Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

Summary

Retrocopy Name NDUFAF1P2
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Plot displaying the genomic locations of a retrocopy (in chr19) and its respective parental gene (in chr15). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr19:56342338-56343689  UCSC
Coordinates (T2T) chr19:59440206-59441557  UCSC
Coordinates (hg19) chr19:56853707-56855058  UCSC
Strand -
Parental Sequence XM_011521659.3
Parental seq. overlap 1042 bp
Parental seq. overlap (%) 70.1%
Genomic Region Intragenic (ZSCAN5A)
Retrocopy Summary NDUFAF1P2, located on chr19:56342338-56343689, is a retrocopy of the parental gene NDUFAF1. 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 NDUFAF1
Full Name NADH:ubiquinone oxidoreductase complex assembly factor 1
Also known as CGI-65|CGI65|CIA30|MC1DN11
Coordinate chr15:41387353-41402501
Strand -
Gene summary This gene encodes a complex I assembly factor protein. Complex I (NADH-ubiquinone oxidoreductase) catalyzes the transfer of electrons from NADH to ubiquinone (coenzyme Q) in the first step of the mitochondrial respiratory chain, resulting in the translocation of protons across the inner mitochondrial membrane. The encoded protein is required for assembly of complex I, and mutations in this gene are a cause of mitochondrial complex I deficiency. Alternatively spliced transcript variants have been observed for this gene, and a pseudogene of this gene is located on the long arm of chromosome 19. [provided by RefSeq, Dec 2011]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes NDUFAF1P2
Bonobo Pan paniscus NDUFAF1P1
Gorilla Gorilla gorilla NDUFAF1P2
Orangutan Pongo abelii NDUFAF1P1
Gibbon Nomascus leucogenys NDUFAF1P1
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
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

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 Medulla00.51
log10(TPM+1)

Related Sequence

>NDUFAF1P2
GAATTGGGCTATTTGCTGAAGCTTCTTGGTAGCCCTTGGTAGCCCAGGAAGAAACTTACATTTTGATTTTTTCGTACCATGGCTTTGGTTCACAAATTGCTGCATGGCACTTATATTCTCAGAAAATGCTCTAAGACAACTGCTACCTTGCATTCATTTTTGGGTATTCACTTTGCACACCACTCCAGTAGTCTTCAGAAACTAGTGGCTTCTCCTGGCAAAGCCTCCTCACAGAGGAATACTGAAGGGGGTTGCCAAGGACATCACCAGAAAGAAGTTGCTTTGGATATAACTTCTCCTGAGGAGAAACCTGAAGTTAGTTTCAATAAAGCAATTAGAGATGAAATAAAGGACCATTTTAGGCATTTGAAGGATGAAATTGTGGATCATTGGATAGGACCCGAAGGCCGCCCTCTGCATGAGGTCTTGCTGGAACAAGCCAAGGTTGTCTGACAGTTCTGGGGGAAAGAAGACTTGGATAAGTAGATAGTGACTTCTGAAAAGACGATTGGAGGCAGAAGTGAAGTATTTTTGAAAATGGGCAAGAATAACCAAAGTGCACTGCTATATGGAACTCTGAGCTCTGAGGTGCCTCAGGATGGGGAGACTACCTGAAGTGGGTACTGTGCAATGATATCCAGGATTCCAGGGGGTGCTTTTGAGAGGAAGATGTCTTAGGAAAATGTCTTATGATTGGTCCCAGTTCAGTACTCTGTATCTCCGTGTATGTGGGGATGGTTGGCCTTGGATGATGAATATCAGGGAGGACACAGATATAATCCAGAGGAAAAACAGATGTATAGTTACTTCATGTTCACCCGTGGGGACTCCTACTGGCAGGAGGTCAAGATCCCTTTTTCCAAATTTTTTTCCCTAATCAAGGAAGAGTGCAGGATGTTCAGAGTCAGCTTCTGCTTGACAAGATCTCTTCTATAGCATTCACCTTGGCTGATAAAGTGGGTGGTCCATTCTTCCTGGAGATAGATTTTATTGGAGTGCTTACTGTTCCAGCCCACACAGAATTTGCCTATGAAAATTCTCCAGAGCTTAACCCAAGAATTTAAAAATAAAGATCATGTGGTAGTTTTCTTTTACTAAACTAAGGGTACTAGTATCTACAATGATATAAACAAAATAAAATATTTATTTAAGGGCATCCC
>XM_011521659.3
ATAGGCTCGGGGAGGTAAGCGGCGGCAGGCCGGCGGTTGGTGTGTCCCGGGTGTGGGGAGGCGACAGAGCCCTGGCACTTGAGGGTTGAGGGGGCCTCCCCAGCGCGGCGAACCGTCTAGCCTCCGGAGGCCAGGCCGTGAGTGCGGGAGGTATACGCCAAGGCGGAAGAATtttgccactcactacctgtgtgacctcgggtaaattagccttggaacgtcagtttcttcgtctctataattgaaataataatagtacctctctcaggattgttgtgagccgtcagtgaaacacttagagcagtttctggcacatgGTAGAATTGGGCTATTTGCTGAAGCTTCTTGGTGGCCCTTGCTAGCCCAGGAAGAAACTTACATTTTGATTTTTTTGTACCATGGCTTTGGTTCACAAATTGCTGCGTGGTACTTATTTTCTCAGAAAATTCTCTAAGCCAACTTCTGCCTTGTATCCATTTTTGGGTATTCGCTTTGCAGAGTATTCCAGTAGTCTTCAGAAACCAGTGGCTTCTCCTGGCAAAGCCTCCTCACAGAGGAAGACTGAAGGGGATTTGCAAGGAGATCACCAGAAAGAAGTTGCTTTGGATATAACTTCTTCTGAGGAGAAGCCTGATGTTAGTTTCGATAAAGCAATTAGAGATGAAGCAATATACCATTTTAGGCTTTTGAAGGATGAAATTGTGGATCATTGGAGAGGACCGGAAGGCCACCCTCTGCATGAGGTCTTGCTGGAACAAGCCAAGGTTGTCTGGCAATTCCGGGGGAAAGAAGATTTGGATAAGTGGACAGTGACTTCTGATAAGACGATTGGAGGCAGAAGTGAAGTGTTTTTGAAAATGGGCAAGAATAACCAAAGTGCACTGCTATATGGAACTCTGAGCTCTGAGGCGCCTCAGGACGGGGAGTCTACCCGAAGTGGGTACTGTGCAATGATATCCAGGATTCCAAGGGGTGCTTTTGAGAGGAAGATGTCTTACGATTGGTCCCAGTTCAATACTCTGTATCTCCGTGTACGTGGGGATGGTCGGCCTTGGATGGTGAATATCAAGGAGGACACAGATTTCTTCCAGAGGACGAATCAGATGTATAGTTACTTCATGTTCACCCGCGGGGGACCCTACTGGCAGGAGGTCAAGATTCCTTTTTCCAAATTTTTCTTCTCTAATCGAGGAAGAATCCGGGATGTTCAGCATGAGCTTCCGCTTGATAAGGATTCACCTTGGCTGATAAAGTGGATGGTCCATTCTTCCTGGAGATAGATTTTATTGGCGTGTTTACTGATCCAGCTCATACAGAAGAATTTGCCTATGAAAATTCTCCAGAGCTTAACCCAAGGCTTTTTAAATAAAGATCATATGGTAGTTTTGTTTTACTAATCTAAGGGTACTAGCATCTACAATGATATAGACAAAATAAAATATTTCTTTAATGGCATCCAA

Publications

PMID - Link Title
No publications available for this retrocopy