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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name WBP2P3
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Plot displaying the genomic locations of a retrocopy (in chr12) and its respective parental gene (in chr17). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr12:32227498-32228161  UCSC
Coordinates (T2T) chr12:32103724-32104387  UCSC
Coordinates (hg19) chr12:32380432-32381095  UCSC
Strand -
Parental Sequence NM_012478.4
Parental seq. overlap 557 bp
Parental seq. overlap (%) 30%
Genomic Region Intragenic (BICD1)
Retrocopy Summary WBP2P3, located on chr12:32227498-32228161, is a retrocopy of the parental gene WBP2. 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 WBP2
Full Name WW domain binding protein 2
Also known as DFNB107|GRAMD6|WBP-2
Coordinate chr17:75845699-75856436
Strand -
Gene summary The globular WW domain is composed of 38 to 40 semiconserved amino acids shared by proteins of diverse functions including structural, regulatory, and signaling proteins. The domain is involved in mediating protein-protein interactions through the binding of polyproline ligands. This gene encodes a WW domain binding protein that is a transcriptional coactivator of estrogen receptor alpha and progesterone receptor. Defects in this gene have been associated with hearing impairment. [provided by RefSeq, Jan 2017]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes WBP2P2
Bonobo Pan paniscus WBP2P2
Gorilla Gorilla gorilla WBP2P2
Orangutan Pongo abelii WBP2P2
Gibbon Nomascus leucogenys WBP2P3
Green monkey Chlorocebus sabaeus WBP2P2
Crab-eating macaque Macaca fascicularis WBP2P1
Rhesus Macaca mulatta WBP2P1
Baboon Papio anubis WBP2P1
Golden snub-nosed monkey Rhinopithecus roxellana WBP2P1
Marmoset Callithrix jacchus WBP2P2
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)

Adipose SubcutaneousMuscle SkeletalArtery TibialArtery CoronaryHeart Atrial AppendageAdipose VisceralUterusVaginaBreast Mammary TissueSkin Not Sun ExposedMinor Salivary GlandBrain CortexAdrenal GlandThyroidLungSpleenPancreasEsophagus MuscularisEsophagus MucosaEsophagus Gastroesophageal JunctionStomachColon SigmoidSmall Intestine Terminal IleumColon TransverseProstateTestisNerve TibialSkin Sun ExposedHeart Left VentricleBrain CerebellumWhole BloodArtery AortaPituitaryBrain Frontal CortexBrain CaudateBrain Nucleus AccumbensBrain PutamenBrain HypothalamusBrain Spinal CordBrain HippocampusBrain Anterior Cingulate CortexOvaryBrain Cerebellar HemisphereLiverBrain Substantia NigraKidney CortexBrain AmygdalaCervix EctocervixFallopian TubeCervix EndocervixBladderKidney Medulla00.20.4
log10(TPM+1)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

Related Sequence

>WBP2P3
AGAGACTATCGTGCTCAACAAGAATCACTCAAAGGGTGGCAGAGTGATCAAGAACACCAAGAACATCCTAATGTCCTACGTCCATGTGGAACTTACATTCAATGACAAGAAGAATGTGCCAGAGTCCTTCAAAGGGACCAAGAAAGGCATCGTCTACCTTACCCCTTACCGATCATCTTTCTGTCCAAGAAGAAGAACTCCATGAAGCCTTCGTGATGCCTTTTCACCTGATGAAGGACTGTGAGATCAACTAGCCTGTTTGCTGCCAACTACTTCAAAAGAACAGTGAAGGGTGAAGCGGGAGATGGCTGGGAGGGCTGGGGTTCATACAAGTTAACCTTACAGCAGTTTGGACAATGAATGCTCCAGGTGGCATTTCAAGCCTCCAGGGGCGAGGCCCCCAATGGAGGCTACGGGTACTCTTACATACCCAACAGAGCCTATGTCTTTCCTCTGCCAGTTGCCAATGGAATGTACCTTTGCCCTCCTGGCTACCCCAATCCACAGTCCCCATCTGAGTTCTATCCAGGACCTCCCATGATGGATGGAGCTATGGGATGCCTGCAATCCCTGCCACTGCCCTATCTGGGCTCATGGAACCTCTGGTCAGTGGCCCCATTGGCCCCTCTGCTCTGGCAGCCAAAGCCAGAGCCACAGAAGCAGT
>NM_012478.4
ATTGCGTTTTGAGTCTCGGGACCCCTGTTGGAGAGACTATGGCGCTCAACAAGAATCACTCGGAGGGCGGCGGAGTGATCGTCAATAACACCGAGAGCATCCTAATGTCCTATGATCACGTGGAACTCACATTCAATGACATGAAGAACGTGCCAGAAGCCTTCAAAGGGACCAAGAAAGGCACTGTCTACCTTACCCCTTACCGGGTCATCTTTCTGTCCAAGGGCAAGGATGCCATGCAGTCCTTCATGATGCCATTTTATCTCATGAAAGACTGTGAGATCAAGCAGCCCGTATTTGGTGCAAACTACATCAAGGGAACAGTGAAGGCGGAAGCGGGAGGTGGCTGGGAAGGCTCTGCTTCCTACAAGTTGACTTTCACGGCAGGGGGCGCCATTGAGTTCGGACAGCGGATGCTCCAGGTGGCATCTCAAGCCTCCAGAGGTGAAGTCCCCAGTGGAGCCTATGGCTACTCTTACATGCCCAGCGGGGCCTATGTCTATCCCCCGCCAGTCGCCAATGGAATGTACCCCTGCCCTCCTGGCTACCCCTATCCACCGCCCCCACCTGAGTTCTATCCAGGACCCCCCATGATGGACGGGGCCATGGGATACGTGCAGCCCCCACCACCGCCCTACCCTGGGCCCATGGAACCTCCGGTCAGCGGCCCCGATGTCCCCTCCACTCCTGCAGccgaagccaaggccgcagaagcagccgccagcGCCTATTACAACCCAGGCAATCCTCACAACGTCTACATGCCCACGAGCCAGCCGCCGCCACCTCCCTACTACCCACCGGAAGATAAGAAGACCCAGTAGgccctcctgcctccctgcctcccaccctcatctctctaccctacccctcccATCGGGGCTGTGCTGGGGCTTGGGGAGGGGAGGGGGCGCCTTGTTCTCCCTCCAGGTCTGATCATAAACAATTACCAGGAACTAGCATTGTGGGACATTAGGGCCCCCGGCCTCGGGAGAGGTGCCGCCCAGCTTCCCATGCCAGCCCGGAGCCCACAGTGCTGCCCAGCGTACCTCCCTCACCGTCTGGGGCTCTTCTGGGAGCACGGAGCATCCCCTGTTCCTGTTTCACTCTCAGCTTCTCCCCTCGAAGGGACTCTCTGGCCACCTCCTCCACCGCAGTCCAGCTCCCTCAGTCTGGCACCCACTGCTACACTCAGCCTCATGAGCCACTTCAGACCAGCCAGGTGTCTTCCCGGGCCCTGCCAGACCCTGCTCACATTCCCTCTGCTGGTCTGTGCTGGTCTCAGAAGGCCACCGCGCCCGCATTCCACTCAGCCAGGGTCCAGCTGCAGCCCCCGCCACCCTTCCTTCCCTTCCCTGTCCTGGGTCATGTTGTTGCCACCCTGTGTGACTTTTGAAGCTGTAAAATGAGCTTCCAGGGCTTGGGTGGCGTCGGGGCAGGGCCGCCGAGGCTGGGAGGAAGCCCTTCTGCCTTTTGCTGGTGTTTCTGGAATTTGCTTTCCCTCACCTCTCACTTCCTTCTAGAAGGAGCTTCCTGACTGGAACCAGAGAATGCATGTCTGTCCACTTGGTGGCTGCTGGGTGGGGCCGGGAACAAGGGCCCCTGACCCTGTGTGCTGGCCGGGACCTGCCACCAGCCCCCCAGCCTGCTTCTTCCCCTTAAGCTTTGTGCCCCTGGATGCGCTAACATTCACTCTTGTTTGTCCCTGGACTGGCCATGAAGTGAGGAGATGGTTATTTAAAGAGAATTCCCTATTTATTTGACAAAAAATCCAGTTAATATATTAATGTGAAATAAACCCTGTTTGCACCTCGATTTGTTTGCTGAAAATGTGAAATAGTAAAAATGAAATAACTGGA

Publications

PMID - Link Title
No publications available for this retrocopy