RCPedia: Rtcs

Summary

Retrocopy Name	POLR1FP1	Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr7). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr6:87173274-87174153 UCSC
Coordinates (T2T)	chr6:88382147-88383026 UCSC
Coordinates (hg19)	chr6:87882992-87883871 UCSC
Strand	-
Parental Sequence	NM_001002926.2
Parental seq. overlap	665 bp
Parental seq. overlap (%)	16.9%
Genomic Region	Intragenic (ZNF292)
Retrocopy Summary	POLR1FP1, located on chr6:87173274-87174153, is a retrocopy of the parental gene POLR1F. 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	POLR1F
Full Name	RNA polymerase I subunit F
Also known as	A43\|RPA43\|TWISTNB
Coordinate	chr7:19695461-19709037
Strand	-
Gene summary	Predicted to enable DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in DNA-templated transcription, initiation. Predicted to act upstream of or within cellular response to leukemia inhibitory factor. Predicted to be located in nucleoplasm. Predicted to be part of RNA polymerase I complex. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	TWISTNBP1
Bonobo	Pan paniscus	POLR1FP1
Gorilla	Gorilla gorilla	TWISTNBP1
Orangutan	Pongo abelii	TWISTNBP1
Gibbon	Nomascus leucogenys	TWISTNBP1
Green monkey	Chlorocebus sabaeus	TWISTNBP1
Crab-eating macaque	Macaca fascicularis	TWISTNBP1
Baboon	Papio anubis	TWISTNBP1
Golden snub-nosed monkey	Rhinopithecus roxellana	TWISTNBP1
Marmoset	Callithrix jacchus	POLR1FP1
Mouse lemur	Microcebus murinus	TWISTNBP1
Rhesus	Macaca mulatta	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)

Related Sequence

>POLR1FP1
GCTAAATTTACCCCACTTTTGGAATGCTCGCCTAAACAGAAAATAAAAAAGTAATCTTCCTTAGGGAGTTTTAAATATGATTCAGTTTTTAAAAGATTGACTTATACACAATGGATGAATAAATGTTTTGAATGATATGGGCTACCTTAACAGGAAATACACTGGCATTGCAGAGAAGCTTAATGTGAAGCTCCTGCACTATTCTGAGAGCCTTTTAGGTGTCCCCATTGCATATAACATGAAAGTTGTGGTGAACTGGGAGATATTTATGATGATCAAGGACACATTAATCTTAACATTGAAGCAGATTTTGTTATTTTCTGCCCTGAACCAGGGTAAAAGGTTATAGTACAGTTAACAAAGTGTCTTCTAGTCAGACTGGCTATTTTGTACAAAAATATTTTAATACGTCCATCCCTAAACCTGAGATGTCAGCTGAGCAGTGGCAGGCTGTGGAGATAAATGTGGGTGATGAACCAGAATATGAAGTGTTTCATCTAGATTAAGATGCTACTGAAATATTCTGCATTTAGGGAAAACAATCACTAGTTTACAACCCAAGAGCTCTGAAGTTTCTGATAAACCAGCACTGAAGAAGCTTTTGAAAAACTTCCAAAGAAGAAAAAGAGAAACCAGAAAGACCCAGAGATGAATGAAGTGGATGATGGTACCACAAGCTAGCAAATTTTGCAGATGTCACCCCAAAGGAAGAGTTAGACTTACAGATTATTACTAATGTGAATAGCCTCTGGGAAGATGAGCCAAAGGAGGAGAAAAAGAAAAAGCATCAGGACTAGGACCTTGTTTTCCAAAGCAGTGACTCCAGCAGTTATCAAAGTGACCATa

>NM_001002926.2
GTGGGAACCTTGACAAGCAGCATGGCTGCAGGTTGCTCAGAGGCGCCGCGGCCAGCGGCGGCTTCTGATGGGTCTCTGGTAGGGCAGGCTGGCGTCCTGCCTTGCCTAGAGTTGCCGACTTATGCCGCTGCTTGTGCGCTGGTGAACAGTCGCTACTCATGCCTGGTGGCCGGGCCGCACCAAAGGCACATCGCGCTGTCGCCCCGCTACCTTAACAGGAAACGCACCGGCATTCGAGAACAGCTTGATGCGGAGCTCCTTCGCTATTCTGAGAGCCTTTTAGGTGTCCCTATTGCATATGATAACATCAAAGTTGTGGGAGAGCTTGGAGATATTTATGATGATCAAGGACACATTCATCTTAACATTGAAGCCGATTTTGTTATTTTCTGCCCTGAACCAGGGCAGAAGCTTATGGGTATAGTTAATAAAGTGTCTTCTAGCCACATTGGCTGTTTAGTACATGGGTGTTTCAATGCCTCCATTCCTAAACCTGAGCAGTTGTCAGCTGAGCAGTGGCAAACCATGGAGATAAACATGGGTGATGAACTAGAATTTGAAGTATTTCGTTTAGACTCAGATGCTGCTGGAGTATTCTGCATTCGGGGAAAACTAAATATCACAAGTTTACAATTCAAGCGCTCTGAAGTTTCTGAAGAAGTTACAGAAAATGGCACTGAGGAAGCTGCTAAAAAACCTAAAAAGAAGAAAAAGAAGAAAGACCCAGAGACATATGAAGTGGACAGTGGTACCACAAAGCTAGCAGATGATGCAGATGACACTCCAATGGAAGAGTCAGCCCTGCAGAATACTAATAATGCGAATGGCATCTGGGAGGAGGAGCCAaagaaaaagaagaagaagaaaaagCACCAGGAAGTTCAGGACCAGGACCCTGTTTTCCAAGGCAGTGACTCCAGTGGTTACCAAAGTGACCATaaaaagaaaaaaaagaaaagaaaaCACAGTGAAGAGGCCGAATTTACCCCACCTTTGAAATGCTCACCAAAAAGAAAAGGGAAAAGTAATTTTCTTTAGTGTATTTTAAACACGATTCAGTTTTTAAAAGATCGATCTACATACAATAGATGAATAAATGTTTTCAGTGATATGAAAAGGTTAAGTATGCCAGTAGTTTACAAAACAGAAAATACTTAACTAGGAGTAGGAGGCTTTATATGCTAAAAATGATAAAACTGACTGTAAATTAATTTGGGGAAAGCCAGTATTGTTAAAATACCATTTTATACAAAATAAAAAGCTGCTCTCACTGTCAGCTCTCATATTCTTCCAGGTTTTGCACTCTACATAAAATTATTTCTACAATGTCAAGACTAGCCAAAGGACTTTATAATACAATATTATATTACTAAAGAATGAGTTAAGTTTGAGATTTTGATGATTTGATTTTGTGTGTGTTTAATAGGCTTCACCTTATTACATGCTATTTTATTTTGCTTTTTTAAAAACTCAGGACATTAACTAATTTTAGGTTTTCCTTTATCATGGCTTTCTACAGTATTTCTATTGTTTAACATAAAATAGTTTGCCAAAGAAGTTTCTGAAGTCTTCACAGCTCTTAAAAGCCAGGCCAGTACTGACTGTGTGGTGGTAAATGCTATTCATTATTTTCTTTTCTTTCTTCCAAGTGCATGTGTGTCCTTGTCTTCTTAAGTCTGAGAGGTTGCTGGAAAGGACTGTTTTCTTGTACTTGTTCATTTGTGCCTCAGCCATTCTAGTTTTGTTGTGTGTTGGAGGACAGTCTAATGAAGACAGGATAAATGTGATTCTGACTAGTGGGAAATTTCAGATTACTTTTTAATGATTGGAATGGGCTATAAGATATTGTGCTGAAGAGAAAACAGTTGTTCTGTTCACTGCTTTCATTGAGAAAATGTGGAATGTCTCTTGACTAATTGACAAAGTGTAATGAAATGACAAGCTGGTTGAAGCTGGTAATCAATGCATGGCCATatttattcattttccacacacttgaccatctactttgtataacacattctgctaaggcccagggatacaatggcaaacaagatagatgtagttccttcccttgtggcatgtcataagagaaacagatgtgcatatacacacaataaataagaaaattaataattgtattaagtggtatgaaaaaaaGGGGGAGGATTGTTCACTCACTGTTACCTGTGTTAGTATCTGCAAATGCATGAATGGTTGAACTCCCATGTCAGCATTTTTGTTGCCATTTATTTAGTACCAGACATAGTGCTGGTCTCACAGCTTAATATTTGGTAATGAATAAATTCTGCTAGTGGTATATGTTGATCTGAACTTACAATGATGGGATATAGAATTGGCAGAGTGGCAGATGTTCACAATTGTCTACAAGTAGATGTGCTAGACAATGGAAGGATGCAGGCCAACCTCTTTGATTACAATTGAGATTcatgtgactattgagccctggaaatgtagcttgtccaaattgagatgtgctgtcagtataaaatacataccagattttaaagatgtaccaaaaaatgtaaactatctcaatttttatattggtgaaatcaatatgtcttggtatagtggcttaaataaaacaattttagcctttctcagtttatttttctgcaaaaagattaaaaattgtacatgaagctcatgttaactttcttttggtcagtgctATTTTAAAGGAAGTATGAGTTGAAAAAAAATTGAAATAAACTATATCATATTACTAGGACTTAATATAGTGGCATACCCAGGAAATGCTTAGTAAGTGTTCCCTTCACATTTTAAAATTTGAGTATACAATCATGTTTGACAATATAGAAATTTAATTTTTAGTGAAACAATTCTAAACCCCTTTTCCATAGACACAAGAAAGATGGCAAATTTATGCTATTCCTGGAAAAATACATTGTGGCTTAGCAAATAAGCAAGTTCCCACGTTACTTTTGTTTTGCTTCAAGTAATACTTCTGCCAGTTGTGTTTTATGAATTAAACAGGGAACGGCATGCTGAACTTGAAACTAGATTTGTTCCTGCTTTTTTCACAATGTGAGTAGTTTTGAAAAGTCAGATCTGGCCATTTGTCTTTCCTAGAATAGCATAACTTTGTTCATTGTTTTTTTTGTTTGTCTTTCTGACACAGAAAGACTGATGATGGTGTCCACTATGTATTCTTCAAAACATTTGGCACATGCTGCACTAACCTAGTCTATCTTTTCTATCTTGGAATTTGCTCATACAAACCCTATAGCCTAGACTAGATCCCTTACCCTCTCTCCAGTTCCTATCATTCACCCATTTCACTGTGCAAGACACCTCActagtcaccagtgatacagaaatgacttttaagcagtttctgctcttaagggcttaccgttttgtctataagatacacaagtataaatgacaagtacaaataacaatgaatgtttaatgctttacgtttagtgtttaagcttgttgttggaagagcagcattttgacccttggagaagaaaaactagctgtggcattccaggtggagaacctgacagaggactaagaagttatctaatgtaaaagACCTCAGGCACCACCTTCGCATAAACTTTTTCCAGACAAGGCTAAATGTGCATGCTTCATAACCATAATTCTTATTTTTCTTTAATAAATATTTTTCTACTTGTAACACTGTGCATTATTTCAAACTGTTTACCTGTTTGTAAAGCTTGTCTCTTAATCAAATTTGTCTTGACCAAATAAGTTTCCTGAGGGCTGGAATTATGCCTTAACTATATCTATAGTATTTAACAGTGAATCCTTTGTATAATGAAAGCATCAACAGATAATTTTAAATTGATAAATAAAAAGCACAGTTTCAAATGGTA

>NM_001002926.2 

GTGGGAACCTTGACAAGCAGCATGGCTGCAGGTTGCTCAGAGGCGCCGCGGCCAGCGGCGGCTTCTGATGGGTCTCTGGTAGGGCAGGCTGGCGTCCTGCCTTGCCTAGAGTTGCCGACTTATGCCGCTGCTTGTGCGCTGGTGAACAGTCGCTACTCATGCCTGGTGGCCGGGCCGCACCAAAGGCACATCGCGCTGTCGCCCCGCTACCTTAACAGGAAACGCACCGGCATTCGAGAACAGCTTGATGCGGAGCTCCTTCGCTATTCTGAGAGCCTTTTAGGTGTCCCTATTGCATATGATAACATCAAAGTTGTGGGAGAGCTTGGAGATATTTATGATGATCAAGGACACATTCATCTTAACATTGAAGCCGATTTTGTTATTTTCTGCCCTGAACCAGGGCAGAAGCTTATGGGTATAGTTAATAAAGTGTCTTCTAGCCACATTGGCTGTTTAGTACATGGGTGTTTCAATGCCTCCATTCCTAAACCTGAGCAGTTGTCAGCTGAGCAGTGGCAAACCATGGAGATAAACATGGGTGATGAACTAGAATTTGAAGTATTTCGTTTAGACTCAGATGCTGCTGGAGTATTCTGCATTCGGGGAAAACTAAATATCACAAGTTTACAATTCAAGCGCTCTGAAGTTTCTGAAGAAGTTACAGAAAATGGCACTGAGGAAGCTGCTAAAAAACCTAAAAAGAAGAAAAAGAAGAAAGACCCAGAGACATATGAAGTGGACAGTGGTACCACAAAGCTAGCAGATGATGCAGATGACACTCCAATGGAAGAGTCAGCCCTGCAGAATACTAATAATGCGAATGGCATCTGGGAGGAGGAGCCAaagaaaaagaagaagaagaaaaagCACCAGGAAGTTCAGGACCAGGACCCTGTTTTCCAAGGCAGTGACTCCAGTGGTTACCAAAGTGACCATaaaaagaaaaaaaagaaaagaaaaCACAGTGAAGAGGCCGAATTTACCCCACCTTTGAAATGCTCACCAAAAAGAAAAGGGAAAAGTAATTTTCTTTAGTGTATTTTAAACACGATTCAGTTTTTAAAAGATCGATCTACATACAATAGATGAATAAATGTTTTCAGTGATATGAAAAGGTTAAGTATGCCAGTAGTTTACAAAACAGAAAATACTTAACTAGGAGTAGGAGGCTTTATATGCTAAAAATGATAAAACTGACTGTAAATTAATTTGGGGAAAGCCAGTATTGTTAAAATACCATTTTATACAAAATAAAAAGCTGCTCTCACTGTCAGCTCTCATATTCTTCCAGGTTTTGCACTCTACATAAAATTATTTCTACAATGTCAAGACTAGCCAAAGGACTTTATAATACAATATTATATTACTAAAGAATGAGTTAAGTTTGAGATTTTGATGATTTGATTTTGTGTGTGTTTAATAGGCTTCACCTTATTACATGCTATTTTATTTTGCTTTTTTAAAAACTCAGGACATTAACTAATTTTAGGTTTTCCTTTATCATGGCTTTCTACAGTATTTCTATTGTTTAACATAAAATAGTTTGCCAAAGAAGTTTCTGAAGTCTTCACAGCTCTTAAAAGCCAGGCCAGTACTGACTGTGTGGTGGTAAATGCTATTCATTATTTTCTTTTCTTTCTTCCAAGTGCATGTGTGTCCTTGTCTTCTTAAGTCTGAGAGGTTGCTGGAAAGGACTGTTTTCTTGTACTTGTTCATTTGTGCCTCAGCCATTCTAGTTTTGTTGTGTGTTGGAGGACAGTCTAATGAAGACAGGATAAATGTGATTCTGACTAGTGGGAAATTTCAGATTACTTTTTAATGATTGGAATGGGCTATAAGATATTGTGCTGAAGAGAAAACAGTTGTTCTGTTCACTGCTTTCATTGAGAAAATGTGGAATGTCTCTTGACTAATTGACAAAGTGTAATGAAATGACAAGCTGGTTGAAGCTGGTAATCAATGCATGGCCATatttattcattttccacacacttgaccatctactttgtataacacattctgctaaggcccagggatacaatggcaaacaagatagatgtagttccttcccttgtggcatgtcataagagaaacagatgtgcatatacacacaataaataagaaaattaataattgtattaagtggtatgaaaaaaaGGGGGAGGATTGTTCACTCACTGTTACCTGTGTTAGTATCTGCAAATGCATGAATGGTTGAACTCCCATGTCAGCATTTTTGTTGCCATTTATTTAGTACCAGACATAGTGCTGGTCTCACAGCTTAATATTTGGTAATGAATAAATTCTGCTAGTGGTATATGTTGATCTGAACTTACAATGATGGGATATAGAATTGGCAGAGTGGCAGATGTTCACAATTGTCTACAAGTAGATGTGCTAGACAATGGAAGGATGCAGGCCAACCTCTTTGATTACAATTGAGATTcatgtgactattgagccctggaaatgtagcttgtccaaattgagatgtgctgtcagtataaaatacataccagattttaaagatgtaccaaaaaatgtaaactatctcaatttttatattggtgaaatcaatatgtcttggtatagtggcttaaataaaacaattttagcctttctcagtttatttttctgcaaaaagattaaaaattgtacatgaagctcatgttaactttcttttggtcagtgctATTTTAAAGGAAGTATGAGTTGAAAAAAAATTGAAATAAACTATATCATATTACTAGGACTTAATATAGTGGCATACCCAGGAAATGCTTAGTAAGTGTTCCCTTCACATTTTAAAATTTGAGTATACAATCATGTTTGACAATATAGAAATTTAATTTTTAGTGAAACAATTCTAAACCCCTTTTCCATAGACACAAGAAAGATGGCAAATTTATGCTATTCCTGGAAAAATACATTGTGGCTTAGCAAATAAGCAAGTTCCCACGTTACTTTTGTTTTGCTTCAAGTAATACTTCTGCCAGTTGTGTTTTATGAATTAAACAGGGAACGGCATGCTGAACTTGAAACTAGATTTGTTCCTGCTTTTTTCACAATGTGAGTAGTTTTGAAAAGTCAGATCTGGCCATTTGTCTTTCCTAGAATAGCATAACTTTGTTCATTGTTTTTTTTGTTTGTCTTTCTGACACAGAAAGACTGATGATGGTGTCCACTATGTATTCTTCAAAACATTTGGCACATGCTGCACTAACCTAGTCTATCTTTTCTATCTTGGAATTTGCTCATACAAACCCTATAGCCTAGACTAGATCCCTTACCCTCTCTCCAGTTCCTATCATTCACCCATTTCACTGTGCAAGACACCTCActagtcaccagtgatacagaaatgacttttaagcagtttctgctcttaagggcttaccgttttgtctataagatacacaagtataaatgacaagtacaaataacaatgaatgtttaatgctttacgtttagtgtttaagcttgttgttggaagagcagcattttgacccttggagaagaaaaactagctgtggcattccaggtggagaacctgacagaggactaagaagttatctaatgtaaaagACCTCAGGCACCACCTTCGCATAAACTTTTTCCAGACAAGGCTAAATGTGCATGCTTCATAACCATAATTCTTATTTTTCTTTAATAAATATTTTTCTACTTGTAACACTGTGCATTATTTCAAACTGTTTACCTGTTTGTAAAGCTTGTCTCTTAATCAAATTTGTCTTGACCAAATAAGTTTCCTGAGGGCTGGAATTATGCCTTAACTATATCTATAGTATTTAACAGTGAATCCTTTGTATAATGAAAGCATCAACAGATAATTTTAAATTGATAAATAAAAAGCACAGTTTCAAATGGTA

Publications

PMID - Link	Title
No publications available for this retrocopy