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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Lrif1P1
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Plot displaying the genomic locations of a retrocopy (in chr12) and its respective parental gene (in chr3). Each line represents a retrocopy.
Species Mus musculus
Coordinates chr12:88556276-88556971  UCSC
Strand -
Parental Sequence NM_028081.2
Parental seq. overlap 399 bp
Parental seq. overlap (%) 20.8%
Genomic Region Intergenic
Retrocopy Summary Lrif1P1, located on chr12:88556276-88556971, is a retrocopy of the parental gene Lrif1. 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 Lrif1
Full Name ligand dependent nuclear receptor interacting factor 1
Also known as 2010012G17Rik|4933421E11Rik
Coordinate chr3:106592256-106643893
Strand +
Gene summary Predicted to enable retinoic acid receptor binding activity. Predicted to be involved in dosage compensation by inactivation of X chromosome. Located in Barr body. Orthologous to human LRIF1 (ligand dependent nuclear receptor interacting factor 1). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Human Homo sapiens Without Homology
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys 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
Golden snub-nosed monkey Rhinopithecus roxellana Without Homology
Marmoset Callithrix jacchus Without Homology
Mouse lemur Microcebus murinus 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

AdiposeHeart AtriumBone MarrowBreast Mammary TissueBrain CerebellumBrain CortexColonEsophagusSkin Hair FollicleHeartHeart VentricleBrain HypothalamusKidneyLiverBrain MidbrainOvaryPancreasBrain PonsKidney CortexEye RetinaMuscle SkeletalSkinSmall IntestineBrain Spinal CordSpleenTestisBrain ThalamusThymusTrachea012
log10(TPM+1)

Related Sequence

>Lrif1P1
TCACTGCCctgtcccctcccacccacctaaAATACCTAATAGTCTCCAGATTGTCTTTCTGAAAACCAAAGAGGGATATTCAGGCTCTCACTGACACAATATGAGATGtcatcaatatttttaaaaagatattcaaGAAAAAAGTAACAAGAAATATTCTCAAGGAAGCCCTACTAAGGCAACACATCTGAAGAATAATGTGGAACTTAAAAAGATATTTGGACTCattttttttttaaagttatttggtCTCACTAAAGACTTAAGAGTATATCTTACTCTAATTCCTGACCATCTCTAGAAAAAGGTTTTGATTCCTTTAACAGTTTGGTGAAAAGTAGTTCTTACAAAGATGCAGACTTTCTAGTGAAGGACAAAGGAAAAAACAGtttttctaccatgaagAAGGTGGgttacataaaaaagaaaaatcgaaAGTGCTAGTGACATGGTCATAAATGTCATGAGTGGAACTGATGTTGCTAGTTCCCAG
>NM_028081.2
GTATGCCTAGGATCCCTGGCTCTAGGAGCTCGGTTTTAGTGGGCGCAGACTCCGATCAGGCCCTGTCGTGGGTGGTGCTATTGATGCCACGCCCCCCACGTCCTCTCTGACTGGCTGTGATGCGTCACGTAGCCAGAAGAGACTCGCCGGAAAACTGTGAGCTTGCCTGAGGTAGGAGTCTTCCGGCTTCTACAGCCACTTCCCACGGAAGCTGGGGGAGCCGCCCTCTCAACTATCTCCCGTCACACCCTTCTGTTCGCTCGCCTCAGACGCTGCCCTTCCACACCCGTGCTCTGGTTCGCGCCTACTTGGGGACGCTGTCCCCCCAGTATTCACtgccctatcccctcccacccatCTAAAATGTCTAATAGTCTCCAGAGCGTCATTCTGAAAACCGCAGAGGAAAAGTCAGGCTCGCGCTGACGCAGTATGAGATGGCATCAATAGTAAAAAAGGAAattcaagaaaaaggaaataacaaGAAATATTCTCAAGGAAGCCATACTAATATTAAGGCATCATGTCTGAAGAATGATGCTGAATTTAAAAAGCTATTTGGTCTCACTAAAGATTTGAGAGTATGTCTTACTCGAATTCCTGACCATCTGAGCTCTGGAAAAAGTTTTAATTCCTTTAACAGTTTGATGAAAAGTAGTTCTTACAAAGATGCAAACATTgtggtgaagaaagaagaaaaaaaacagAGtttctctaagaaaagaaaagcggAAACCATGAAGATGGGTAacacaaaaaagataaaaattgagAATGCTGATGACACGGTCATGAGCATCATGAATGGAACTGATGTTGCTAGTTCCCAACCTCTCAGTAGTATTTTACCAACATCAGACATATCACAACATAACATTGTCACAAGCCATAGTACAACCAGGGAAGACAAGAGAACTGAGGCAGAACACTGTTCTCATGAGAAGCAGGAAAAAGGCACATTAAGTTCAAGCACATCTTTTGAACAAAgtacttttttaaataaaaactttatgGAAGATATTTTTCCAGTGACACCACCAGAACTAGAAGAAACCATCAGAGATGAAAAAATAAGAAGACTTAAGcaaattttaagagaaaaagaagcagctCTTGAAGAATTGCGTAAGAAGATGtaccaaaaacaataaaatctccATGGGTTAAAGACTTATATTATTATAGTAGTTCTCTCCCACCTGTCAGGGATCCCCACTGGATGCCTGAAACTGGAGATGATACCAAATCTTGTATAAAACCACTGTAAAGTCATGACGTTAACAACTAAATGTCTACTTAGATGTAACAAAAAAGTTATATAAATATACTGAATGAAGAGGATAATCTATATCCTTAACAAAAAACTGGAATTTTTGTCACACAACTTGAAAGTAATTTAAAAGttacaaattcattctttttggagTTTCTCATTTATACTTAGACACCTGTGTACGATGGGGAACTAAAAACAAAAGTACCTGCAAGTTATAAGGGACTACTCTGTTAATTGTAAAGGTGCTATGAAAGTGACTTTGTATATGAAACGAGTTCCCAAAAGGGTTGAGTCATGACTTGTCAATAACCTACATGAAGTATTTTGACTTACTTGTTTTGGAAGAAAAGTTGGGTATTTTTCTGTGAAATGCAATTCTCCAAATTTGAGCATTTTGTATAGGGTTTCTGTTAAATGTTTTCAACTAAATTCCTCAGGTCTTACCCTAAGAATATTGTGTATAAATTCTACAACCCAAGTTATGAAGTAAGCTGTAAGCATAACTTTACCACTGAGTTTAATATGATCTATttgatattgttatttttatttcatcaatAAAATCTATTATAATAAATGTATTCAGATATTTTTCAATGTGAAA

Publications

PMID - Link Title
No publications available for this retrocopy