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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name KHDC3LP1
Plot displaying the genomic locations of a retrocopy (in chr4) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr4:162985015-162985171  UCSC
Coordinates (T2T) chr4:166332811-166332967  UCSC
Coordinates (hg19) chr4:163906167-163906323  UCSC
Strand +
Parental Sequence NM_001017361.3
Parental seq. overlap 137 bp
Parental seq. overlap (%) 13.2%
Genomic Region Intergenic
Retrocopy Summary KHDC3LP1, located on chr4:162985015-162985171, is a retrocopy of the parental gene KHDC3L. 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 KHDC3L
Full Name KH domain containing 3 like, subcortical maternal complex member
Also known as C6orf221|ECAT1|HYDM2
Coordinate chr6:73362658-73364171
Strand +
Gene summary The protein encoded by this gene belongs to the KHDC1 family, members of which contain an atypical KH domain that may not bind RNA like canonical KH domains. This gene is specifically expressed in the oocytes, and recent studies suggest that it may function as a regulator of genomic imprinting in the oocyte. Mutations in this gene are associated with recurrent biparental complete hydatidiform mole. [provided by RefSeq, Dec 2011]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes KHDC3LP1
Bonobo Pan paniscus KHDC3LP1
Gorilla Gorilla gorilla KHDC3LP1
Orangutan Pongo abelii KHDC3LP1
Gibbon Nomascus leucogenys KHDC3LP1
Green monkey Chlorocebus sabaeus KHDC3LP2
Crab-eating macaque Macaca fascicularis KHDC3LP1
Rhesus Macaca mulatta KHDC3LP1
Golden snub-nosed monkey Rhinopithecus roxellana KHDC3LP1
Baboon Papio anubis 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

Related Sequence

>KHDC3LP1
AGCGAGGCTGAGATCTTGATATTTGGGAGGCCTTATTGCCAGAAGGACACATTCAAGATGATCATGAATACTTGATTGACTATCACGACCAGCTCCAGGTGCAAGCCTCGGAAAAGGCCCTCGCCCAGGATGTCGACACTCAGAAGGCTGAGACCCA
>NM_001017361.3
CTAGTCTCCCAGCTCCAGCTCGGCCTTTGGGTTTGCTGTGGTGTCCTTGTCTCCTGCAGGACCGGCCGCAGCATGGACGCTCCCAGGCGGTTTCCGACGCTCGTGCAACTGATGCAGCCAAAAGCAATGCCAGTGGAGGTGCTCGGTCACCTCCCTAAGCGGTTCTCCTGGTTCCACTCTGAGTTCCTGAAGAATCCGAAGGTAGTTCGCCTTGAGGTTTGGCTGGTGGAAAAGATCTTCGGCCGGGGCGGAGAACGCATCCCGCACGTCCAGGGTATGTCCCAAATCTTGATTCACGTGAATCGATTGGACCCTAACGGCGAGGCTGAGATCTTGGTATTTGGGAGGCCTTCTTACCAGGAGGACACAATCAAGATGATCATGAACCTGGCTGACTATCACCGCCAGCTCCAGGCGAAAGGCTCAGGAAAGGCCCTCGCCCAGGATGTCGCCACTCAGAAGGCCGAGACCCAGCGGTCTTCAATAGAAGTCCGGGAGGCCGGGACGCAGCGTTCGGTGGAGGTCCGGGAGGCCGGGACCCAGCGTTCGGTGGAAGTCCAGGAGGTCGGGACACAGGGTTCTCCGGTGGAGGTGCAGGAGGCCGGGACCCAGCAGTCTCTCCAGGCTGCCAACAAGTCGGGGACCCAGCGATCCCCCGAAGCTGCCAGCAAGGCAGTGACCCAGCGGTTTCGCGAGGATGCCCGGGACCCAGTTACTAGATTATGAAGGCATCTCAGGCCCTGGAGCCAGAGCCAGTCAGGGGTTAAAGTGAAAGCCCGTATTTCCGCCCAGAAGCTGGGGTTGGGGAGAGGATGTGGATTTTTTGTTTTACCCTTTCTGTTGCATGGTTGCAAACACAAACTTGAGTTCTAATAAAGAATTGCAAAGTGGAAGCCCGCCCCCCGCCTCCCCCCCGCCTCACTTAAGTCCAGGAAGCTGGGGTGGCGAGGAAGGATGATGTGGATTGTTTTTGTTTTACACCTTCTGTTGAATGGTTGCCAACACAAACTTGAGTTCTAATAAATAATTGCATTTCC

Publications

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