RCPedia: Rtcs

Summary

Retrocopy Name	HNRNPA1P13	Plot displaying the genomic locations of a retrocopy (in scaffold_m19_p_4) and its respective parental gene (in scaffold_m19_p_3). Each line represents a retrocopy.
Species	Myotis myotis
Coordinates	scaffold_m19_p_4:88048700-88049665 UCSC
Strand	+
Parental Sequence	HNRNPA1_x1
Parental seq. overlap	768 bp
Parental seq. overlap (%)	79.3%
Genomic Region	Intergenic
Retrocopy Summary	HNRNPA1P13, located on scaffold_m19_p_4:88048700-88049665, is a retrocopy of the parental gene HNRNPA1. 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	HNRNPA1
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m19_p_3:160258521-160262075
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	HNRNPA1P25
Chimpanzee	Pan troglodytes	HNRNPA1P22
Bonobo	Pan paniscus	HNRNPA1P22
Gorilla	Gorilla gorilla	HNRNPA1P21
Orangutan	Pongo abelii	HNRNPA1P79
Gibbon	Nomascus leucogenys	HNRNPA1P50
Green monkey	Chlorocebus sabaeus	HNRNPA1P42
Crab-eating macaque	Macaca fascicularis	HNRNPA1P13
Baboon	Papio anubis	HNRNPA1P8
Marmoset	Callithrix jacchus	HNRNPA1P11
Chinese hamster	Cricetulus griseus	Hnrnpa3_1P17
Dolphin	Tursiops truncatus	HNRNPA1P11
Dog	Canis familiaris	HNRNPA1P17
Cat	Felis catus	HNRNPA1P27
Sloth	Choloepus didactylus	HNRNPA2B1P2
Rhesus	Macaca mulatta	Without Homology
Golden snub-nosed monkey	Rhinopithecus roxellana	Without Homology
Mouse lemur	Microcebus murinus	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Rabbit	Oryctolagus cuniculus	Without Homology
Pig	Sus scrofa	Without Homology
Cow	Bos taurus	Without Homology
Sheep	Ovis aries	Without Homology
Horse	Equus caballus	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Velvety free-tailed bat	Molossus molossus	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	Without Homology
Greater horseshoe bat	Rhinolophus ferrumequinum	Without Homology
Egyptian rousette	Rousettus aegyptiacus	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

>HNRNPA1P13
CATGTCCAAGTCTGAGTCTCCTAAAGAGTCAGAGCAGCTGCGGAAGCTCTTTATCAGAGGTTTGAACTTTGAAACAATTGATGAAAGTCTACAGAGCCATTTTTAGCAATGGGAAACAATCGCGGACTGTGTGGTGATAAGACATCGAAATACAAAGTGCTCCAGAGGCTTTGAGTTTGTCACCTATGCCACTGTGAAGGAGGTGGATGCAGCTACGAATGAATGTAAGGCTACACAAGGTGGACGGAAGAGTAGTAGAACCAAAGAGGGCTGACTCAAGAGAAGATTCTCAAAGACCTGGTGCCACTTAGCTGCAAAAAAGATTTTTGTCAGTTGTATTAAAGAAGACACTGAAGAAAATCACCTAAGAGATTATTTGAACAGTATGGGAAAATAGAAGTGATTGAAATCATGACTGACTGAGGCAGTGACAAAAAGAGAGGTTTTGCTTTTGTAACCTTTGTTGACCATGACTCTGTAGACAAGATTGTCATTCAGAAATACCATACTGTGAATGGCCACAACAGTGAAGTAAGGAAAGCCCTATATAAGCAAGAGATGGCTAGTGCTTCATCTAGCCAAAGAGGTTGAAGTTGTTCTGGAAACTTCAGAGGTGGTCGTGGAGGGGGTTTTGGTGGGAATGACAACTTTGGTCATGGAGGAAACTTCAGTGGTCGAGGTAGCTTTGGTGGCAGCTGTGGTGGTGATTTATATGGTGGCATTGGGTATGGCTATAAGGGATTTGGTAATGATGGAAGCAATTTTGCAGGTCAATACTTTGCCAAACCACAAAGCCAAACTGGCTATGGTGGTTCTAACAGAAGCAGTAGCTATGGCAGTGGCAGAAGGTTTTAA

>HNRNPA1_x1
ATGTCTAAGTCTGAGTCTCCCAAGGAGCCGGAGCAGCTGCGGAAGCTCTTTATCGGAGGTTTGAGCTTTGAAACAACCGATGAGAGTCTGAGGAGCCATTTTGAGCAATGGGGAACGCTCACGGACTGTGTGGTGATGAGAGATCCAAACACCAAGCGCTCCAGAGGCTTTGGGTTTGTCACCTACGCCACCGTGGAGGAGGTGGACGCAGCCATGAACGCGAGGCCACACAAGGTGGACGGAAGAGTGGTGGAACCAAAGAGGGCTGTCTCGAGAGAAGATTCTCAAAGACCTGGTGCCCACTTAACTGTGAAAAAGATTTTTGTCGGTGGTATTAAAGAAGACACTGAAGAACATCACCTAAGAGATTATTTTGAACAGTATGGGAAAATAGAAGTGATTGAAATCATGACTGACCGAGGCAGTGGCAAAAAGAGAGGCTTTGCTTTTGTAACCTTTGACGACCATGACTCTGTAGACAAGATTGTCATTCAGAAATACCATACTGTGAATGGCCACAACTGTGAAGTAAGGAAAGCTCTATCTAAGCAAGAGATGGCTAGTGCTTCTTCCAGCCAAAGAGGTCGAAGTGGTTCTGGAAACTTCggaggtggtcgtggaggtggttttggtggAAACGACAACTTTGGACGTGGAGGAAACTTCAGTGGTCGAGGTGGCTTTGGTGGCAGCCGTGGTGGCGGTGGATATGGTGGCAGTGGAGATGGCTATAATGGATTTGGTAATGATGGAAGCAATTTTGGAggtggtggaagctacaatgattttggcaattacaacaatcagtcttcaaattttgggcctatgaaaggaggaaactttggaggcagaagctctggcccttatggtggtggAGGTCAATATTTTGCCAAACCACGAAACCAAGGTGGCTATGGCGGTTCCagcagcagcagtagctatggcagtggcagaagGTTTTAA

>HNRNPA1_x1 

ATGTCTAAGTCTGAGTCTCCCAAGGAGCCGGAGCAGCTGCGGAAGCTCTTTATCGGAGGTTTGAGCTTTGAAACAACCGATGAGAGTCTGAGGAGCCATTTTGAGCAATGGGGAACGCTCACGGACTGTGTGGTGATGAGAGATCCAAACACCAAGCGCTCCAGAGGCTTTGGGTTTGTCACCTACGCCACCGTGGAGGAGGTGGACGCAGCCATGAACGCGAGGCCACACAAGGTGGACGGAAGAGTGGTGGAACCAAAGAGGGCTGTCTCGAGAGAAGATTCTCAAAGACCTGGTGCCCACTTAACTGTGAAAAAGATTTTTGTCGGTGGTATTAAAGAAGACACTGAAGAACATCACCTAAGAGATTATTTTGAACAGTATGGGAAAATAGAAGTGATTGAAATCATGACTGACCGAGGCAGTGGCAAAAAGAGAGGCTTTGCTTTTGTAACCTTTGACGACCATGACTCTGTAGACAAGATTGTCATTCAGAAATACCATACTGTGAATGGCCACAACTGTGAAGTAAGGAAAGCTCTATCTAAGCAAGAGATGGCTAGTGCTTCTTCCAGCCAAAGAGGTCGAAGTGGTTCTGGAAACTTCggaggtggtcgtggaggtggttttggtggAAACGACAACTTTGGACGTGGAGGAAACTTCAGTGGTCGAGGTGGCTTTGGTGGCAGCCGTGGTGGCGGTGGATATGGTGGCAGTGGAGATGGCTATAATGGATTTGGTAATGATGGAAGCAATTTTGGAggtggtggaagctacaatgattttggcaattacaacaatcagtcttcaaattttgggcctatgaaaggaggaaactttggaggcagaagctctggcccttatggtggtggAGGTCAATATTTTGCCAAACCACGAAACCAAGGTGGCTATGGCGGTTCCagcagcagcagtagctatggcagtggcagaagGTTTTAA

Publications

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