Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SDC4P
Plot displaying the genomic locations of a retrocopy (in chr22) and its respective parental gene (in chr20). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr22:30481338-30481756  UCSC
Coordinates (T2T) chr22:30944748-30945166  UCSC
Coordinates (hg19) chr22:30877325-30877743  UCSC
Strand -
Parental Sequence NM_002999.4
Parental seq. overlap 320 bp
Parental seq. overlap (%) 12.2%
Genomic Region Intergenic
Retrocopy Summary SDC4P, located on chr22:30481338-30481756, is a retrocopy of the parental gene SDC4. 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 SDC4
Full Name syndecan 4
Also known as SYND4
Coordinate chr20:45325288-45348424
Strand -
Gene summary The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan that functions as a receptor in intracellular signaling. The encoded protein is found as a homodimer and is a member of the syndecan proteoglycan family. This gene is found on chromosome 20, while a pseudogene has been found on chromosome 22. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SDC4P1
Gorilla Gorilla gorilla SDC4P1
Orangutan Pongo abelii SDC4P1
Gibbon Nomascus leucogenys SDC4P1
Golden snub-nosed monkey Rhinopithecus roxellana SDC4P1
Bonobo Pan paniscus Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis 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

>SDC4P
GGGCAGGAACCTGATGACTCTGAGCTCTCTGGCTCTAGAGATATTGATGAGTCAAGGGACCCCAAGATCATCCCTGAAGTGATCCAACCCTTGGTGCTTCTAGATAACCACATCCCTGAGAGGGCAGGGCCTGGGAACCTGGTCCCACTGAAACCAAGGAACTGGAGGACAACGAGGTCATCCCCAGGAGGATCTCACTCTCTGCGGGGGACCAGGATGTGTCCAATAAGGCACCCATGTCCAACACTGCCCAGGGCAGCAACATCTTTGAGAGAATGGAGGTCGTGGCAGTCCTGATTGTGGACAGCATCGCGGGCATCCTCTCTGCTGTTTTCCTGATCCTGCTTCTGGTGAACCATATGAAGAAGGATGAAGGCAGAAACGACCTGAg
>NM_002999.4
ACTCGCCGCAGCCTGCGCGCCTTCTCCAGTCCGCGGTGCCATGGCCCCCGCCCGTCTGTTCGCGCTGCTGCTGTTCTTCGTAGGCGGAGTCGCCGAGTCGATCCGAGAGACTGAGGTCATCGACCCCCAGGACCTCCTAGAAGGCCGATACTTCTCCGGAGCCCTACCAGACGATGAGGATGTAGTGGGGCCCGGGCAGGAATCTGATGACTTTGAGCTGTCTGGCTCTGGAGATCTGGATGACTTGGAAGACTCCATGATCGGCCCTGAAGTTGTCCATCCCTTGGTGCCTCTAGATAACCATATCCCTGAGAGGGCAGGGTCTGGGAGCCAAGTCCCCACCGAACCCAAGAAACTAGAGGAGAATGAGGTTATCCCCAAGAGAATCTCACCCGTTGAAGAGAGTGAGGATGTGTCCAACAAGGTGTCAATGTCCAGCACTGTGCAGGGCAGCAACATCTTTGAGAGAACGGAGGTCCTGGCAGCTCTGATTGTGGGTGGCATCGTGGGCATCCTCTTTGCCGTCTTCCTGATCCTACTGCTCATGTACCGTATGAAGAAGAAGGATGAAGGCAGCTATGACCTGGGCAAGAAACCCATCTACAAGAAAGCCCCCACCAATGAGTTCTACGCGTGAAGCTTGCTTGTGGGCACTGGCTTGGACTTTAGCGGGGAGGGAAGCCAGGGGATTTTGAAGGGTGGACATTAGGGTAGGGTGAGGTCAACCTAATACTGACTTGTCAGTATCTCCAGCTCTGATTACCTTTGAAGTGTTCAGAAGAGACATTGTCTTCTACTGTTCTGCCAGGTTCTTCTTGAGCTTTGGGCCTCAGTTGCCCTGGCAGAAAAATGGATTCAACTTGGCCTTTCTGAAGGCAAGACTGGGATTGGATCACTTCTTAAACTTCCAGTTAAGAATCTAGGTCCGCCCTCAAGCCCATACTGACCATGCCTCATCCAGAGCTCCTCTGAAGCCAGGGGGCTAACGGATGTTGTGTGGAGTCCTGGCTGGAGGTCCTCCCCCAGTGGCCTTCCTCCCTTCCTTTCACAGCCGGTCTCTCTGCCAGGAAATGGGGGAAGGAACTAGAACCACCTGCACCTTGAGATGTTTCTGTAAATGGGTACTTGTGATCACACTACGGGAATCTCTGTGGTATATACCTGGGGCCATTCTAGGCTCTTTCAAGTGACTTTTGGAAATCAACCTTTTTTATTTGGGGGGGAGGATGGGGAAAAGAGCTGAGAGTTTATGCTGAAATGGATTTATAGAATATTTGTAAATCTATTTTTAGTGTTTGTTCGTTTTTTTAACTGTTCATTCCTTTGTGCAGAGTGTATATCTCTGCCTGGGCAAGAGTGTGGAGGTGCCGAGGTGTCTTCATTCTCTCGCACATTTCCACAGCACCTGCTAAGTTTGTATTTAATGgtttttgtttttgtttttgtttgtttcttgAAAATGAGAGAAGAGCCGGAGAGATGAtttttattaattttttttttttttttttttttttACTATTTATAGCTTTAGATAGGGCCTCCCTTCCCCTCTTCTTTCTTTGTTCTCTTTCATTAAACCCCTTCCCCAGTTTTTTTTTTATACTTTAAACCCCGCTCCTCATGGCCTTGGCCCTTTCTGAAGCTGCTTCCTCTTATAAAATAGCTTTTGCCGAAACATAGTTTTTTTTTAGCAGATCCCAAAATATAATGAAGGGGATGGTGGGATATTTGTGTCTGTGTTCTTATAATATATTATTATTCTTCCTTGGTTCTAGAAAAATAGATAAATATATTTTTTTCAGGAAATAGTGTGGTGTTTCCAGTTTGATGTTGCTGGGTGGTTGAGTGAGTGAATTTTCATGTGGCTGGGTGGGTTTTTGCCTTTTTCTCTTGCCCTGTTCCTGGTGCCTTCTGATGGGGCTGGAATAGTTGAGGTGGATGGTTCTACCCTTTCTGCCTTCTGTTTGGGACCCAGCTGGTGTTCTTTGGTTTGCTTTCTTCAGGCTCTAGGGctgtgctatccaatacagtaaccacatgcggctgtttaaagttaagccaattaaaatcacataagattaaaaattccttcctcagttgcactaaccacgtttctagaggcgtcactgtatgtagttcatggctactgtactgacagcgagagcatgtccatctgttggacagcactATTCTAGAGAACTAAACTGGCTTAACGAGTCACAGCCTCAGCTGTGCTGGGACGACCCTTGTCTCCCTGGGTAGGGGGGGGGGAATGGGGGAGGGCTGATGAGGCCCCAGCTGGGGCCTGTTGTCTGGGACCCTCCCTCTCCTGAGAGGGGAGGCCTGGTGGCTTAGCCTGGGCAGGTCGTGTCTCCTCCTGACCCCAGTGGCTGCGGTGAGGGGAACCACCCTCCCTTGCTGCACCAGTGGCCATTAGCTCCCGTCACCACTGCAACCCAGGGTCCCAGCTGGCTGGGTCCTCTTCTGCCCCCAGTGCCCTTCCCCTTGGGCTGTGTTGGAGTGAGCACCTCCTCTGTAGGCACCTCTCACACTGTTGTCTGTTACTGATTTTTTTTGATAAAAAGATAATAAAACCTGGTACTTTCTAAA

Publications

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