Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SF3B4P1
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr14:67199051-67200552  UCSC
Coordinates (T2T) chr14:61406172-61407673  UCSC
Coordinates (hg19) chr14:67665768-67667269  UCSC
Strand +
Parental Sequence NM_005850.5
Parental seq. overlap 1436 bp
Parental seq. overlap (%) 93%
Genomic Region Intragenic (GARIN2)
Retrocopy Summary SF3B4P1, located on chr14:67199051-67200552, is a retrocopy of the parental gene SF3B4. 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 SF3B4
Full Name splicing factor 3b subunit 4
Also known as AFD1|Hsh49|SAP49|SF3b49
Coordinate chr1:149923317-149927803
Strand -
Gene summary This gene encodes one of four subunits of the splicing factor 3B. The protein encoded by this gene cross-links to a region in the pre-mRNA immediately upstream of the branchpoint sequence in pre-mRNA in the prespliceosomal complex A. It also may be involved in the assembly of the B, C and E spliceosomal complexes. In addition to RNA-binding activity, this protein interacts directly and highly specifically with subunit 2 of the splicing factor 3B. This protein contains two N-terminal RNA-recognition motifs (RRMs), consistent with the observation that it binds directly to pre-mRNA. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SF3B4P2
Bonobo Pan paniscus SF3B4P2
Gorilla Gorilla gorilla SF3B4P2
Orangutan Pongo abelii SF3B4P2
Gibbon Nomascus leucogenys SF3B4P1
Green monkey Chlorocebus sabaeus SF3B4P2
Crab-eating macaque Macaca fascicularis SF3B4P2
Rhesus Macaca mulatta SF3B4P2
Baboon Papio anubis SF3B4P2
Golden snub-nosed monkey Rhinopithecus roxellana SF3B4P1
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

>SF3B4P1
GCTCTTTTGCCATGGCTACCAGGCCGATCTCCGAGCGGAACCAGGATGCCACTGTGTACGTGGGGGGCCTGAATGAGAAGGTTAGTGAACCGCTACTGTGGGAACTGTTTCTCCAGGCTGGACCAGTAGTCAACACCCACATGCCAAAGGATAGAGTCACTGGCCAGCACCAAGGCTATGACTTTGTGAATTCTTGAGTGAGGATGATGCTGACTATGCCATTAAGATCATGAACATGATCAGACTCTATGGGAAGCCAATACGGGTGAACAAGGCATCAGCTCACAACAAAAACCTGGATGTAGGGGCCAACATTTTCAATGGGAACCTGGACCCTGAGATTGATGAGAAGTTGCTTTATGATACTTTCAGCGCCTTTGGGGTCATCTTACAAACCCCCAAGATTATGTGGGACCCTGACACAGGCAACTCCAAAGGTTATGCCTTTATTAATTTTGCTTCATTTGATGCTTCAGTTGCAGCAATTGAAGCCATGAATGGGCAGTACCTCTGTAACCACCCTATCACCGTATCTTATGCCTTCGAGAAGGACTCCAAGGGTGAGCGCCATGGCTTAGCAGCTGGACGACTTCTGGCAGCTCAGAACCCGCTCTCCCAGCCTGACCGCCCTCATCAGCTGTTTGCAGATGCACCTCCTTCACCCTCTGCCCCCAATCCTGTGGTATCATCATTGGGGTCTGGGCTTCCTCCACCAGGCATGCCTCCTCCTGGCTCCTTCCCACCCCCAGTGCTGCCTCCTGGAGCCCTCCCACCTGGGATACCCCCAGCCATGCCCCACCACCTATGCCTCCTGGGGCTGCAGGACATGGCCCCCCATCGGCAGGAACCCCAGGGGCAGGACATCCTGGTCATGGACACTCCCAAGCTCACCCATTCCCACCAGGAGGAGTGCCCCATCCAGGGATGTCTCAGATGCAGCTGGCACACCATGGACCTCATGGTTTAGGACATCCCCATTCTGGACACCCAGGCTCTGGGGGACAGCCACCACCCCAACCACCACCTGGAATGCCTTATCCTGGACCTCCTCCAATGGGCATGCCCCCCCGAAGGCCTCCATTCTGATCTCCCATGGGTCACCCAGGTCCTATGCCTCCACATGGTATGCGTGGACTTCCTCCACTGATGCCCCCCATGGATACACTGGCCCTCCACAACCCACACCCTATGGCTACCAGCCTCTCCCTCCAACCAGGCCCACTCCCCAGCCACCAGTTGCCCCTCGAGGCCCGCTTTGGAGCCCTCTCCCTCAGTAAATTCACATTTTCCTTCCTCCTATTACATCTTCCCAATATCTTTTCGATACCTTGGACCAATCAGAGATGCTGTAGCTCCTTGGGGCTAAGGCACTAATCCCTTTCAGCACCCCCACCCCATTCCCCTTTTTAATGTAACTTTTTCCACAGGAGGTATTTCTTTTTTATGTTGGTCCTGAGTATTTTGCAAATGCACAGAGAAAATAAAACTAAACTCCTTGTTTA
>NM_005850.5
AGAAGGCGGAACCGCTGCTGGGAGACGGCGGGATCTCTTTCGCCATGGCTGCCGGGCCGATCTCCGAGCGGAATCAGGATGCCACTGTGTACGTGGGGGGCCTGGATGAGAAGGTTAGTGAACCGCTGCTGTGGGAACTGTTTCTCCAGGCTGGACCAGTAGTCAACACCCACATGCCAAAGGATAGAGTCACTGGCCAGCACCAAGGCTATGGCTTTGTGGAATTCTTGAGTGAGGAAGATGCTGACTATGCCATTAAGATCATGAACATGATCAAACTCTATGGGAAGCCAATACGGGTGAACAAAGCATCAGCTCACAACAAAAACCTGGATGTAGGGGCCAACATTTTCATTGGGAACCTGGACCCTGAGATTGATGAGAAGTTGCTTTATGATACTTTCAGCGCCTTTGGGGTCATCTTACAAACCCCCAAAATTATGCGGGACCCTGACACAGGCAACTCCAAAGGTTATGCCTTTATTAATTTTGCTTCATTTGATGCTTCGGATGCAGCAATTGAAGCCATGAATGGGCAGTACCTCTGTAACCGTCCTATCACCGTATCTTATGCCTTCAAGAAGGACTCCAAGGGTGAGCGCCATGGCTCAGCAGCCGAACGACTTCTGGCAGCTCAGAACCCGCTCTCCCAGGCTGATCGCCCTCATCAGCTGTTTGCAGATGCACCTCCTCCACCCTCTGCTCCCAATCCTGTGGTATCATCATTGGGGTCTGGGCTTCCTCCACCAGGCATGCCTCCTCCTGGCTCCTTCCCACCCCCAGTGCCACCTCCTGGAGCCCTCCCACCTGGGATACCCCCAGCCATGCCCCCACCACCTATGCCTCCTGGGGCTGCAGGACATGGCCCCCCATCGGCAGGAACCCCAGGGGCAGGACATCCTGGTCATGGACACTCACATCCTCACCCATTCCCACCGGGTGGGATGCCCCATCCAGGGATGTCTCAGATGCAGCTTGCACACCATGGCCCTCATGGCTTAGGACATCCCCACGCTGGACCCCCAGGCTCTGGGGGCCAGCCACCGCCCCGACCACCACCTGGAATGCCTCATCCTGGACCTCCTCCAATGGGCATGCCCCCCCGAGGGCCTCCATTCGGATCTCCCATGGGTCACCCAGGTCCTATGCCTCCGCATGGTATGCGTGGACCTCCTCCACTGATGCCCCCCCATGGATACACTGGCCCTCCACGACCCCCACCCTATGGCTACCAGCGGGGGCCTCTCCCTCCACCCAGACCCACTCCCCGGCCACCAGTTCCCCCTCGAGGCCCACTTCGAGGCCCTCTCCCTCAGTAAATTCACATTTTCCTTCCTCCTGTTACATTTTCCCAATATCTTTTCTATTCCTTGGACCAATCAGAGATGCTGTAGCTCCTTGGGGCAAAGGTACTAATCCCTTTCAGCACCCCCACTCCATTCCCCTTTTTAATGTAACTTTTTCCACAGGAGGTATTTCTTTTTTATGTTGGTCCTGAGTATTTTGCAAATGCACAGAGAAAATAAAACTAAACTCCTTGTTTA

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