RetrogeneDB ID:

retro_mdom_127

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:2:285006171..285008112(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000012827
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000012958
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_127
ATGTCGAAGGGACCCGCAGTTGGCATTGATCTTGGCACCACTTACTCCTGTGTAGGAGTCTTCCAACATGGGAAAGTGGA
GATCATTGCTAATGACCAAGGAAACAGGACCACCCCCAGCTACGTCGCCTTCACCGATACAGAACGTTTAATCGGTGATG
CTGCAAAGAATCAAGTTGCAATGAACCCCACCAACACAGTCTTTGATGCCAAACGTCTGATTGGTCGCAGATTTGATGAT
GCAGTTGTACAGTCGGACATGAAGCATTGGCCTTTTACGGTGGTGAATGACGCAGGCAGGCCTAAGGTCCAAGTGGAGTA
CAAAGGGGAGACCAAAAGTTTCTATCCAGAAGAAGTATCATCTATGGTCTTGACCAAGATGAAAGAAATTGCTGAAGCTT
ATCTTGGGAAGACTGTCACAAATGCTGTTGTCACAGTACCAGCCTACTTCAACGATTCCCAACGACAGGCTACCAAAGAC
GCCGGAACCATTGCTGGTCTCAATGTGCTCCGAATCATCAATGAGCCAACTGCTGCTGCTATTGCTTATGGCTTGGACAA
AAAAGTTGGTGCCGAGAGAAATGTGTTGATCTTTGACCTTGGAGGTGGTACCTTTGATGTCTCCATCCTTACCATTGAAG
ATGGTATCTTTGAAGTCAAGTCCACAGCTGGGGACACCCACTTGGGTGGCGAGGACTTTGACAACCGCATAGTCAACCAT
TTCATTGCTGAGTTCAAGCGAAAGCACAAGAAGGACATCAGTGAGAACAAGAGGGCTGTCCGCCGTCTGCGCACTGCTTG
TGAACGTGCAAAGAGAACCCTCTCTTCCAGTACACAGGCTAGTATTGAGATCGATTCCCTCTATGAAGGTATCGACTTCT
ATACCTCTATTACCCGGGCCCGTTTTGAAGAGCTGAATGCTGACCTCTTCCGTGGCACACTGGATCCCGTGGAAAAGGCC
CTCAGAGATGCCAAGCTAGACAAATCACAGATTCATGACATTGTCTTGGTGGGTGGTTCTACTCGAATCCCCAAAATCCA
GAAGCTTCTGCAGGACTTCTTCAATGGCAAGGAGCTCAACAAGAGTATCAATCCTGATGAGGCTGTTGCCTATGGTGCAG
CTGTCCAGGCTGCCATCTTGTCTGGAGATAAATCTGAGAATGTGCAGGACTTGCTGCTGCTAGATGTCACTCCTCTTTCC
CTTGGAATTGAAACTGCTGGAGGAGTCATGACAGTTCTGATCAAACGCAATACCACCATTCCCACAAAACAGACTCAGAC
CTTTACTACCTACTCTGACAATCAGCCTGGTGTGCTTATTCAGGTTTATGAAGGTGAGAGAGCAATGACAAAGGATAACA
ACTTACTTGGCAAGTTTGAGCTCACAGGAATCCCTCCTGCCCCAAGGGGTGTCCCTCAGATTGAAGTTACATTTGACATT
GATGCTAATGGCATCCTCAATGTGTCTGCTGTGGATAAGAGCACAGGGAAGGAGAACAAGATCACCATCACCAATGACAA
AGGTCGTCTGAGCAAAGAAGACATTGAGCGCATGGTCCAGGAGGCTGAAAAGTACAAGGCTGAAGATGAGAAGCAGAGAG
ATAAGGTGTCTTCCAAGAATTCTCTTGAGTCTTATGCTTTCAACATGAAGGCAACTGTTGAGGATGAGAAACTGCAAGGC
AAGATTGGTGATGAAGACAAACAGAAGATCCTTGACAAATGCAATGAAATAATCAACTGGCTGGATAAGAACCAGACTGC
TGAAAAGGAAGAATTTGAGCATCAGCAGAAAGAATTGGAAAAAGTCTGCAACCCCATCATCACCAAGCTGTACCAGAGTG
CAGGAGGCATGCCAGGAGGCATGCCTGGTGGGTTCCCAGGAGGTGGAGCAGCCCCATCTGGAGGTGCCTCTTCTGGACCT
ACCATTGAAGAGGTCGACTAA

ORF - retro_mdom_127 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.85 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSKGPAVGIDLGTTYSCVGVFQHGKVEIIANDQGNRTTPSYVAFTDTERLIGDAAKNQVAMNPTNTVFDA
MSKGPAVGIDLGTTYSCVGVFQHGKVEIIANDQGNRTTPSYVAFTDTERLIGDAAKNQVAMNPTNTVFDA
RetrocopyMSKGPAVGIDLGTTYSCVGVFQHGKVEIIANDQGNRTTPSYVAFTDTERLIGDAAKNQVAMNPTNTVFDA
ParentalKRLIGRRFDDAVVQSDMKHWPFTVVNDAGRPKVQVEYKGETKSFYPEEVSSMVLTKMKEIAEAYLGKTVT
KRLIGRRFDDAVVQSDMKHWPFTVVNDAGRPKVQVEYKGETKSFYPEEVSSMVLTKMKEIAEAYLGKTVT
RetrocopyKRLIGRRFDDAVVQSDMKHWPFTVVNDAGRPKVQVEYKGETKSFYPEEVSSMVLTKMKEIAEAYLGKTVT
ParentalNAVVTVPAYFNDSQRQATKDAGTIAGLNVLRIINEPTAAAIAYGLDKKVGAERNVLIFDLGGGTFDVSIL
NAVVTVPAYFNDSQRQATKDAGTIAGLNVLRIINEPTAAAIAYGLDKKVGAERNVLIFDLGGGTFDVSIL
RetrocopyNAVVTVPAYFNDSQRQATKDAGTIAGLNVLRIINEPTAAAIAYGLDKKVGAERNVLIFDLGGGTFDVSIL
ParentalTIEDGIFEVKSTAGDTHLGGEDFDNRMVNHFIAEFKRKHKKDISENKRAVRRLRTACERAKRTLSSSTQA
TIEDGIFEVKSTAGDTHLGGEDFDNR.VNHFIAEFKRKHKKDISENKRAVRRLRTACERAKRTLSSSTQA
RetrocopyTIEDGIFEVKSTAGDTHLGGEDFDNRIVNHFIAEFKRKHKKDISENKRAVRRLRTACERAKRTLSSSTQA
ParentalSIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIPKIQKLL
SIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIPKIQKLL
RetrocopySIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIPKIQKLL
ParentalQDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLIKRNTTI
QDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLIKRNTTI
RetrocopyQDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLIKRNTTI
ParentalPTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLLGKFELTGIPPAPRGVPQIEVTFDIDANGILNVSA
PTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLLGKFELTGIPPAPRGVPQIEVTFDIDANGILNVSA
RetrocopyPTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLLGKFELTGIPPAPRGVPQIEVTFDIDANGILNVSA
ParentalVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKNSLESYAFNMKATVEDEKLQG
VDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKNSLESYAFNMKATVEDEKLQG
RetrocopyVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKNSLESYAFNMKATVEDEKLQG
ParentalKIGDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNPIITKLYQSAGGMPGGMPGGFPGGGA
KIGDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNPIITKLYQSAGGMPGGMPGGFPGGGA
RetrocopyKIGDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNPIITKLYQSAGGMPGGMPGGFPGGGA
ParentalAPSGGASSGPTIEEVD
APSGGASSGPTIEEVD
RetrocopyAPSGGASSGPTIEEVD

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 0 .00 RPM 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_127 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_127 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 35 parental genes, and 119 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000048842 retrocopies
Ailuropoda melanoleuca ENSAMEG000000084251 retrocopy
Anas platyrhynchos ENSAPLG000000106671 retrocopy
Bos taurus ENSBTAG000000131621 retrocopy
Canis familiaris ENSCAFG000000116663 retrocopies
Ciona intestinalis ENSCING000000096651 retrocopy
Callithrix jacchus ENSCJAG000000076485 retrocopies
Cavia porcellus ENSCPOG000000041693 retrocopies
Ciona savignyi ENSCSAVG000000085881 retrocopy
Dipodomys ordii ENSDORG000000154671 retrocopy
Equus caballus ENSECAG000000135102 retrocopies
Echinops telfairi ENSETEG000000109961 retrocopy
Ficedula albicollis ENSFALG000000058121 retrocopy
Felis catus ENSFCAG000000011326 retrocopies
Homo sapiens ENSG000001099718 retrocopies
Gallus gallus ENSGALG000000065121 retrocopy
Gorilla gorilla ENSGGOG000000083818 retrocopies
Loxodonta africana ENSLAFG000000303124 retrocopies
Meleagris gallopavo ENSMGAG000000019291 retrocopy
Myotis lucifugus ENSMLUG000000048343 retrocopies
Macaca mulatta ENSMMUG000000046967 retrocopies
Monodelphis domestica ENSMODG00000012958 2 retrocopies
retro_mdom_127 , retro_mdom_99,
Mustela putorius furoENSMPUG000000058109 retrocopies
Mus musculus ENSMUSG000000156568 retrocopies
Nomascus leucogenys ENSNLEG000000074198 retrocopies
Oryctolagus cuniculus ENSOCUG000000155334 retrocopies
Oreochromis niloticus ENSONIG000000047591 retrocopy
Pongo abelii ENSPPYG000000039879 retrocopies
Pelodiscus sinensis ENSPSIG000000124502 retrocopies
Pan troglodytes ENSPTRG000000044045 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000037561 retrocopy
Taeniopygia guttata ENSTGUG000000004911 retrocopy
Takifugu rubripes ENSTRUG000000052651 retrocopy
Tursiops truncatus ENSTTRG000000111396 retrocopies
Xiphophorus maculatus ENSXMAG000000016021 retrocopy



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