RCPedia: Rtcs

Summary

Retrocopy Name	GTF3C6P1	Plot displaying the genomic locations of a retrocopy (in chrX) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chrX:95584392-95585022 UCSC
Coordinates (T2T)	chrX:94030431-94031061 UCSC
Coordinates (hg19)	chrX:94839391-94840021 UCSC
Strand	+
Parental Sequence	NM_138408.4
Parental seq. overlap	534 bp
Parental seq. overlap (%)	65.6%
Genomic Region	Intergenic
Retrocopy Summary	GTF3C6P1, located on chrX:95584392-95585022, is a retrocopy of the parental gene GTF3C6. 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	GTF3C6
Full Name	general transcription factor IIIC subunit 6
Also known as	C6orf51\|TFIIIC35\|bA397G5.3
Coordinate	chr6:110958706-110967872
Strand	+
Gene summary	RNA polymerases are unable to initiate RNA synthesis in the absence of additional proteins called general transcription factors (GTFs). GTFs assemble in a complex on the DNA promoter and recruit the RNA polymerase. GTF3C family proteins (e.g., GTF3C1, MIM 603246) are essential for RNA polymerase III to make a number of small nuclear and cytoplasmic RNAs, including 5S RNA (MIM 180420), tRNA, and adenovirus-associated (VA) RNA of both cellular and viral origin.[supplied by OMIM, Mar 2008]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	GTF3C6P3
Bonobo	Pan paniscus	GTF3C6P2
Gorilla	Gorilla gorilla	GTF3C6P3
Gibbon	Nomascus leucogenys	GTF3C6P2
Green monkey	Chlorocebus sabaeus	GTF3C6P2
Crab-eating macaque	Macaca fascicularis	GTF3C6P3
Rhesus	Macaca mulatta	GTF3C6P3
Baboon	Papio anubis	GTF3C6P3
Golden snub-nosed monkey	Rhinopithecus roxellana	GTF3C6P2
Marmoset	Callithrix jacchus	RNF2P2
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

Related Sequence

>GTF3C6P1
TTCTCAAAATGTGAAAATAGATGCAAGATTTGGAGAATTTACAACGAGAGGCCCATTCTGCAAGTGGACAGCTATCTCTTTGCTGGGGAGTACAAAGACACTCTTGGGACCTATGCTATATTTGAAGAAAATGTTGAAAATGTAGATGCAGAAGGCAATAATAAAACAGTGCTAAAATATAAATGCCATACAATGAAGAAGCTCAGCATGGTAACTCTTCTGACAGAAAAGAAGGAAGGAGAAGAAAATATAGGTGGGATGGAATGACTGATAATCAGGAAAATGATTTCTCCTATAGACCCAAAATGATTTGTAGCCTTCTACATAAAAATGAAGATGAAGAAGTAGGTAGCTTCAACTCCAGATAAACTTTTGGAGGTGGAAGAGCAAGAGATTAAAGTGGAAGAGCAAGAGATTCAAATGGAAGTTAGTTCAAACCTGAGTTATGGACAGGAGAAACCACTGCACTTGGAAATAGAGGTTTCTGGTTATGTTGCTGACATCTCTTCTAAAACAGAAGGTTCTGTTTTTATGGAAACTTAAAATGCTGCCTTACAAACCACTCCTAGATAAAATGGTTCCCATAATAACTAGTCATGATATTTTTGAAGTTTTTATATAAAAATAATTG

>NM_138408.4
GTACTCAAGATGGCGGCTCCGGGCGGGCGTGGCCAGTGACTAGAAGGCGAGGCGCCGCGGGACCATGGCGGCGGCGGCGGACGAGCGGAGTCCAGAGGACGGAGAAGACGAGGAAGAGGAGGAGCAGTTGGTTCTGGTGGAATTATCAGGAATTATTGATTCAGACTTCCTCTCAAAATGTGAAAATAAATGCAAGGTTTTGGGCATTGACACTGAGAGGCCCATTCTGCAAGTGGACAGCTGTGTCTTTGCTGGGGAGTATGAAGACACTCTAGGGACCTGTGTTATATTTGAAGAAAATGTTGAACATGCTGATACAGAAGGCAATAATAAAACAGTGCTAAAATATAAATGCCATACAATGAAGAAGCTCAGCATGACAAGAACTCTCCTGACAGAGAAGAAGGAAGGAGAAGAAAACATAGGTGGGGTGGAATGGCTGCAAATAAAGGATAATGATTTCTCCTATCGACCCAACATGATTTGTAACTTTCTACATGAAAATGAAGACGAAGAAGTGGTAGCTTCAGCCCCAGATAAATCTTTGGAATTGGAAGAGGAAGAGATTCAAATGAACGACAGTTCAAACCTGAGTTGTGAACAGGAGAAACCAATGCACTTGGAAATAGAAGATTCTGGTCCTCTTATTGATATACCTTCTGAGACAGAAGGTTCTGTTTTTATGGAAACTCAAATGCTGCCTTAGAAATCACTCCTAGATGAAATGTTTCTCATAATAACTTGTCAAGAACTTTTTAGAGTTGTTACATAAAAATAATTGCTGTGTA

>NM_138408.4 

GTACTCAAGATGGCGGCTCCGGGCGGGCGTGGCCAGTGACTAGAAGGCGAGGCGCCGCGGGACCATGGCGGCGGCGGCGGACGAGCGGAGTCCAGAGGACGGAGAAGACGAGGAAGAGGAGGAGCAGTTGGTTCTGGTGGAATTATCAGGAATTATTGATTCAGACTTCCTCTCAAAATGTGAAAATAAATGCAAGGTTTTGGGCATTGACACTGAGAGGCCCATTCTGCAAGTGGACAGCTGTGTCTTTGCTGGGGAGTATGAAGACACTCTAGGGACCTGTGTTATATTTGAAGAAAATGTTGAACATGCTGATACAGAAGGCAATAATAAAACAGTGCTAAAATATAAATGCCATACAATGAAGAAGCTCAGCATGACAAGAACTCTCCTGACAGAGAAGAAGGAAGGAGAAGAAAACATAGGTGGGGTGGAATGGCTGCAAATAAAGGATAATGATTTCTCCTATCGACCCAACATGATTTGTAACTTTCTACATGAAAATGAAGACGAAGAAGTGGTAGCTTCAGCCCCAGATAAATCTTTGGAATTGGAAGAGGAAGAGATTCAAATGAACGACAGTTCAAACCTGAGTTGTGAACAGGAGAAACCAATGCACTTGGAAATAGAAGATTCTGGTCCTCTTATTGATATACCTTCTGAGACAGAAGGTTCTGTTTTTATGGAAACTCAAATGCTGCCTTAGAAATCACTCCTAGATGAAATGTTTCTCATAATAACTTGTCAAGAACTTTTTAGAGTTGTTACATAAAAATAATTGCTGTGTA

Publications

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