Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name NANOGP3
Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr6:53418562-53418738  UCSC
Coordinates (T2T) chr6:53258448-53258624  UCSC
Coordinates (hg19) chr6:53283360-53283536  UCSC
Strand -
Parental Sequence NM_024865.4
Parental seq. overlap 161 bp
Parental seq. overlap (%) 3.1%
Genomic Region Intergenic
Retrocopy Summary NANOGP3, located on chr6:53418562-53418738, is a retrocopy of the parental gene NANOG. 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 NANOG
Full Name Nanog homeobox
Also known as -
Coordinate chr12:7789402-7799146
Strand +
Gene summary The protein encoded by this gene is a DNA binding homeobox transcription factor involved in embryonic stem (ES) cell proliferation, renewal, and pluripotency. The encoded protein can block ES cell differentiation and can also autorepress its own expression in differentiating cells. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2015]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes NANOGP2
Bonobo Pan paniscus NANOGP2
Gorilla Gorilla gorilla NANOGP2
Orangutan Pongo abelii LOC100432049P2
Gibbon Nomascus leucogenys NANOGP5
Marmoset Callithrix jacchus NANOGP4
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana 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

>NANOGP3
ACAGAAATATCTCAGCCTCCAGCAGATGCAAGAACTTTCCAATATCCTGAGCCTTAGCTACAAACAGGTTAAGACCTGGTTCCAGAACCAGAGAATGAAATCTAAGAGGTGTCAGGAAAACAACCAGCCAAAGGGTAGCAATGGTGTGACTCAGAAGGCCTCAGCACCTACTTACCT
>NM_024865.4
ATAAATCTAGAGACTCCAGGATTTTAACGTTCTGCTGGACTGAGCTGGTTGCCTCATGTTATTATGCAGGCAACTCACTTTATCCCAATTTCTTGATACTTTTCCTTCTGGAGGTCCTATTTCTCTAACATCTTCCAGAAAAGTCTTAAAGCTGCCTTAACCTTTTTTCCAGTCCACCTCTTAAATTTTTTCCTCCTCTTCCTCTATACTAACATGAGTGTGGATCCAGCTTGTCCCCAAAGCTTGCCTTGCTTTGAAGCATCCGACTGTAAAGAATCTTCACCTATGCCTGTGATTTGTGGGCCTGAAGAAAACTATCCATCCTTGCAAATGTCTTCTGCTGAGATGCCTCACACGGAGACTGTCTCTCCTCTTCCTTCCTCCATGGATCTGCTTATTCAGGACAGCCCTGATTCTTCCACCAGTCCCAAAGGCAAACAACCCACTTCTGCAGAGAAGAGTGTCGCAAAAAAGGAAGACAAGGTCCCGGTCAAGAAACAGAAGACCAGAACTGTGTTCTCTTCCACCCAGCTGTGTGTACTCAATGATAGATTTCAGAGACAGAAATACCTCAGCCTCCAGCAGATGCAAGAACTCTCCAACATCCTGAACCTCAGCTACAAACAGGTGAAGACCTGGTTCCAGAACCAGAGAATGAAATCTAAGAGGTGGCAGAAAAACAACTGGCCGAAGAATAGCAATGGTGTGACGCAGAAGGCCTCAGCACCTACCTACCCCAGCCTTTACTCTTCCTACCACCAGGGATGCCTGGTGAACCCGACTGGGAACCTTCCAATGTGGAGCAACCAGACCTGGAACAATTCAACCTGGAGCAACCAGACCCAGAACATCCAGTCCTGGAGCAACCACTCCTGGAACACTCAGACCTGGTGCACCCAATCCTGGAACAATCAGGCCTGGAACAGTCCCTTCTATAACTGTGGAGAGGAATCTCTGCAGTCCTGCATGCAGTTCCAGCCAAATTCTCCTGCCAGTGACTTGGAGGCTGCCTTGGAAGCTGCTGGGGAAGGCCTTAATGTAATACAGCAGACCACTAGGTATTTTAGTACTCCACAAACCATGGATTTATTCCTAAACTACTCCATGAACATGCAACCTGAAGACGTGTGAAGATGAGTGAAACTGATATTACTCAATTTCAGTCTGGACACTGGCTGAATCCTTCCTCTCCCCTCCTCCCATCCCTCATAGGATTTTTCTTGTTTGGAAACCACGTGTTCTGGTTTCCATGATGCCCATCCAGTCAATCTCATGGAGGGTGGAGTATGGTTGGAGCCTAATCAGCGAGGtttctttttttttttttttCCTATTGGATCTTCCTGGAGAAAATACtttttttttttttttttttgaaacggagtcttgctctgtcgcccaggctggagtgcagtggcgcggtcttggctcactgcaagctccgtctcccgggttcacgccattctcctgcctcagcctcccgagcagctgggactacaggcgcccgccacctcgcccggctaatattttgtatttttagtagagacggggtttcactgtgttagccaggatggtctcgatctcctgaccttgtgatccacccgcctcggcctccctaacagctgggatttacaggcgtgagccaccgcgccctgccTAGAAAAGACATTTTAATAACCTTGGCTGCCGTCTCTGGCTATAGATAAGTAGATCTAATACTAGTTTGGATATCTTTAGGGTTTAGAATCTAACCTCAAGAATAAGAAATACAAGTACAAATTGGTGATGAAGATGTATTCGTATTGTTTGGGATTGGGAGGCTTTGCTTATTTTTTAAAAACTATTGAGGTAAAGGGTTAAGCTGTAACATACTTAATTGATTTCTTACCGTTTTTGGCTCTGTTTTGCTATATCCCCTAATTTGTTGGTTGTGCTAATCTTTGTAGAAAGAGGTCTCGTATTTGCTGCATCGTAATGACATGAGTACTGCTTTAGTTGGTTTAAGTTCAAATGAATGAAACAACTATTTTTCCTTTAGTTGATTTTACCCTGATTTCACCGAGTGTTTCAATGAGTAAATATACAGCTTAAACATAAATCTTTGTTAAATTTTTGGTTGGGGTGGAGAAGGAAATTAGCTGAGGACACTGCTATCTtagaaatgcatagaaatagctgagcgtggtggcctatgcctgtagtcccagctatttgggaggctgaggcaggagaatcgcttgaacctggtaggtggaggttgtagtgagccaatatcacaccactgcactccagcttgggcgacaagagcaaaactcccatctcaaaaataaataaataaataagtaaataaatgaataataaataaataTGCCAGTTTTAGAATGAATGAATAATAAATATGCCAGTTTTAGAAAAAAGGgcacttacgtgcattgtacatgtgcatctacaaatgtaatgggttattTCCGTGTATGAATCTGTAATTGATGCTAACATTTAAAGTTTCATCAGAGGCCTATATGTAAGTAAATTCTAAGGCTAGTTGAAACAGATTTATGTTCTCACCTTAAGAGCAGCTACGCAGGCATCTGTGAATTATACTAATAATCCTTTACTGTCCTTTTCCCATCTTGTGCCTGCCCTAAATGTATCTGATCTGAGAGCACGTCCCTTCACTCTGAAGCAGCATGATGCAGGTTATCAGAGTGGTTTTTTCCAGTCTTTTCTCTCATTATTTCCCCAATTGTCCAATGTTACTAAGACTATCCAGTCTAATTCCAAGTGttttttttttgttttattttgtttttttttaagactggagtcttactctgttgcccaggctggagtgtagtggagcgatctcggctcaccgcaacctccgcctcccgagttcaagtgattctcctgcctcagcctcccaagtagctgggactacaggggtgagccaccatgcccagctaattgtatttttagtagagacagggtttcactatgttggccaggctggtcttgaactcctgacctcatgatccaccagccttggcctcccaaagtgttgggattacaggcgtgagccactgcgcctggccTATCGtttgtttttttagacagtctctctctattgcccaggctggagtgcagtggcacaatcttggctcactgcaacctccgcctcctgggttcgagcaattctcctgcgtcagcctcctaagtagctgggattacaggcacccaacattacacccggctaatttttggtatttttagtagagatggggtttcaccatgttggccagcctggtctcgaactcctgacctcaggtgatccacctgactcggcctcccaaagtggtgggattataggtgtgagccaccgtgtctggGCAAtttttttttttttttttgagatggaacttcacttttgttactcaggctggagcacaatgatgcaatctctactcactgcaacctgcacctcccaggttcaagtgattctcttgcctcagcctttcgagtggctggtattacagggatttgccactatgcccagctaattctttgtatttagtagagatggggtttcaccgtattgaccaggctggtctcgaactcctgacctcaggtaatccaccctcctcggtctcccaaagtgctaggattacaggcatgagccacagtgcccagccttcttttttatttttttaagacgggcttattctgctgctcagactggggcttagtggcaccatttcacctcactgtagcctcgacttcccggattcaagcaatcctcctgcctgagtctctcaaatagcccagactataggtgcacaccaccatgccagctaacttttgtgtttttaggagagacggggtttccccatgttggcctggctagtctcaaactcctgagctcaagcagtctaccagccttggcctcccgaagtgctgagattacaggcatgagtcaccagcctagccCTGTATTATGTTTTCTGAACTTTTTTTTTTTTAATCACCCAGTATTAATCTTCAACCTCTTGGCAGGTAAGAATTTAGAGATCTATTTGGAATAATCTTTAAAGTAACAATAATAACTACAGTCAAAAGCAGTAAGATTAGTGggccaggtgccgtggctcacacctgtaatcccagcacttcgggagaccaaggcaggtggatcacctgaggtcaggagttcaagtttagcatggccaatatggcgaaaccctgtctctactaaaaatacagaaatttgccagaggtcttggtttgcgcctgtaatctcagctacttggaaggcggaggcaggataatcacttgaacccgggaggttgcagtgaccccagataatgccaccccactccagcctgggcgacagagcgtcactgtctcaaaaataaacaaaaaTAATAGGAGATTAGGCAAAAAGGATAGTACAAGGCTCTCTGTTTAACATTTCTTCCTTTCTCTAGAAAATTTTCCTTTCTTTTCCCAAAAGGAGGTGTGTGTTACTTCCAATGCTATATTTTAGTAGCTTTACCATATTTTAGTTTTTAAAATTCATTattttgatttctcagctttcattttcatttcagtttGTACCTGAAGGAGAGAAGCATGGATTGAATTTGCCTGGGTTTTCCGAATTTCATAATATAAATTTAAAACTCAGAAGTGGGAGGAATACAGGCCTTGATTAGTGAATTTCAAGCTCAGTTCTCGGGGTGAAGGACAAGGTTAATTCTACTCTGAGTAATTCTACCGTTCAGAAAACCTGGTGTGTCTACAGGAAAAAATACAGGCTGTGACTACAAACCTAAAAGTAAAGGCAAACAACTGCCAGACAGAGGCAGGAAAGTGGGGGAGAGCCCTTGGTAAATATTGCATGCCTCCTGGGGCCCCCATGGGCTTTGACTCAAGGGGGAGATGAAGGGAATTTGTTAAAGAAAGAAGTCACTGGGACAGACAAAAGCTTCCGGCACAGGAAGTTAGTTCGACTAAGGATACCGAAATGTAGGAATTTGAATGGGTTCCTGGGTGTGAGGTTGAAGTGAAACTTGATTGAAAAGAAGCTGCTGGTGGTGAGTCTCTCCTTAAGCTATTCCTGGCTTCTGGGTAGTTGGTGTAAACTCTGTGGTCCTTGAATAAAGTGTGCTTGAGAATTTTA

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