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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SNRPCP4
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Plot displaying the genomic locations of a retrocopy (in chr18) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr18:2990649-2991145  UCSC
Coordinates (T2T) chr18:3146169-3146665  UCSC
Coordinates (hg19) chr18:2990647-2991143  UCSC
Strand +
Parental Sequence NM_003093.3
Parental seq. overlap 441 bp
Parental seq. overlap (%) 54.7%
Genomic Region Intragenic (LPIN2)
Retrocopy Summary SNRPCP4, located on chr18:2990649-2991145, is a retrocopy of the parental gene SNRPC. 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 SNRPC
Full Name small nuclear ribonucleoprotein polypeptide C
Also known as U1C|Yhc1
Coordinate chr6:34757505-34773857
Strand +
Gene summary This gene encodes one of the specific protein components of the U1 small nuclear ribonucleoprotein (snRNP) particle required for the formation of the spliceosome. The encoded protein participates in the processing of nuclear precursor messenger RNA splicing. snRNP particles are attacked by autoantibodies frequently produced by patients with connective tissue diseases. The genome contains several pseudogenes of this functional gene. Alternative splicing results in a non-coding transcript variant.[provided by RefSeq, Oct 2009]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SNRPCP15
Bonobo Pan paniscus SNRPCP12
Gorilla Gorilla gorilla SNRPCP14
Orangutan Pongo abelii SNRPCP8
Gibbon Nomascus leucogenys SNRPCP4
Green monkey Chlorocebus sabaeus SNRPCP4
Crab-eating macaque Macaca fascicularis SNRPCP8
Rhesus Macaca mulatta SNRPCP8
Baboon Papio anubis SNRPCP7
Golden snub-nosed monkey Rhinopithecus roxellana SNRPCP8
Marmoset Callithrix jacchus SNRPCP17
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)

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

Related Sequence

>SNRPCP4
CGTGACTACTGCAACACACACCTCATCCATGACTCTCCATTTATGAGAAAGACATATTGCAGTGGTAGGAAACAGAGACAGAATGTCAAAGATTACTATTAGAAATGGATGGAAGAACAGGCTCAGAGCCTGACTGACAAAATAAGGGTTGCACTTCAACAAGGAAAGATACTTCCTACTTCAATCTCTGTTCCCCGCCGGCAGGGACAATGATACTACCTCCCTCCAGTCTTCTGGGTCCTCCTCATCCTGGTATGATGCCAGCACCCCACACGGGGCCCTCCTCCTGGGATGATGCCAGTGGGACCTGCTCCTGGAATGAGGCTGCCCATGGGAGGCCACATGCCAATGATGCCTGGGCCCCCAATGATGAGACCTCTTGCTTGTCCCATGATGGTGCCCACTTGGCCCAGAATGACTCGAGCAGACAGAAAGGATAGAGGGGAGGCCTCCCTATATCAGTTTTATATTGCTTGCTCTGCTTCACCAGGAGATCA
>NM_003093.3
GCGTCACGTAACGGAGTGGCCAACGGCCTGCAGAGCAACATGCCCAAGTTTTATTGTGACTACTGCGATACATACCTCACCCATGACTCTCCATCTGTGAGAAAGACACACTGCAGTGGAAGGAAACACAAAGAGAATGTGAAAGACTATTATCAGAAATGGATGGAAGAGCAGGCTCAGAGCCTGATTGACAAAACAACGGCTGCATTTCAACAAGGAAAGATAcctcctactccattctctgctcctcctcctGCAGGGGCGATGATACCACCTCCCCCCAGCCTTCCGGGTCCTCCTCGCCCTGGTATGATGCCAGCACCCCATATGGGGGGCCCTCCCATGATGCCAATGATGGGCCCTCCTCCTCCTGGGATGATGCCAGTGGGACCTGCTCCTGGAATGAGGCCGCCCATGGGAGGCCATATGCCAATGATGCCTGGGCCCCCAATGATGAGACCTCCTGCCCGTCCCATGATGGTGCCCACTCGGCCCGGAATGACTCGACCAGACAGATAAGGATAGAGGGGAGGCCTTATTGTATCGGTTTTATATTACCTGTTCTGCTTCACCAGGAGATCATGCTGCTGTGATACTGAGTTTTCTAAACAGCATAAGGAAGACTTGCTCCCCTGTCCTATGAAAGAGAATAGTTTTGGAGGGGAGAAGTGGGACAAAAAAGATGCAGTTTTCCTTTGTATTGGGAAATGTGAAAATAAAATTGTCAACTCTTTCAGTTAAAAGTGTGTTCCCTTTTTCCTCCTCTCTGTGTTCTCTGTGTATTATAAAAGAAATGAAACATTCCA

Publications

PMID - Link Title
No publications available for this retrocopy