Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SAFBP1
Plot displaying the genomic locations of a retrocopy (in chr11) and its respective parental gene (in chr19). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr11:122618852-122619466  UCSC
Coordinates (T2T) chr11:122646514-122647128  UCSC
Coordinates (hg19) chr11:122489560-122490174  UCSC
Strand +
Parental Sequence NM_001201339.2
Parental seq. overlap 541 bp
Parental seq. overlap (%) 17.7%
Genomic Region Intergenic
Retrocopy Summary SAFBP1, located on chr11:122618852-122619466, is a retrocopy of the parental gene SAFB. 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 SAFB
Full Name scaffold attachment factor B
Also known as HAP|HET|SAB-B1|SAF-B|SAF-B1|SAFB1
Coordinate chr19:5623081-5668478
Strand +
Gene summary This gene encodes a DNA-binding protein which has high specificity for scaffold or matrix attachment region DNA elements (S/MAR DNA). This protein is thought to be involved in attaching the base of chromatin loops to the nuclear matrix but there is conflicting evidence as to whether this protein is a component of chromatin or a nuclear matrix protein. Scaffold attachment factors are a specific subset of nuclear matrix proteins (NMP) that specifically bind to S/MAR. The encoded protein is thought to serve as a molecular base to assemble a 'transcriptosome complex' in the vicinity of actively transcribed genes. It is involved in the regulation of heat shock protein 27 transcription, can act as an estrogen receptor co-repressor and is a candidate for breast tumorigenesis. This gene is arranged head-to-head with a similar gene whose product has the same functions. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jan 2011]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SAFBP1
Bonobo Pan paniscus SAFBP1
Gorilla Gorilla gorilla SAFBP1
Orangutan Pongo abelii SAFBP1
Gibbon Nomascus leucogenys SAFBP1
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana Without Homology
Marmoset Callithrix jacchus 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

>SAFBP1
CCAGCATTACCCAGAACGCCATGCAGGACCAGAGCGCCACAGCCGGGACTCCCGTGATGGCTGGGGGGGCTGTGGCTCCGACAGGAGGATGAGCGAGGGCCGGGGGCTGCCTCCTCCCCCCAGGGGCAGACATGACTACTCGGGGGACCGTGGCTGAAGAGAGGATGACTGAGCATGGCAGGGCACAGCTGATGGGGGCATGATGGACAGGGATCACAAGAGATGGCAAGGTGGTGAGAGAAGCATGTCCGGTCACTCCGGGCCTGGCCACATGATGAACTGAGAAGGGATGTCAGGGCTCGGCAGCTTTGCCTCAGGCGGGGCCTCCCGGGGCCACCCCATCCCACACGGTGGTATGCAAGGCGGGTTCGGAGGCCCGAGCAGGGGGAGCAGGCCCATCAATGCCCGCTTCACTCGCCGCTACCGAGTACTTGGAATCCTGTGTCCTGTCACGTGGCAACAAGGCTATGTTCTGTTAGGAGTTATCCTAAACTGTCTAAAAATATTTTTCTTTAATCTGCTGCCATATTGTAGCTCAATACAATGTGAAtAATAAATGTGTTTCTGTTCACATACCCTTTA
>NM_001201339.2
AGAAGCGAGGCGCGCTGGGGCGACTGGAGCGGTTCCCTCGCAGGCGGCGCCATTTTGTGCTAGGAGCCTGATAAAACCGGCCCGGTTCTGTGGAAAGTGGGCGGCGGAGCCAGGGTCCCTGGAATGGCGGAGACTCTGTCAGGCCTAGGTGATTCTGGAGCGGCGGGCGCGGCGGCTCTGAGCTCCGCCTCGTCAGAGACCGGGACGCGGCGCCTCAGCGACCTGCGAGTGATCGATCTGCGGGCGGAGCTGAGGAAACGGAATGTGGACTCGAGCGGCAACAAGAGCGTTTTGATGGAGCGGCTGAAGAAGGCAATTGAAGATGAAGGTGGTAATCCTGACGAAATTGAAATTACCTCCGAGGGAAACAAGAAAACATCAAAGAGGTCTAGCAAAGGGCGCAAACCAGAAGAAGAGGGTGTGGAAGATAACGGGCTGGAGGAAAACTCTGGGGATGGACAGGAGGATGTTGAGACCAGTCTGGAGAACTTGCAGGACATCGACATCATGGATATCAGTGTGTTGGATGAAGCAGAAATTGATAATGGAAGCGTTGCAGATTGTGTCGAAGACGATGATGCTGATAACCTCCAGGAGTCCCTGTCGGATAGTAGAGAGCTAGTCGAGGGGGAAATGAAAGAGCTTCCGGAGCAGCTTCAGGAACATGCTATAGAGGACAAAGAAACTATAAACAATTTAGATACTTCATCATCTGACTTCACTATATTACAGGAAATTGAAGAGCCATCCCTGGAGCCAGAAAATGAGAAAATACTCGACATTTTGGGGGAAACTTGTAAATCTGAGCCAGTAAAAGAAGAAAGTTCCGAGCTGGAGCAGCCATTTGCACAGGACACAAGTAGCGTGGGGCCAGACAGAAAGCTTGCGGAGGAAGAGGACCTATTTGACAGCGCCCATCCGGAAGAGGGTGATTTAGATTTGGCCAGCGAGTCAACAGCACACGCTCAGTCGAGCAAGGCAGACAGCCTGTTAGCGGTAGTGAAAAGGGAGCCCGCGGAGCAGCCAGGCGATGGCGAGAGGACGGACTGTGAGCCTGTAGGGCTAGAGCCGGCAGTTGAGCAGAGTAGTGCGGCCTCCGAGCTCGCGGAGGCCTCTAGCGAGGAGCTCGCAGAAGCACCCACGGAAGCCCCAAGCCCAGAAGCCAGAGATAGCAAAGAAGACGGGAGGAAGTTTGATTTTGACGCTTGTAATGAAGTCCCTCCGGCTCCTAAAGAGTCCTCAACCAGTGAGGGCGCTGATCAGAAAATGAGTTCTCCCGAAGATGACTCGGATACAAAAAGGCTTTCCAAAGAGGAAAAGGGTCGCAGCAGTTGTGGTAGAAATTTCTGGGTTAGTGGACTCTCTTCTACAACCAGAGCTACAGATTTGAAGAATCTTTTCAGCAAATATGGGAAGGTGGTGGGCGCCAAGGTTGTGACAAATGCCCGGAGTCCTGGAGCTCGCTGTTACGGTTTTGTCACGATGTCCACAGCAGAAGAGGCCACAAAATGCATTAACCACCTGCACAAGACGGAGCTCCACGGAAAGATGATCTCCGTGGAGAAAGCCAAAAATGAACCTGTGGGAAAGAAAACCTCTGACAAAAGAGACAGTGACGGGAAAAAGGAGAAGTCGAGCAACAGTGACAGATCTACAAACCTTAAGAGGGATGATAAATGTGACAGAAAAGATGATGCTAAGAAGGGTGACGACGGAAGTGGAGAAAAGAGTAAGGACCAAGATGATCAGAAACCTGGCCCCTCAGAGCGATCTCGAGCCACAAAGTCAGGAAGTCGAGGGACCGAACGGACTGTAGTAATGGATAAATCCAAAGGGGTGCCTGTGATTAGTGTAAAAACGTCCGGGTCCAAAGAGAGAGCTTCCAAAAGCCAGGATCGCAAATCAGCCAGCAGAGAGAAGCGGTCCGTCGTGTCCTTTGATAAGGTCAAGGAGCCTCGGAAGTCAAGAGACTCAGAGTCCCATAGGGTGCGTGAACGCAGTGAACGCGAACAACGCATGCAGGCGCAGTGGGAGCGCGAGGAGCGTGAGCGGCTGGAGATTGCCCGAGAGAGGCTGGCCTTCCAGCGCCAGCGgctggagcgggagcgcatggagcgggaacggctggagcgcgaacgcatgcacgtggagcacgagcgcaggcgcgagcaggagcgCATCCACCGTGAGCGCGAGGAGCTGAGGCGCCAGCAGGAACTGCGCTATGAGCAGGAGCGGCGGCCCGCGGTGCGGCGGCCCTACGACCTGGACCGGCGAGATGATGCCTATTGGCCGGAAGCCAAGCGGGCCGCCCTGGATGAGCGCTACCATTCTGACTTTAACCGCCAGGACCGCTTCCACGACTTTGACCACAGGGACCGCGGCCGCTACCCCGACCACTCGGTGGACAGGAGAGAAGGTTCAAGGTCAATGATGGGAGAACGAGAAGGACAGCATTACCCAGAACGCCATGGAGGACCAGAGCGCCACGGCCGGGACTCCCGCGATGGCTGGGGGGGCTATGGCTCTGACAAGAGGATGAGCGAGGGCCGGGGGCTGCCTCCTCCCCCCAGGGGCAGACGTGACTGGGGGGACCATGGCCGAAGAGAGGATGACCGGTCATGGCAGGGCACGGCCGACGGGGGCATGATGGACAGGGATCACAAGAGGTGGCAAGGTGGCGAGAGAAGCATGTCCGGTCACTCCGGGCCTGGCCACATGATGAACCGAGGAGGAATGTCAGGGCGCGGCAGCTTTGCCCCAGGCGGGGCCTCCCGGGGCCACCCCATCCCACACGGTGGCATGCAGGGCGGGTTTGGAGGCCAGAGCCGGGGGAGCAGGCCCAGCGATGCCCGCTTCACTCGCCGCTACTGAGTACTTGGAATCCTGTGTCCTGTCTCGTGGCAACAAGGCTATGTTCTGTTAGGAGTTACCTTAAACTGTGTAAAAATATTTTTTTTTAATCTGCTGCCATATTGTAGCTCAATACAATGTGAATTTGTTTTTCGTTTTGGGGTTTTTTTTTTTTGTAATAAATGTGTTTCCGTTCACATACCCTTTA

Publications

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