Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SSB78
Plot displaying the genomic locations of a retrocopy (in chr17) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr17:61068975-61070621  UCSC
Coordinates (T2T) chr17:61937741-61939397  UCSC
Coordinates (hg19) chr17:59146336-59147982  UCSC
Strand +
Parental Sequence NM_003142.5
Parental seq. overlap 664 bp
Parental seq. overlap (%) 38.9%
Genomic Region Intragenic (BCAS3)
Retrocopy Summary SSB78, located on chr17:61068975-61070621, 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 small RNA binding exonuclease protection factor La
Also known as LARP3|La|La/SSB
Coordinate chr2:169798871-169812064
Strand +
Gene summary The protein encoded by this gene is involved in diverse aspects of RNA metabolism, including binding and protecting poly(U) termini of nascent RNA polymerase III transcripts from exonuclease digestion, processing 5' and 3' ends of pre-tRNA precursors, acting as an RNA chaperone, and binding viral RNAs associated with hepatitis C virus. Autoantibodies reacting with this protein are found in the sera of patients with Sjogren syndrome and systemic lupus erythematosus. Alternative promoter usage results in two different transcript variants which encode the same protein. [provided by RefSeq, Jun 2014]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SSBP7
Bonobo Pan paniscus SSBP7
Gorilla Gorilla gorilla SSBP3
Orangutan Pongo abelii SSBP7
Gibbon Nomascus leucogenys SSBP6
Green monkey Chlorocebus sabaeus SSBP4
Crab-eating macaque Macaca fascicularis SSBP7
Rhesus Macaca mulatta SSBP7
Baboon Papio anubis SSBP7
Golden snub-nosed monkey Rhinopithecus roxellana SSBP8
Marmoset Callithrix jacchus SSBP2
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

>SSB78
GTGGTGAAATAAAATGGATAGACTTTGTCAGAGGAGCAAAAGAGAGGATAATTCTATTTAAAGAAAAAGCCAAAGAAGCATTAGGTAAAGCCAAAGACACAAATAATGGTAACCCACAATTAAAAAACAAAAAACCAAAGAAGTGACTTGGGAAATAGTAGAAGGAGAGATGAAAAAGAAGCATTGAAAAAAATCATGCAAGACCAACAAGAATCCCCAAATAAATGGAAGTCAAAGATTGCAGATTTACAGGAAAAGGGAAGAGTAATAAAGCTACCCAGCCTGGGTTTGCGATAGGGAAGGTACAGTTTCAGGGCAGGTAAACTAAATTTGATAGTGATGATGAATGTGATGGAGAATGGTGCAACTGAGCCAATGAAAAGAGCAAAAGAAGAAACAAAGAAGAACCTGCGCCACAAGGACAAAAAACAGAAAATGGTGCCAGAGACCAGTAGTTGAGTGCACAGATTTTTAAATTCATTTTAATTAGGTTTTAAGCTGCTTTTGTTTTGGGACTTTTAAAACAAAATCCAAATTAGGCCTACTATTCAATGTCCACCTGCAAGAAAGGAAAACTTTCAtCTTTTCACCATTTAAAAAAAATAGAAAGGAAGCTTTTTTGTTGTTGTTTAACTTGTCTTTTTTGTTATTCACATGAGAATTTTTTTGAATGTATAGTTCTATTTGTGTAATTTCAGATGATTCAATATCAAAAGGAAGATTCTTCCATGAAATTGCCTTTGTAATATAAGAATGTATTAGTACAAACTAAGAAAATATATGCTATATAAAAAGAGCAAAAA
>NM_003142.5
ATCTTCTTGGAGCGCTTTAGGCTGGCCGGCGGCGCTGGGAGGTGGAGTCGTTGCTGTTGCTGTTTGTGAGCCTGTGGCGCGGCTTCTGTGGGCCGGAACCTTAAAGATAGCCGCAATGGCTGAAAATGGTGATAATGAAAAGATGGCTGCCCTGGAGGCCAAAATCTGTCATCAAATTGAGTATTATTTTGGCGACTTCAATTTGCCACGGGACAAGTTTCTAAAGGAACAGATAAAACTGGATGAAGGCTGGGTACCTTTGGAGATAATGATAAAATTCAACAGGTTGAACCGTCTAACAACAGACTTTAATGTAATTGTGGAAGCATTGAGCAAATCCAAGGCAGAACTCATGGAAATCAGTGAAGATAAAACTAAAATCAGAAGGTCTCCAAGCAAACCCCTACCTGAAGTGACTGATGAGTATAAAAATGATGTAAAAAACAGATCTGTTTATATTAAAGGCTTCCCAACTGATGCAACTCTTGATGACATAAAAGAATGGTTAGAAGATAAAGGTCAAGTACTAAATATTCAGATGAGAAGAACATTGCATAAAGCATTTAAGGGATCAATTTTTGTTGTGTTTGATAGCATTGAATCTGCTAAGAAATTTGTAGAGACCCCTGGCCAGAAGTACAAAGAAACAGACCTGCTAATACTTTTCAAGGACGATTACTTTGCCAAAAAAAATGAAGAAAGAAAACAAAATAAAGTGGAAGCTAAATTAAGAGCTAAACAGGAGCAAGAAGCAAAACAAAAGTTAGAAGAAGATGCTGAAATGAAATCTCTAGAAGAAAAGATTGGATGCTTGCTGAAATTTTCGGGTGATTTAGATGATCAGACCTGTAGAGAAGATTTACACATACTTTTCTCAAATCATGGTGAAATAAAATGGATAGACTTCGTCAGAGGAGCAAAAGAGGGGATAATTCTATTTAAAGAAAAAGCCAAGGAAGCATTGGGTAAAGCCAAAGATGCAAATAATGGTAACCTACAATTAAGGAACAAAGAAGTGACTTGGGAAGTACTAGAAGGAGAGGTGGAAAAAGAAGCACTGAAGAAAATAATAGAAGACCAACAAGAATCCCTAAACAAATGGAAGTCAAAAGGTCGTAGATTTAAAGGAAAAGGAAAGGGTAATAAAGCTGCCCAGCCTGGGTCTGGTAAAGGAAAAGTACAGTTTCAGGGCAAGAAAACGAAATTTGCTAGtgatgatgaacatgatgaacatgatgaaaatggtgCAACTGGACCTGTgaaaagagcaagagaagaaacagacaaagaagaacctgcatccaaacaacagaaaacagaaaaTGGTGCTGGAGACCAGTAGTTTAGTAAACCAATTTTTTATTCATTTTAAATAGGTTTTAAACGACTTTTGTTTGCGGGGCTTTTAAAAGGAAAACCGAATTAGGTCCACTTCAATGTCCACCTGTGAGAAAGGAAAAATTTTTTTGTTGTTTAACTTGTCTTTTTGTTATGCAAATGAGATTTCTTTGAATGTATTGTTCTGTTTGTGTTATTTCAGATGATTCAAATATCAAAAGGAAGATTCTTCCATTAAATTGCCTTTGTAATATGAGAATGTATTAGTACAAACTAACTAATAAAATATATACTATATGAAAAGAGCAAAAA

Publications

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