCAGGAGTAACCCCCTTCTTTAAGAGCCAAGTATTTGCCAGTGCTTAAATTACACCATACAGTTCTAATTATATATAATCTTTTGTTCTTCAGTTTTTTGTTTTGTTTCCTTTTTGTTATTGTTGCCGAAGGTGAGTAGTTTTGCATTTCTGATGACAGCCTTGGAAAGTATATTTGTAACTCCATGTCTGGTAATGCCAACCCAAGTCGACATGGGTCTTAGGACACTGACCACCTCACATGCCATACCCTCAGTTAAGCATGTTAACATTTATAGGAGGAAAAAAATCACTTTGGGAGAAAATAAAATTCAACTCAAGCATAAAGCTTCTGTTTACTCAGGCCTTCTAAAAAGCAGGTTAAAATGCTCTAAAATGAGAAAGCCTGTGGTTTCACTTATTTATATAACTCACTGGGACATTGCCAAATGAGTAAGCACTTAATTCGCtgcttctgagacttctctgtcaaaacagccccactgataatattagacagaacgagaatgcaggggtctcttccctcccctggggtttaggaagctcatgaggagctcggcttaaaatgtctttgatgtctcttcctttgtctcaaaaagtaatgtcaattttatatactatttcaatattactatctgcatttgttttaatataaaaatgtttgctgcctacctttttctcccaaaaaatctttaagtaaagatgatctgggaaaatg

>NM_001317232.2_2 

AGTGAAACCGGCGGCCCTGGCACGTGACCTAGGACCGGCTCACCGGGTCGCTTGGTGGCtccgtctgtctgtccgtccgcccgCGGGTGCCATCATGGCGGACGCGGCCAGTCAGGTGCTCCTGGGCTCCGGTCTCACCATCCTGTCCCAGCCGCTCATGTACGTGAAAGTGCTCATCCAGGTGGGATATGAGCCTCTTCCTCCAACAATAGGACGAAATATTTTTGGGCGGCAAGTGTGTCAGCTTCCTGGTCTCTTTAGTTATGCTCAGCACATTGCCAGTATCGATGGGAGGCGCGGGTTGTTCACAGGCTTAACTCCAAGACTGTGTTCGGGAGTCCTTGGAACTGTGGTCCATGGTAAAGTTTTACAGGAGTTAGGACCTGGAAATGTACAGAAAGAAGTCTCATCTTCCTTTGACCACGTTATCAAGGAGACAACTCGAGAGATGATCGCTCGTTCTGCTGCTACCCTCATCACACATCCCTTCCATGTGATCACTCTGAGATCTATGGTACAGTTCATTGGCAGAGAATCCAAGTACTGTGGACTTTGTGATTCCATAATAACCATCTATCGGGAAGAGGGCATTCTAGGATTTTTCGCGGGTCTTGTTCCTCGCCTTCTAGGTGACATCCTTTCTTTGTGGCTGTGTAACTCACTGGCCTACCTCGTCAATACCTATGCACTGGACAGTGGGGTTTCTACCATGAATGAAATGAAGAGTTATTCTCAAGCTGTCACAGGATTTTTTGCGAGTATGTTGACCTATCCCTTTGTGCTTGTCTCCAATCTTATGGCTGTCAACAACTGTGGTCTTGCTGGTGGATGCCCTCCTTACTCCCCAATATATACGTCTTGGATAGACTGTTGGTGCATGCTACAAAAAGAGGGGAATATGAGCCGAGGAAATAGCTTATTTTTCCGGAAGGTCCCCTTTGGGAAGACTTATTGTTGTGACCTGAAAATGTTAATTTGAAGATGTGGGGCAGGGACAGTGACATTTCTGTAGTCCCAGATGCACAGAATTATGGGAGAGAATGTTGATTTCTATACAGTGTGGCGCGCTTTTTTAATAATCATTTAATCTTGGGAAAATTCAGGTGTTTGGTGTCTGCCTTTTTTGTTCTTTTTTCCAGCACAACATAACTTACCACTGATACTCCCCCTTTAGTTATTCTGAATTAGGATATTTTTGCTCCAAATTCTTATTTTACTTAACCAGAAGGGAAAAAAAGTTGTATTTTCCTGAAGCTACAGGCACTTTGTCATGTGATTTTTGAGTCTCAATTTAAGGCTTTGTAAAATGAAGAGTAGAATTCCAAGAAAAATGAGAAATAATTTTGTAAAACTTAACAAAATCACTAAATTAAACTATATGGGAGGTTATGAATTACTTTTTCTTGGGTAGACCCTAAAATGTCAGTAGCATGCACCAGAATCTGACTCCCATTATGCTTCTAAGCACATTTCATTGACCTTGTCTCTCATACTTCAAGAAAAGGACAGTACATTGCTACATTACCCTAGAAAGTCTGTGTGAGGATCTGCCCCTTCAGTCTGTTATTGCAAAGTAATAAAATGTCACCTACAGggagcctctgagcctactctagttcaagaggctacctgaAAAAAAATAAATAAGATAAAGGGTCAGCAACAACAAAGAAAAAGACAATTACAGAAAATAAGCAAGATTTGGAAAGGAAGTATAATGGCACTTTTTTCCTCAAAGGAAGTTCTTGTTTTCACATAAAATATGAAAAGCAGATCCTGCAGGAGTAACCCCCTTCTTTAAGAGCCAAGTATTTGCCAGTGCTTAAATTACACCATACAGTTCTAATTATATATAATCTTTTGTTCTTCAGTTTTTTGTTTTGTTTCCTTTTTGTTATTGTTGCCGAAGGTGAGTAGTTTTGCATTTCTGATGACAGCCTTGGAAAGTATATTTGTAACTCCATGTCTGGTAATGCCAACCCAAGTCGACATGGGTCTTAGGACACTGACCACCTCACATGCCATACCCTCAGTTAAGCATGTTAACATTTATAGGAGGAAAAAAATCACTTTGGGAGAAAATAAAATTCAACTCAAGCATAAAGCTTCTGTTTACTCAGGCCTTCTAAAAAGCAGGTTAAAATGCTCTAAAATGAGAAAGCCTGTGGTTTCACTTATTTATATAACTCACTGGGACATTGCCAAATGAGTAAGCACTTAATTCGCtgcttctgagacttctctgtcaaaacagccccactgataatattagacagaacgagaatgcaggggtctcttccctcccctggggtttaggaagctcatgaggagctcggcttaaaatgtctttgatgtctcttcctttgtctcaaaaagtaatgtcaattttatatactatttcaatattactatctgcatttgttttaatataaaaatgtttgctgcctacctttttctcccaaaaaatctttaagtaaagatgatctgggaaaatg

Publications

PMID - Link	Title
No publications available for this retrocopy