Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name LSM2P1
Plot displaying the genomic locations of a retrocopy (in chr4) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr4:48410678-48411354  UCSC
Coordinates (T2T) chr4:48377712-48378388  UCSC
Coordinates (hg19) chr4:48412695-48413371  UCSC
Strand +
Parental Sequence NM_021177.5_4
Parental seq. overlap 524 bp
Parental seq. overlap (%) 60.3%
Genomic Region Intragenic (SLAIN2)
Retrocopy Summary LSM2P1, located on chr4:48410678-48411354, is a retrocopy of the parental gene LSM2. 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 LSM2
Full Name LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
Also known as C6orf28|G7B|YBL026W|snRNP
Coordinate chr6:31797396-31806966
Strand -
Gene summary This gene encodes a member of the LSm family of RNA-binding proteins. LSm proteins form stable heteromers that bind specifically to the 3'-terminal oligo(U) tract of U6 snRNA and may play a role in pre-mRNA splicing by mediating U4/U6 snRNP formation. Pseudogenes of this gene are located on the short arm of chromosomes 6 and 19. [provided by RefSeq, Nov 2011]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes LSM2P1
Bonobo Pan paniscus LSM2P1
Gorilla Gorilla gorilla LSM2P1
Orangutan Pongo abelii LSM2P1
Gibbon Nomascus leucogenys LSM2P3
Green monkey Chlorocebus sabaeus LSM2P3
Crab-eating macaque Macaca fascicularis LSM2P1
Rhesus Macaca mulatta LSM2P1
Golden snub-nosed monkey Rhinopithecus roxellana LSM2P1
Marmoset Callithrix jacchus LSM2P2
Baboon Papio anubis 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

>LSM2P1
ACCAGGACCATGCTCTTCTATTCCTTTTTCAATCCCTGTGGGCAAGGATGTAAACCTGGAACTCAAGAATGACCTGCTTATCTGTGGACCCCTGCATGCTGTGGATCAGTATCTCAACATCAGATTAACTAACATCAGCGTTACAGACCCTGAGAAATACCCTCACATCTTCATTCGGGGCTTAGTGGTCCAAAATGTGCAGTTGCCAGCAGACAGGGTCGACAAAGTTGCTGCAGAATGCAGCAAGGAAGGAAGCCCTATAGCAGAAACAGTGATGGATTGCTGACCCATAACCCCAAGTCCCAGCTTAGGACCCCTGACCGTGAATACTTGAAGCAATTGTGTTTCGTTGGTGTTTTTTCGTCGTTGTTGTTTTAACTATTAAGGGATGACTGGATGAGAGGGATAATAGGGAACAGCTCTCCCTGTTGAGAAGGGGAGGATAAGTAGGCTGGGAAATTTCAAAGCCTTCCTAGTCCTCAGCATCTATCTTTCTCACTACTTCCCTAGAGATGGTGGGAGAGTTTCCTAGGTCTTTCCAGGGCAGCATGTGATTCGTTTTGGGGATGGAAGAAATCTGTACCACATCAGGAATAAAATTCACGATG
>NM_021177.5_4
CTCCCCTCTACTCTACCCAGCTTGCGCTCCCCAGCCGCAAGTCGGCCGCGCTTTGCCCGTCAGCGCTTGGAGCTTTCTGCGTcgcttcccgctgcgcctgcgcggtcccgcctcgccccacgcgcgggctcgcgctTCGGTTTCCCCAGACCTGCTCGCAGCACCCTGCTGTCTTCCCGGTCCGGCCCGCTGCCCGCGGCGCCAGCACCATGCTCTTCTATTCTTTTTTCAAGTCCCTTGTGGGCAAGGATGTGGTCGTGGAACTAAAGAATGACCTGAGCATCTGTGGAACCCTCCATTCTGTGGATCAGTATCTCAACATCAAACTAACTGACATCAGTGTCACAGACCCTGAGAAATACCCTCACATGTTATCAGTGAAGAACTGCTTCATTCGGGGCTCAGTGGTCCGATACGTGCAGCTGCCAGCAGATGAGGTCGACACACAGTTGCTACAGGATGCGGCAAGGAAGGAAGCCCTGCAGCAGAAACAGTGATGGCTCCTCCTCCTCTTCCCCTCCCTCTTTCATTGGTGACCCATAACCCCAAGTCCCAGCCCAGAACCCCTAACCCCCAATACTTGAAGGGGTTTTGTTTTTTTACTAATGATGGTTTTGTGGGTTTTTTTTAAGGGATGAGTGGATGAGAGGAGTAATAGGGAACAGCTATCCTCTCTTGAGAAGGGGAGGATAAGTAGGCTGGGAAACTTCAAAGCCTTCCCAGTCCCCAGCACCTGCCTTTCTCACTACTTCTCTGGAGATGGTAGGAGAGTTTCCTAGGTCTTTCCAGGGCAGCATGTGATTCATTTGGGGATGGAAGGAATCTGTCCCGCATCGGGAATAAAATTTATGATGCAAA

Publications

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