RetrogeneDB ID:

retro_mdom_95

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:86900016..86900625(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000000373
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000021057
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_95
CAGATACGCTGCTTCACCACTTCAATGACAAGACCATTTGCCAAACTCGTCAGGCCTCCAATTCAATTGTATGGGCTAGA
AGGTCGATATGCCACTGCTCTTTATTCTGCTGCATCCAAGCAGAATAATCTGGATGCTGTTGAAAAGGAGTTAATAAGAG
TAACAAAACTTTTGAAGGAACCCAAAACAGTTGCCTCTTTTATGAATCTCTATATCAAGCATACCATTAAGATGGCAGAC
CTAAATGACTTAATAGCAAAAGAAAAGTTTTCCGCCATCACAACCAACTTCATGAAATTGTTTGCTGAAAATGGTCATTT
AAACAACACCCCAAGAATTATTTCAGCATTTTCTACTATAATGAGTGTGCATCATGGAGAATTACCATGTTCAGTTACTA
CTGCATCTGCTTTAGATAGCTCAACTCTTTCAGAATTAGAAGCAGTCCTGAATAACTTCCTACATAAAGGTCAAGTCCTG
AAAATGGAAGCCAACACTTATCCTTCAATCTTGGAAGGAATGATTGTTCGTATAGGAGAGAAATATGTGGATATGTCCAC
AAGAACCAAGATCCAGAAGCTAAACAGGATTATGAGGGAATCTGTTTAA

ORF - retro_mdom_95 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.13 %
Parental protein coverage: 94.84 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQIRRFTTSVARPFAKLVRPPIQLYGLEGRYATALYSAASKQNKLDAVERELNRVTKLLKEPKTVASFMNP
QIR.FTTS..RPFAKLVRPPIQLYGLEGRYATALYSAASKQN.LDAVE.EL.RVTKLLKEPKTVASFMN.
RetrocopyQIRCFTTSMTRPFAKLVRPPIQLYGLEGRYATALYSAASKQNNLDAVEKELIRVTKLLKEPKTVASFMNL
ParentalHIKRTIKMAALNDLIAKEKFSPITTNFMKLLAENGRLNNTPGIISAFSTIMSVHRGEVPCSVTTASALDS
.IK.TIKMA.LNDLIAKEKFS.ITTNFMKL.AENG.LNNTP.IISAFSTIMSVH.GE.PCSVTTASALDS
RetrocopyYIKHTIKMADLNDLIAKEKFSAITTNFMKLFAENGHLNNTPRIISAFSTIMSVHHGELPCSVTTASALDS
ParentalATLSELEAVLNSFLRKGQVLKMEAKTDPSIMGGMIVRIGEKYVDMSARTKIQKLSRIMREAV
.TLSELEAVLN.FL.KGQVLKMEA.T.PSI..GMIVRIGEKYVDMS.RTKIQKL.RIMRE.V
RetrocopySTLSELEAVLNNFLHKGQVLKMEANTYPSILEGMIVRIGEKYVDMSTRTKIQKLNRIMRESV

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_95 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_95 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 22 parental genes, and 47 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000147081 retrocopy
Canis familiaris ENSCAFG000000095413 retrocopies
Choloepus hoffmanni ENSCHOG000000112421 retrocopy
Callithrix jacchus ENSCJAG000000028731 retrocopy
Equus caballus ENSECAG000000090591 retrocopy
Echinops telfairi ENSETEG000000008075 retrocopies
Felis catus ENSFCAG000000286561 retrocopy
Homo sapiens ENSG000002418371 retrocopy
Gorilla gorilla ENSGGOG000000126111 retrocopy
Macropus eugenii ENSMEUG000000066134 retrocopies
Myotis lucifugus ENSMLUG000000082243 retrocopies
Macaca mulatta ENSMMUG000000155041 retrocopy
Monodelphis domestica ENSMODG00000021057 2 retrocopies
retro_mdom_280, retro_mdom_95 ,
Mustela putorius furoENSMPUG000000013195 retrocopies
Mus musculus ENSMUSG000000229562 retrocopies
Otolemur garnettii ENSOGAG000000158504 retrocopies
Pongo abelii ENSPPYG000000113841 retrocopy
Pan troglodytes ENSPTRG000000138761 retrocopy
Rattus norvegicus ENSRNOG000000019911 retrocopy
Sarcophilus harrisii ENSSHAG000000004093 retrocopies
Sus scrofa ENSSSCG000000120422 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000086583 retrocopies



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