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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name TEN1P1
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Plot displaying the genomic locations of a retrocopy (in chr9) and its respective parental gene (in chr17). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr9:81488296-81488646  UCSC
Coordinates (T2T) chr9:93640443-93640793  UCSC
Coordinates (hg19) chr9:84103211-84103561  UCSC
Strand +
Parental Sequence NM_001113324.3
Parental seq. overlap 302 bp
Parental seq. overlap (%) 30.9%
Genomic Region Intergenic
Retrocopy Summary TEN1P1, located on chr9:81488296-81488646, is a retrocopy of the parental gene TEN1. 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 TEN1
Full Name TEN1 subunit of CST complex
Also known as C17orf106
Coordinate chr17:75979240-76000586
Strand +
Gene summary C17ORF106, or TEN1, appears to function in a telomere-associated complex with STN1 (OBFC1; MIM 613128) and CTC1 (C17ORF68; MIM 613129) (Miyake et al., 2009 [PubMed 19854130]).[supplied by OMIM, Nov 2009]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes TEN1P1
Bonobo Pan paniscus TEN1P1
Gorilla Gorilla gorilla TEN1P1
Gibbon Nomascus leucogenys TEN1P1
Green monkey Chlorocebus sabaeus TEN1P1
Crab-eating macaque Macaca fascicularis TEN1P1
Rhesus Macaca mulatta CDK3P1
Baboon Papio anubis LOC101015334P1
Golden snub-nosed monkey Rhinopithecus roxellana TEN1P1
Marmoset Callithrix jacchus TEN1P3
Orangutan Pongo abelii 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

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 Medulla00.20.40.6
log10(TPM+1)

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

Related Sequence

>TEN1P1
AAGGAGCCAGTGATGCTGCCCAAACCTGGGACTTATTCCCTCCACTGGGAGGTCAGTACAAGCCAAGTTCCTGGTGGGGTCACACTGAGAACATTTGGCAGGTTGTGCCTCTATGACGTGACGTGATCAGTCCGGAGTGACGCTGATGGCTCATCATGGATCTGATCGGCACCAGGTTCTTGTCTGTACCAAGTTGGTGAAGCCCTTCCAAGCCCAGGTGGGCTCCCTGTACATTGTCCTCGGGGGGCTCCAGGACCAGCAGCACGGAGGCTCCATGATAAAGGCATTGGTGCTGAACTGTGTGGAAGGGATGGATCTGCCCTTGTGAGAACAAGCCAAGCGGGAGCAGAG
>NM_001113324.3
CCTTTGGCGCGTGAGTGACAGCGGCCCAGACAGAGGGGGCGATGTCCGCGTCGTGGCTGGGGCCGGTCGCGGGGCAGACTAATCCCCTGCTCCTGGCCAGGGGAGGCTCCCGAGCGGATCCTCGGGAAAGGGGCTCCGAAGGTCAAGAAACTGCCCTGCTGGGCGTCCGGGGAGTGGGAAAATAAAGCACTTTTTGTATCCCGCCCCTCCCCCGTCACGTGACCACGCGAGGCGGAAAGAAGAAATCCGAGGACCGGCGACGCCTAGAACAGGAGCCCATGATGCTGCCCAAACCTGGGACCTATTACCTCCCCTGGGAGGTTAGTGCAGGCCAAGTTCCTGATGGGAGCACGCTGAGAACATTTGGCAGGTTGTGCCTCTATGACATGATTCAGTCCAGAGTAACACTGATGGCTCAGCACGGATCCGATCAGCACCAGGTTCTTGTCTGTACCAAGTTGGTGGAGCCCTTCCACGCCCAGGTGGGCTCCCTGTACATCGTCCTCGGGGAGCTCCAGCATCAGCAGGACAGAGGCTCCGTGGTGAAGGCGCGCGTGCTGACCTGTGTGGAGGGGATGAACCTGCCCTTGTTGGAACAAGCCATCCGGGAGCAGAGACTGTACAAGCAGGAGCGGGGCGGCAGCCAGTAGGAAACAGCAGCCTAGCAACACCCTCACCTGCTTCAGAGCCCGAACCCTCTGGAGCTGCAGGAGCCCGGGAGAGCACAGACGCCTCCCCAGCGACGGCCTTGTCTGGAGCTCGAAAGCCGAGGGGCGGGTGATGAATCCAGCCCCTTCCCCTACTTTGGGATTGGCTCAGCAATGAGAACCCAGAAAGCATGCCATAAATCCGACAGCCCCACCCCAGGAGACTGCAGGTGGCCGAGCTTGGGCGCCGGGGCCGTGCTTGGTGTGGGGCCATGGAGGGTTCCAGAAGGTCCTGGTGAATAAAGGCCCAGGGGGCGTGCTCTTGAA

Publications

PMID - Link Title
No publications available for this retrocopy