RCPedia: Rtcs

Summary

Retrocopy Name	SLC6A14P3	Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chrX). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr2:126311755-126311948 UCSC
Coordinates (T2T)	chr2:126748813-126749006 UCSC
Coordinates (hg19)	chr2:127069332-127069525 UCSC
Strand	-
Parental Sequence	NM_007231.5
Parental seq. overlap	165 bp
Parental seq. overlap (%)	3.6%
Genomic Region	Intergenic
Retrocopy Summary	SLC6A14P3, located on chr2:126311755-126311948, is a retrocopy of the parental gene SLC6A14. 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	SLC6A14
Full Name	solute carrier family 6 member 14
Also known as	BMIQ11
Coordinate	chrX:116436606-116461458
Strand	+
Gene summary	This gene encodes a member of the solute carrier family 6. Members of this family are sodium and chloride dependent neurotransmitter transporters. The encoded protein transports both neutral and cationic amino acids. This protein may also function as a beta-alanine carrier. Mutations in this gene may be associated with X-linked obesity. A pseudogene of this gene is found on chromosome X.[provided by RefSeq, May 2010]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	SLC6A14P1
Bonobo	Pan paniscus	SLC6A14P1
Gorilla	Gorilla gorilla	SLC6A14P1
Orangutan	Pongo abelii	SLC6A14P1
Green monkey	Chlorocebus sabaeus	SLC6A14P1
Crab-eating macaque	Macaca fascicularis	SLC6A14P1
Rhesus	Macaca mulatta	SLC6A14P1
Baboon	Papio anubis	SLC6A14P1
Golden snub-nosed monkey	Rhinopithecus roxellana	SLC6A14P1
Mouse lemur	Microcebus murinus	SLC6A14P1
Dolphin	Tursiops truncatus	SLC6A14P1
Horse	Equus caballus	SLC6A14P1
Dog	Canis familiaris	SLC6A14P1
Cat	Felis catus	SLC6A14P1
Greater mouse-eared bat	Myotis myotis	SLC6A14P1
Greater horseshoe bat	Rhinolophus ferrumequinum	SLC6A14P1
Egyptian rousette	Rousettus aegyptiacus	SLC6A14P1
Gibbon	Nomascus leucogenys	Without Homology
Marmoset	Callithrix jacchus	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
Panda	Ailuropoda melanoleuca	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Velvety free-tailed bat	Molossus molossus	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	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

>SLC6A14P3
TCAGGCTGGAATTTAGTGGCTCATCTGACTGGCCACTTCTGTACTGAACGGGACATTTTGATTGCAACTATACTGGAACTAATAGGAATCATCTGGGTTTATGGAGGGAACAGATTCCTTGAAGATATAAAAATGATAATGGAACAGAGGTGGATATTCCTGCTGCAGTGGAAAACTTGCTGGTTTGTCATTAT

>NM_007231.5
GGCTCACTCTGGCAGGTAGGAACAGGGGAGAGTGCACCTGCTACCAGTCAAGCTCAGCCAGACTGCAAGAGGAGGCGAGGCGGAGCCAGCCGAGGGAGTGAACCATGGACAAGTTGAAATGCCCGAGTTTCTTCAAGTGCAGGGAGAAGGAGAAAGTGTCGGCTTCATCAGAGAATTTCCATGTTGGTGAAAATGATGAGAATCAGGACCGTGGTAACTGGTCCAAAAAATCGGATTATCTTCTATCTATGATTGGATACGCAGTGGGATTAGGAAATGTGTGGAGATTTCCATATCTGACCTACAGCAATGGTGGAGGCGCCTTCTTGATACCTTATGCAATTATGTTAGCATTGGCTGGTTTACCTTTGTTCTTTCTGGAGTGTTCACTGGGACAATTTGCTAGCTTAGGTCCAGTTTCAGTTTGGAGGATTCTTCCATTGTTTCAAGGTGTGGGAATTACAATGGTCCTGATCTCCATTTTTGTGACAATCTATTACAATGTCATAATTGCCTATAGTCTTTACTACATGTTTGCTTCTTTTCAAAGTGAACTACCATGGAAAAATTGTTCTTCGTGGTCAGATAAAAACTGTAGCAGATCACCAATAGTAACTCACTGTAATGTGAGTACAGTGAATAAAGGAATACAAGAGATCATCCAAATGAATAAAAGCTGGGTAGACATCAACAATTTTACCTGCATCAACGGCAGTGAAATTTATCAGCCAGGGCAGCTTCCCAGTGAACAATATTGGAATAAAGTGGCGCTCCAACGGTCAAGTGGAATGAATGAGACTGGAGTAATTGTTTGGTATTTAGCACTTTGTCTTCTTCTGGCTTGGCTCATAGTTGGAGCAGCACTATTTAAAGGAATCAAATCGTCTGGCAAGGTGGTATATTTTACAGCTCTTTTCCCCTATGTGGTCCTACTCATCCTGTTAGTACGAGGTGCAACTCTGGAGGGTGCTTCAAAAGGCATTTCATACTATATTGGAGCCCAGTCAAATTTTACAAAACTTAAGGAAGCTGAGGTATGGAAAGATGCTGCCACTCAGATATTTTACTCCCTTTCAGTGGCTTGGGGTGGCTTAGTTGCTCTATCATCTTACAATAAGTTCAAAAACAACTGCTTCTCTGATGCCATTGTGGTTTGTTTGACAAACTGTCTCACTAGCGTGTTTGCTGGATTTGCTATTTTTTCTATATTGGGACACATGGCCCATATATCTGGAAAGGAAGTTTCTCAAGTTGTAAAATCAGGTTTTGATTTGGCATTCATTGCCTATCCAGAGGCTCTAGCCCAACTCCCAGGTGGTCCATTTTGGTCCATATTATTTTTTTTCATGCTTTTAACTTTGGGTCTCGATTCTCAGTTTGCTTCGATTGAAACGATCACAACAACAATTCAAGATTTATTTCCCAAAGTGATGAAGAAAATGAGGGTTCCCATAACTTTGGGCTGCTGCTTGGTTTTGTTTCTCCTTGGTCTCGTCTGTGTGACTCAGGCTGGAATTTACTGGGTTCATCTGATTGACCACTTCTGTGCTGGATGGGGCATTTTAATTGCAGCTATACTGGAGCTAGTTGGAATCATCTGGATTTATGGAGGGAACAGATTCATTGAGGATACAGAAATGATGATTGGAGCAAAGAGGTGGATATTCTGGCTATGGTGGAGAGCTTGCTGGTTTGTAATTACGCCTATCCTTTTGATTGCAATATTTATCTGGTCATTGGTGCAATTTCATAGACCTAATTATGGCGCAATTCCATACCCTGACTGGGGAGTTGCTTTAGGCTGGTGTATGATTGTTTTCTGCATTATTTGGATTCCAATTATGGCTATCATAAAAATAATTCAGGCTAAAGGAAACATCTTTCAACGCCTTATAAGTTGCTGCAGACCAGCTTCTAACTGGGGTCCATACCTGGAACAACATCGTGGGGAAAGATATAAAGACATGGTAGATCCTAAAAAAGAGGCTGACCATGAAATACCTACTGTTAGTGGCAGCAGAAAACCGGAATGAGATCTCATTGAAAAAAATATATGATTGTATAATGTGATTTTTTTTAGAATAGGGGGAACCTTATTTATTTGTGTGTTAACTGAATAGGAAAATGTACATACTATGTTCATGATAGTGTGATTTTTTTCACATTTAAGCAGGAATGCAATATAAAAATGTGAATCTCTTAATTCTCAGCCATGTGCTTATTATATTTCTTTTTAGATTGTCTATCTGTATAACACACACACACACACCTAAGAGTCTCTATTTCACAATTATATTTTTGTAAATAGTATATGCATTTTTAATACATTGGAGGCTTTATTTTGAACTAATTTCTTAGAGAATAGTTATATTTTCTATTACACAAGTTTAAAAATATTATTAACTTGTATTTTCTTAATATACAATCTATCTTTTCCACAAATATGAGTGGGAAATAAATCAGCACATTTGAAAGAAAGTGTTAAAACTGAAGGCCTCACTTAATTAGAAACGTGATAAATATATGGACAAATGGACTATACATACTATAAGAGGACTGTAGTTTAATACTTTTTACCCAAATATGTTTAAAAACTTCGTGCATTTGTTACAGCTCATGTTTTCTATATGAACTTAGTCATTAATGTTCTTTATAAAAAGTGAAATAAGATGGAAAAATAAGGATCCTACAGCCAGTAAGTGATAAATCTAGAAAATTGAGTTTTGAGTACCTCTTTTCCCATATACAATCTTCCTTCCTTAGGTAATTTGGAAGAAAACTATGACCCATTTAATTTCTATTGTGTTTCACAAAATTAAGTGTTGTTCATTATACTCTCTGAAATATAGGTTTAATTTCAAATAGAATATGGACTTAAATGTTAATGAGAAAATGGCTTTAATCAATTCTAGCATTTTATTACTGTAATACAGGGCTGATAGAGTGATTTTGTCTTATATGAGTAAGTTACTACTTACAGGTGATAACTTGCATACTATTGGAAGATAAACTTGTCAAACTTGTCAAGAATGAGAAAAGCCAAATTAGAAAATCCTATGTCCTAGTTTCCTTACCAAGGATAATTAAATATATCACTAAGAGCTTTATATATTGATTATATATTGTTGACAACTGGTTTAAGCATCATAGCCTATGATGATAAACACTGCCTATATATGTAAATAGCTTTTCATCAATTCTTAAATTTCTTAACCtaggcttcagggagcatatgaaaccaaaattatatggaacattttctgtgtgtacatgtacatgcatttttctagggagagagtccgtaggtttatcagaatatcaaggaaaactgtgacccaaagaagtttaagaatcacATACACTGCTGCTGGCTTTTTGTGCTTGGCAAATGAGTGACAATAGAAGAAATAATTTTTCTTACACATTTTAAAACGTTTTCTCTTCCTTGTGATTGAAGATGAAAGGAGTAAGAAATTAAGGCATTTGTTTAATTTATACTGGTAACTTATTTAGGGGGGAGGGGACATGAAGGTAGGTAAATAGGTAGGCCTCTAATTGAACCACCTCTCTAAGTTATGTACGTATATATAAGCTGAAATTGTGTTTGACATTCTGAGGGTTttctttttctttttccttttttttttttttggtggggggctgggggtcagagtcttgttctgttgcccgggctggagtgcagtggcatgatctcagctcactgcaacctctgccttctggattcaagtgattctcctgcctcagcctcttgagtagctgggactacaggtgcccgccaccacaccagctaatttttgtatttttagtagaggcgaagtttccccatgttggccaggctggtcttgaactcccgacctcaagtgatctgtctacctcggcctcctaaagtgctgagattacaggtgtgagccaccgtgcccggccCATTCTAAGGGTTTTCTTTGAAGACAGGTCAAATGCTGTTAGTAAGTTTCAGGAGATTGTTAATTCCTCAGTTATACCAGATTTTATAAAATATTTGAGAATAGATGGCTAACAAGAGGTTAGAAATACTTTTCCTTAATTTTAATCCACAGTATGTTACATGCATTCTACCACTACATTTTGGTGCTATTTAAGGTGTGCAATTTTCTATAGGTGACTTTTGCAATTCAGGGAAGATTTGGGCATATTAAATGAAAGAATATCTAATTGGGGGAGGTGTGAAGGGAAAGAAATTCTTTTCAAAAGCTGACCACAAAGAGTAGTTAAAAGTTTTTGTCACTATCTTCACAAgtgtgtaaagcacagatttcaacagagtgcttggcatattgtagggtgctcaatggtggtttttattattATTACTCAGATTCCACAGTGGCAAGAAACATCATTCTACATAATGGAAAACATTTACATCAAATCCCACTTACTTTAATGCGAACTTGGAGATAATTTATGGTATTGTATTGTAAACCATTAATGAAAACTTTTTCACAGTTGAGTGAAATTAAAATCACTATATCTCAA

>NM_007231.5 

GGCTCACTCTGGCAGGTAGGAACAGGGGAGAGTGCACCTGCTACCAGTCAAGCTCAGCCAGACTGCAAGAGGAGGCGAGGCGGAGCCAGCCGAGGGAGTGAACCATGGACAAGTTGAAATGCCCGAGTTTCTTCAAGTGCAGGGAGAAGGAGAAAGTGTCGGCTTCATCAGAGAATTTCCATGTTGGTGAAAATGATGAGAATCAGGACCGTGGTAACTGGTCCAAAAAATCGGATTATCTTCTATCTATGATTGGATACGCAGTGGGATTAGGAAATGTGTGGAGATTTCCATATCTGACCTACAGCAATGGTGGAGGCGCCTTCTTGATACCTTATGCAATTATGTTAGCATTGGCTGGTTTACCTTTGTTCTTTCTGGAGTGTTCACTGGGACAATTTGCTAGCTTAGGTCCAGTTTCAGTTTGGAGGATTCTTCCATTGTTTCAAGGTGTGGGAATTACAATGGTCCTGATCTCCATTTTTGTGACAATCTATTACAATGTCATAATTGCCTATAGTCTTTACTACATGTTTGCTTCTTTTCAAAGTGAACTACCATGGAAAAATTGTTCTTCGTGGTCAGATAAAAACTGTAGCAGATCACCAATAGTAACTCACTGTAATGTGAGTACAGTGAATAAAGGAATACAAGAGATCATCCAAATGAATAAAAGCTGGGTAGACATCAACAATTTTACCTGCATCAACGGCAGTGAAATTTATCAGCCAGGGCAGCTTCCCAGTGAACAATATTGGAATAAAGTGGCGCTCCAACGGTCAAGTGGAATGAATGAGACTGGAGTAATTGTTTGGTATTTAGCACTTTGTCTTCTTCTGGCTTGGCTCATAGTTGGAGCAGCACTATTTAAAGGAATCAAATCGTCTGGCAAGGTGGTATATTTTACAGCTCTTTTCCCCTATGTGGTCCTACTCATCCTGTTAGTACGAGGTGCAACTCTGGAGGGTGCTTCAAAAGGCATTTCATACTATATTGGAGCCCAGTCAAATTTTACAAAACTTAAGGAAGCTGAGGTATGGAAAGATGCTGCCACTCAGATATTTTACTCCCTTTCAGTGGCTTGGGGTGGCTTAGTTGCTCTATCATCTTACAATAAGTTCAAAAACAACTGCTTCTCTGATGCCATTGTGGTTTGTTTGACAAACTGTCTCACTAGCGTGTTTGCTGGATTTGCTATTTTTTCTATATTGGGACACATGGCCCATATATCTGGAAAGGAAGTTTCTCAAGTTGTAAAATCAGGTTTTGATTTGGCATTCATTGCCTATCCAGAGGCTCTAGCCCAACTCCCAGGTGGTCCATTTTGGTCCATATTATTTTTTTTCATGCTTTTAACTTTGGGTCTCGATTCTCAGTTTGCTTCGATTGAAACGATCACAACAACAATTCAAGATTTATTTCCCAAAGTGATGAAGAAAATGAGGGTTCCCATAACTTTGGGCTGCTGCTTGGTTTTGTTTCTCCTTGGTCTCGTCTGTGTGACTCAGGCTGGAATTTACTGGGTTCATCTGATTGACCACTTCTGTGCTGGATGGGGCATTTTAATTGCAGCTATACTGGAGCTAGTTGGAATCATCTGGATTTATGGAGGGAACAGATTCATTGAGGATACAGAAATGATGATTGGAGCAAAGAGGTGGATATTCTGGCTATGGTGGAGAGCTTGCTGGTTTGTAATTACGCCTATCCTTTTGATTGCAATATTTATCTGGTCATTGGTGCAATTTCATAGACCTAATTATGGCGCAATTCCATACCCTGACTGGGGAGTTGCTTTAGGCTGGTGTATGATTGTTTTCTGCATTATTTGGATTCCAATTATGGCTATCATAAAAATAATTCAGGCTAAAGGAAACATCTTTCAACGCCTTATAAGTTGCTGCAGACCAGCTTCTAACTGGGGTCCATACCTGGAACAACATCGTGGGGAAAGATATAAAGACATGGTAGATCCTAAAAAAGAGGCTGACCATGAAATACCTACTGTTAGTGGCAGCAGAAAACCGGAATGAGATCTCATTGAAAAAAATATATGATTGTATAATGTGATTTTTTTTAGAATAGGGGGAACCTTATTTATTTGTGTGTTAACTGAATAGGAAAATGTACATACTATGTTCATGATAGTGTGATTTTTTTCACATTTAAGCAGGAATGCAATATAAAAATGTGAATCTCTTAATTCTCAGCCATGTGCTTATTATATTTCTTTTTAGATTGTCTATCTGTATAACACACACACACACACCTAAGAGTCTCTATTTCACAATTATATTTTTGTAAATAGTATATGCATTTTTAATACATTGGAGGCTTTATTTTGAACTAATTTCTTAGAGAATAGTTATATTTTCTATTACACAAGTTTAAAAATATTATTAACTTGTATTTTCTTAATATACAATCTATCTTTTCCACAAATATGAGTGGGAAATAAATCAGCACATTTGAAAGAAAGTGTTAAAACTGAAGGCCTCACTTAATTAGAAACGTGATAAATATATGGACAAATGGACTATACATACTATAAGAGGACTGTAGTTTAATACTTTTTACCCAAATATGTTTAAAAACTTCGTGCATTTGTTACAGCTCATGTTTTCTATATGAACTTAGTCATTAATGTTCTTTATAAAAAGTGAAATAAGATGGAAAAATAAGGATCCTACAGCCAGTAAGTGATAAATCTAGAAAATTGAGTTTTGAGTACCTCTTTTCCCATATACAATCTTCCTTCCTTAGGTAATTTGGAAGAAAACTATGACCCATTTAATTTCTATTGTGTTTCACAAAATTAAGTGTTGTTCATTATACTCTCTGAAATATAGGTTTAATTTCAAATAGAATATGGACTTAAATGTTAATGAGAAAATGGCTTTAATCAATTCTAGCATTTTATTACTGTAATACAGGGCTGATAGAGTGATTTTGTCTTATATGAGTAAGTTACTACTTACAGGTGATAACTTGCATACTATTGGAAGATAAACTTGTCAAACTTGTCAAGAATGAGAAAAGCCAAATTAGAAAATCCTATGTCCTAGTTTCCTTACCAAGGATAATTAAATATATCACTAAGAGCTTTATATATTGATTATATATTGTTGACAACTGGTTTAAGCATCATAGCCTATGATGATAAACACTGCCTATATATGTAAATAGCTTTTCATCAATTCTTAAATTTCTTAACCtaggcttcagggagcatatgaaaccaaaattatatggaacattttctgtgtgtacatgtacatgcatttttctagggagagagtccgtaggtttatcagaatatcaaggaaaactgtgacccaaagaagtttaagaatcacATACACTGCTGCTGGCTTTTTGTGCTTGGCAAATGAGTGACAATAGAAGAAATAATTTTTCTTACACATTTTAAAACGTTTTCTCTTCCTTGTGATTGAAGATGAAAGGAGTAAGAAATTAAGGCATTTGTTTAATTTATACTGGTAACTTATTTAGGGGGGAGGGGACATGAAGGTAGGTAAATAGGTAGGCCTCTAATTGAACCACCTCTCTAAGTTATGTACGTATATATAAGCTGAAATTGTGTTTGACATTCTGAGGGTTttctttttctttttccttttttttttttttggtggggggctgggggtcagagtcttgttctgttgcccgggctggagtgcagtggcatgatctcagctcactgcaacctctgccttctggattcaagtgattctcctgcctcagcctcttgagtagctgggactacaggtgcccgccaccacaccagctaatttttgtatttttagtagaggcgaagtttccccatgttggccaggctggtcttgaactcccgacctcaagtgatctgtctacctcggcctcctaaagtgctgagattacaggtgtgagccaccgtgcccggccCATTCTAAGGGTTTTCTTTGAAGACAGGTCAAATGCTGTTAGTAAGTTTCAGGAGATTGTTAATTCCTCAGTTATACCAGATTTTATAAAATATTTGAGAATAGATGGCTAACAAGAGGTTAGAAATACTTTTCCTTAATTTTAATCCACAGTATGTTACATGCATTCTACCACTACATTTTGGTGCTATTTAAGGTGTGCAATTTTCTATAGGTGACTTTTGCAATTCAGGGAAGATTTGGGCATATTAAATGAAAGAATATCTAATTGGGGGAGGTGTGAAGGGAAAGAAATTCTTTTCAAAAGCTGACCACAAAGAGTAGTTAAAAGTTTTTGTCACTATCTTCACAAgtgtgtaaagcacagatttcaacagagtgcttggcatattgtagggtgctcaatggtggtttttattattATTACTCAGATTCCACAGTGGCAAGAAACATCATTCTACATAATGGAAAACATTTACATCAAATCCCACTTACTTTAATGCGAACTTGGAGATAATTTATGGTATTGTATTGTAAACCATTAATGAAAACTTTTTCACAGTTGAGTGAAATTAAAATCACTATATCTCAA

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