RetrogeneDB ID:

retro_oana_8

Retrocopy
location
Organism:Platypus (Ornithorhynchus anatinus)
Coordinates:Contig6090:2302..3433(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOANG00000007581
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTB
Ensembl ID:ENSOANG00000007716
Aliases:None
Description:actin, beta [Source:HGNC Symbol;Acc:132]


Retrocopy-Parental alignment summary:






>retro_oana_8
ATGGCCGATGAAGAAATCGCCGCCCTCGTGGTGGACAACGGCTCGGGGATGTGCAAGGCCGGGTTTGCCGGGGACGACGC
CCCGCGGGCGGTGTTCCCCTCCATTGTCGGCCGCCCCCGGCACCAGGGCGTCATGGTCGGCATGGGGCAGAAGGACAGCT
ACGTGGGGGACGAGGCCCAGAGCAAGAGGGGCATCCTGACCCTCAAGTACCCCATCGAGCACGGCATCGTCACCAACTGG
GACGACATGGAGAAGATCTGGCACCACACCTTCTACAACGAGCTGCGCGTGGCCCCCGAAGAGCACCCGGTCCTGCTGAC
GGAAGCGCCCCTGAATCCCAAGGCCAACCGGGAGAAGATGACCCAGATCATGTTCGAGACCTTCAACACGCCGGCCATGT
ACGTGGCCATCCAGGCGGTGCTGTCCCTGTACGCCTCCGGCCGGACCACCGGCATCGTGATGGACTCCGGGGACGGGGTG
ACCCACACGGTGCCCATCTACGAGGGGTACGCGCTGCCCCACGCCATCCTGCGCCTCGACCTGGCCGGCCGGGACCTCAC
CGACTACCTCATGAAGATCCTGACCGAGCGAGGCTACAGCTTCACCACCACGGCCGAGAGGGAGATCGTGCGGGACGTCA
AGGAGAAGCTGTGCTACGTCGCCCTGGACTTCGAGCAGGAGATGGCCACCGCGGCCTCCTCCTCCTCGCTGGAGAAGAGC
TACGAGCTGCCCGACGGCCAGGTGATCACCATCGGCAACGAGAGGTTCCGCTGCCCCGAATCCATCTTCCAGCCCTCTTT
CCTGGGGATGGAGTCCTGCGGGATTCACGAGACCACCTACAACTCCATCATGAAATGCGACGTGGACATCCGCAAGGACC
TGTACGCCAACACGGTGCTGTCCGGCGGCACCACGATGTACCCGGGCATCGCCGACCGGATGCAGAAGGAAATCACCGCC
CTGGCGCCCAGCACCATGAAAATCAAGATCATTGCCCCCCCGGAGCGCAAGTACTCCGTCTGGATCGGGGGCTCCATCCT
GGCTTCTCTCTCCACCTTCCAGCAGATGTGGATCAGCAAGCAGGAGTACGACGAGTCCGGCCCGTCCATCGTCCATCGGA
AATGCTTTTAG

ORF - retro_oana_8 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.4 %
Parental protein coverage: 99.73 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDDDIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPI
D..IAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPI
RetrocopyDEEIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPI
ParentalEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLS
EHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLS
RetrocopyEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLS
ParentalLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRD
LYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRD
RetrocopyLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRD
ParentalIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETTFNS
.KEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPE..FQPSFLGMESCGIHETT.NS
RetrocopyVKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPESIFQPSFLGMESCGIHETTYNS
ParentalIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLST
IMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLST
RetrocopyIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLST
ParentalFQQMWISKQEYDESGPSIVHRKCF
FQQMWISKQEYDESGPSIVHRKCF
RetrocopyFQQMWISKQEYDESGPSIVHRKCF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 393 .08 RPM 1428 .35 RPM
SRP007412_cerebellum 634 .99 RPM 1054 .41 RPM
SRP007412_heart 231 .31 RPM 516 .82 RPM
SRP007412_kidney 131 .17 RPM 2519 .77 RPM
SRP007412_liver 125 .03 RPM 1415 .93 RPM
SRP007412_testis 508 .45 RPM 1356 .57 RPM
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
1 EST(s) were mapped to retro_oana_8 retrocopy
EST ID Start End Identity Match Mis-match Score
EH004956 2260 2855 99.7 593 2 591
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_8 was not experimentally validated.

Retrocopy orthology:
Ornithorhynchus anatinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 20 parental genes, and 88 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066011 retrocopy
Cavia porcellus ENSCPOG000000134671 retrocopy
Homo sapiens ENSG000000756246 retrocopies
Gallus gallus ENSGALG000000096211 retrocopy
Gorilla gorilla ENSGGOG0000000113318 retrocopies
Loxodonta africana ENSLAFG000000091671 retrocopy
Meleagris gallopavo ENSMGAG000000039602 retrocopies
Macaca mulatta ENSMMUG000000111531 retrocopy
Mustela putorius furoENSMPUG000000166122 retrocopies
Mus musculus ENSMUSG000000295807 retrocopies
Ornithorhynchus anatinus ENSOANG00000007716 2 retrocopies
retro_oana_4, retro_oana_8 ,
Otolemur garnettii ENSOGAG000000083481 retrocopy
Petromyzon marinus ENSPMAG000000041611 retrocopy
Pongo abelii ENSPPYG0000001733623 retrocopies
Rattus norvegicus ENSRNOG0000003425410 retrocopies
Sarcophilus harrisii ENSSHAG000000126944 retrocopies
Sus scrofa ENSSSCG000000075851 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000068682 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000147973 retrocopies
Xenopus tropicalis ENSXETG000000251161 retrocopy



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