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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name CCNHP2
Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr5). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:68920332-68920516  UCSC
Coordinates (T2T) chr3:68957068-68957252  UCSC
Coordinates (hg19) chr3:68969483-68969667  UCSC
Strand -
Parental Sequence NM_001239.4
Parental seq. overlap 166 bp
Parental seq. overlap (%) 12.9%
Genomic Region Intragenic (TAFA4)
Retrocopy Summary CCNHP2, located on chr3:68920332-68920516, is a retrocopy of the parental gene CCNH. 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 CCNH
Full Name cyclin H
Also known as CAK|CycH|p34|p37
Coordinate chr5:87311471-87412971
Strand -
Gene summary The protein encoded by this gene belongs to the highly conserved cyclin family, whose members are characterized by a dramatic periodicity in protein abundance through the cell cycle. Cyclins function as regulators of CDK kinases. Different cyclins exhibit distinct expression and degradation patterns which contribute to the temporal coordination of each mitotic event. This cyclin forms a complex with CDK7 kinase and ring finger protein MAT1. The kinase complex is able to phosphorylate CDK2 and CDC2 kinases, thus functions as a CDK-activating kinase (CAK). This cyclin and its kinase partner are components of TFIIH, as well as RNA polymerase II protein complexes. They participate in two different transcriptional regulation processes, suggesting an important link between basal transcription control and the cell cycle machinery. A pseudogene of this gene is found on chromosome 4. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Nov 2010]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes CCNHP1
Bonobo Pan paniscus CCNHP1
Gorilla Gorilla gorilla CCNHP1
Orangutan Pongo abelii CCNHP1
Gibbon Nomascus leucogenys CCNHP2
Green monkey Chlorocebus sabaeus CCNHP2
Baboon Papio anubis CCNHP1
Golden snub-nosed monkey Rhinopithecus roxellana CCNHP1
Marmoset Callithrix jacchus CCNHP3
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta 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

>CCNHP2
TCAAAGAAATCCAAACATGAGCAGGAAGAATGGACTGATGAAGACCTGGTAGATTCTCTCTTATCATTTGAAGTTGATTTGTATCAATGCCAACTAATCAACAGAAATAGGAAGCATATTTGGCATTTAACTTTATTTAAAAAGTATAATGTGAAAATATCAAAATATATTAAACTTTGCTATTT
>NM_001239.4
AGCGCGCCAGCGCCGGCTAGCCGGACGCCCTAGGCTTCCGCGAGATCTTCGGTGGGGGTACGGGTGTTTTACGCCAGGACGCTGATGCGTTTGGGTTCTCGTCTGCAGACCCTCTGGACCTGGTCACGATTCCATAATGTACCACAACAGTAGTCAGAAGCGGCACTGGACCTTCTCCAGCGAGGAGCAGCTGGCAAGACTGCGGGCTGACGCCAACCGCAAATTCAGATGCAAAGCCGTGGCCAACGGGAAGGTTCTTCCGAATGATCCAGTCTTTCTTGAGCCTCATGAAGAAATGACACTCTGCAAATACTATGAGAAAAGGTTATTGGAATTCTGTTCGGTGTTTAAGCCAGCAATGCCAAGATCTGTTGTGGGTACGGCTTGTATGTATTTCAAACGTTTTTATCTTAATAACTCAGTAATGGAATATCACCCCAGGATAATAATGCTCACTTGTGCATTTTTGGCCTGCAAAGTAGATGAATTCAATGTATCTAGTCCTCAGTTTGTTGGAAACCTCCGGGAGAGTCCTCTTGGACAGGAGAAGGCACTTGAACAGATACTGGAATATGAACTACTTCTTATACAGCAACTTAATTTCCACCTTATTGTCCACAATCCTTACAGACCATTTGAGGGCTTCCTCATCGACTTAAAGACCCGCTATCCCATATTGGAGAATCCAGAGATTTTGAGGAAAACAGCTGATGACTTTCTTAATAGAATTGCATTGACGGATGCTTACCTTTTATACACACCTTCCCAAATTGCCCTGACTGCCATTTTATCTAGTGCCTCCAGGGCTGGAATTACTATGGAAAGTTATTTATCAGAGAGTCTGATGCTGAAAGAGAACAGAACTTGCCTGTCACAGTTACTAGATATAATGAAAAGCATGAGAAACTTAGTAAAGAAGTATGAACCACCCAGATCTGAAGAAGTTGCTGTTCTGAAACAGAAGTTGGAGCGATGTCATTCTGCTGAGCTTGCACTTAACGTAATCACGAAGAAGAGGAAAGGCTATGAAGATGATGATTACGTCTCAAAGAAATCCAAACATGAGGAGGAAGAATGGACTGATGACGACCTGGTAGAATCTCTCTAACCATTTGAAGTTGATTTCTCAATGCTAACTAATCAAGAGAAGTAGGAAGCATATCAAACGTTTAACTTTATTTAAAAAGTATAATGTGAAAACATAAAATATATTAAAACTTTTCTATTGTTTTCTTTCCCTTTCACAGTAACTTTATGTAAAATAAACCATCTTCAAAAGA

Publications

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