RCPedia: Rtcs

Summary

Retrocopy Name	SSBP2	Plot displaying the genomic locations of a retrocopy (in scaffold_m16_p_1) and its respective parental gene (in scaffold_m16_p_11). Each line represents a retrocopy.
Species	Molossus molossus
Coordinates	scaffold_m16_p_1:172667387-172667616 UCSC
Strand	-
Parental Sequence	SSB_x1
Parental seq. overlap	193 bp
Parental seq. overlap (%)	15.5%
Genomic Region	Intragenic (AVEN)
Retrocopy Summary	SSBP2, located on scaffold_m16_p_1:172667387-172667616, is a retrocopy of the parental gene SSB. 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	SSB
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m16_p_11:78868852-78881604
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	SSBP77
Chimpanzee	Pan troglodytes	SSBP6
Bonobo	Pan paniscus	SSBP6
Gorilla	Gorilla gorilla	SSBP7
Orangutan	Pongo abelii	SSBP6
Gibbon	Nomascus leucogenys	SSBP2
Crab-eating macaque	Macaca fascicularis	SSBP4
Golden snub-nosed monkey	Rhinopithecus roxellana	SSBP2
Marmoset	Callithrix jacchus	SSBP3
Mouse lemur	Microcebus murinus	SSBP1
Dolphin	Tursiops truncatus	SSBP1
Horse	Equus caballus	SSBP1
Greater mouse-eared bat	Myotis myotis	SSBP2
Greater horseshoe bat	Rhinolophus ferrumequinum	SSBP1
Egyptian rousette	Rousettus aegyptiacus	SSBP1
Green monkey	Chlorocebus sabaeus	Without Homology
Rhesus	Macaca mulatta	Without Homology
Baboon	Papio anubis	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
Dog	Canis familiaris	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	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

>SSBP2
ATGAAAACTCTAGAAGAAAAGACTGGATGGTTACTGAAATTTGGGGATAGATAATCAGACCTGTAGAGAAGATCCACACTTCCTTTTCTCAAATTGTGGAGAAACAAAATGGATAGATTTATTACAGAAACAAAAGAGGGAATAACTCTATTTAAAGAAAAAGCCACAGAAGCACTGGAGAAAGACAAAGAAGCCACCAACGGTAATTTACAATTCAGGAACAAAGAAGA

>SSB_x1
GGGACAGTCCCCATCTTCTTTGCGCGCGCGTTAGAAGAGGCGACGCCGCTGTGGCGCGGCGCTCTTAGTGATCCTGTGGCCCGGCTCCGTGGGACCTGGACCTTAAAGATAGCCACAATGGCCGAAAATGGTGATGAAGAAATGGCTGCTCTGGAGGCCAAAATCTGTCATCAAATTGAGTATTATTTTGGTGACTTCAATTTGCCACGAGACAAATTTTTAAAGGAACAAATCAAACTGGATGAAGGCTGGGTACCTTTGGAAATAATGATAAAATTCAATAGGTTAAACCGTCTAACAACAGATTTTAATGTAATAGTAGAAGCATTGAGCAAGTCAAAGGCAGAACTCATGGAAATAAGTGAAGATAAAACCAAAATCAGAAGATCTCCAAACAAACCCCTCCCTGAAGTGACTGATGAGTATAAAAATGATGTAAAAAACAGATCTGTTTATATCAAAGGCTTCCCTACTGATGCAACCCTTGATGACATAAAAGAATGGTTAGAAGATAAAGGTCAAGTACTGAATATTCAGATGAGAAGAACATTGCACAAAGCATTTAAGGGATCAATATTTGCTGTGTTTGATAGCATTGAATCTGCTAAAAAGTTTGTGGAGACCCCAGGACAAAAGTACAAAGACACAGATCTGCTGATACTTTTCAAGGAAGATTACTTTGCAAAAAAAAATGAAGAAAGAAAGCAAAATAAAGTGGAAGCTAAACTACGAGCAAAAAAAGAGCAAGAAGAAAAACAAAAGTTAGCAGAAAATGCTGAAATGAAATCTCTAGAAGAAAAGATTGGCTGCTTGTTGAAATTTTCGGGGGACCTAGATGATCAGACCTGTAGAGAAGATTTGCACATCCTTTTCTCAAACCATGGTGAAATAAAATGGATAGACTTTGTCAGAGGAGCAAAAGAGGGAATAATTCTATTTAAAGAAAAAGCTAAGGAAGCACTGGATAAAGCCAAAGATGCAAGTAATGGTAACCTACAATTAAGGAACAGAGAAGTGACATGGGAAGTACTAGATGGAGATGTAGAAAAAGAAGCATTGAAAAAAATCATAGAAGATCAACAAGAATCCCTAAACAAATGGAAGTCAAAAGGTCGCAGATTTAAAGGAAAAGGAAAGGGAAATAAAGCTGCCCAGACTGGGTCTGCAAAAGGAAAAGTACAGTTCCAGGGCAAGAAAACTAAATTTGATAGTGATGATGAACGTGATGAAAATGGTGCATCTGG

>SSB_x1 

GGGACAGTCCCCATCTTCTTTGCGCGCGCGTTAGAAGAGGCGACGCCGCTGTGGCGCGGCGCTCTTAGTGATCCTGTGGCCCGGCTCCGTGGGACCTGGACCTTAAAGATAGCCACAATGGCCGAAAATGGTGATGAAGAAATGGCTGCTCTGGAGGCCAAAATCTGTCATCAAATTGAGTATTATTTTGGTGACTTCAATTTGCCACGAGACAAATTTTTAAAGGAACAAATCAAACTGGATGAAGGCTGGGTACCTTTGGAAATAATGATAAAATTCAATAGGTTAAACCGTCTAACAACAGATTTTAATGTAATAGTAGAAGCATTGAGCAAGTCAAAGGCAGAACTCATGGAAATAAGTGAAGATAAAACCAAAATCAGAAGATCTCCAAACAAACCCCTCCCTGAAGTGACTGATGAGTATAAAAATGATGTAAAAAACAGATCTGTTTATATCAAAGGCTTCCCTACTGATGCAACCCTTGATGACATAAAAGAATGGTTAGAAGATAAAGGTCAAGTACTGAATATTCAGATGAGAAGAACATTGCACAAAGCATTTAAGGGATCAATATTTGCTGTGTTTGATAGCATTGAATCTGCTAAAAAGTTTGTGGAGACCCCAGGACAAAAGTACAAAGACACAGATCTGCTGATACTTTTCAAGGAAGATTACTTTGCAAAAAAAAATGAAGAAAGAAAGCAAAATAAAGTGGAAGCTAAACTACGAGCAAAAAAAGAGCAAGAAGAAAAACAAAAGTTAGCAGAAAATGCTGAAATGAAATCTCTAGAAGAAAAGATTGGCTGCTTGTTGAAATTTTCGGGGGACCTAGATGATCAGACCTGTAGAGAAGATTTGCACATCCTTTTCTCAAACCATGGTGAAATAAAATGGATAGACTTTGTCAGAGGAGCAAAAGAGGGAATAATTCTATTTAAAGAAAAAGCTAAGGAAGCACTGGATAAAGCCAAAGATGCAAGTAATGGTAACCTACAATTAAGGAACAGAGAAGTGACATGGGAAGTACTAGATGGAGATGTAGAAAAAGAAGCATTGAAAAAAATCATAGAAGATCAACAAGAATCCCTAAACAAATGGAAGTCAAAAGGTCGCAGATTTAAAGGAAAAGGAAAGGGAAATAAAGCTGCCCAGACTGGGTCTGCAAAAGGAAAAGTACAGTTCCAGGGCAAGAAAACTAAATTTGATAGTGATGATGAACGTGATGAAAATGGTGCATCTGG

Publications

PMID - Link	Title
No publications available for this retrocopy