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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SDHBP1
Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:135925891-135926329  UCSC
Coordinates (T2T) chr3:138671675-138672113  UCSC
Coordinates (hg19) chr3:135644733-135645171  UCSC
Strand +
Parental Sequence NM_003000.3
Parental seq. overlap 398 bp
Parental seq. overlap (%) 39.1%
Genomic Region Intergenic
Retrocopy Summary SDHBP1, located on chr3:135925891-135926329, is a retrocopy of the parental gene SDHB. 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 SDHB
Full Name succinate dehydrogenase complex iron sulfur subunit B
Also known as CWS2|IP|MC2DN4|PGL4|SDH|SDH1|SDH2|SDHIP
Coordinate chr1:17018722-17054032
Strand -
Gene summary This tumor suppressor gene encodes the iron-sulfur protein subunit of the succinate dehydrogenase (SDH) enzyme complex which plays a critical role in mitochondria. The SDH enzyme complex is composed of four nuclear-encoded subunits. This enzyme complex converts succinate to fumarate which releases electrons as part of the citric acid cycle, and the enzyme complex additionally provides an attachment site for released electrons to be transferred to the oxidative phosphorylation pathway. The SDH enzyme complex plays a role in oxygen-related gene regulation through its conversion of succinate, which is an oxygen sensor that stabilizes the hypoxia-inducible factor 1 (HIF1) transcription factor. Sporadic and familial mutations in this gene result in paragangliomas, pheochromocytoma, and gastrointestinal stromal tumors, supporting a link between mitochondrial dysfunction and tumorigenesis. Mutations in this gene are also implicated in nuclear type 4 mitochondrial complex II deficiency. [provided by RefSeq, Jun 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SDHBP1
Bonobo Pan paniscus SDHBP1
Gorilla Gorilla gorilla SDHBP1
Orangutan Pongo abelii SDHBP1
Gibbon Nomascus leucogenys SDHBP1
Green monkey Chlorocebus sabaeus SDHBP2
Crab-eating macaque Macaca fascicularis SDHBP1
Rhesus Macaca mulatta SDHBP1
Baboon Papio anubis SDHBP1
Golden snub-nosed monkey Rhinopithecus roxellana SDHBP1
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

>SDHBP1
cTCTCTGTGCCTGCTGCAGCAACACCTGCCCCAGCTACTGGTGGAACAGAGACAAATATCTGGGGCCTGCAGTTCTTATACAGGCCTATCACTGGATGATTGACTCCAGAGAAGACTTCACAGAAGAGTACCTGGCCAAGCTGCAGGACCCACTCTCTCTGTACCACTGCCACACCATCATGAACTACACAAGGACTTGTCCCACAGGTCTGAATCCAGGGAAGGCTACTGCGGAAATCAAGAAAATGTTGGTAACCTATAAGGAGAAGAAAGTTTCAGCTTAATTGTTCCCATGCTAAACATGACTTGTAACCAGTTCAGAGCTGAACATAATTTAGATCTAATTTGAGTTCCTTTAAAGTTCTTGATTTTCCATGAATACAACATGTATAATAAAAATTTTAAAAAATAAATAGATGTTATTCTACTTTATTAACAA
>NM_003000.3
GTCAGGAGCCAAGATGGCGGCGGTGGTCGCCCTCTCCTTGAGGCGCCGGTTGCCGGCCACAACCCTTGGCGGAGCCTGCCTGCAGGCCTCCCGAGGAGCCCAGACAGCTGCAGCCACAGCTCCCCGTATCAAGAAATTTGCCATCTATCGATGGGACCCAGACAAGGCTGGAGACAAACCTCATATGCAGACTTATGAAGTTGACCTTAATAAATGTGGCCCCATGGTATTGGATGCTTTAATCAAGATTAAGAATGAAGTTGACTCTACTTTGACCTTCCGAAGATCATGCAGAGAAGGCATCTGTGGCTCTTGTGCAATGAACATCAATGGAGGCAACACTCTAGCTTGCACCCGAAGGATTGACACCAACCTCAATAAGGTCTCAAAAATCTACCCTCTTCCACACATGTATGTGATAAAGGATCTTGTTCCCGATTTGAGCAACTTCTATGCACAGTACAAATCCATTGAGCCTTATTTGAAGAAGAAGGATGAATCTCAGGAAGGCAAGCAGCAGTATCTGCAGTCCATAGAAGAGCGTGAGAAACTGGACGGGCTCTACGAGTGCATTCTCTGTGCCTGCTGTAGCACCAGCTGCCCCAGCTACTGGTGGAACGGAGACAAATATCTGGGGCCTGCAGTTCTTATGCAGGCCTATCGCTGGATGATTGACTCCAGAGATGACTTCACAGAGGAGCGCCTGGCCAAGCTGCAGGACCCATTCTCTCTATACCGCTGCCACACCATCATGAACTGCACAAGGACCTGTCCTAAGGGTCTGAATCCAGGGAAAGCTATTGCAGAGATCAAGAAAATGATGGCAACCTATAAGGAGAAGAAAGCTTCAGTTTAACTGTTTCCATGCTAAACATGATTTATAACCAGCTCAGAGCTGAACATAATTTATATCTAATTTGAGTTCCTTTAAAGATCTTGGTTTTCCATGAATACAGCATGTATAATAAAAATTTTAAGAAATAAATGTTATTCTACTTTATTAACAAAAAAAAAA

Publications

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