RetrogeneDB ID:

retro_mdom_102

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:1:422442358..422442733(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000023571
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000028727
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_102
ATGGAAGAGGACTACACAAATTTGGTCTCCAGACGGAAAGATTCAATCTTTGTGAAAATAATTCGAAGGGAAATCCCAGC
CAACATAATTTTTGAGGATGATTCGTGTTTTGCTTTCCATGATTCTTGCCCCCAAGCCCCAACTCATTTTCTAGTGGTAC
CAAAGAAACCCATTGCCTGCATGTTGGAAGCAGAGGATTGTGATGAAAGTCTTATTGGACACTTAATCATTGTTGGCAAG
AAATGTGCCTCTGAGGTGGGCCTGAAGAAGGGATACCGGATGGTTATCAATGAAGGTACAGATGGGGGACAAGCAGTCTT
ACATATTCATGTCCATGTGCTTGGAGGCCGTCAGATGACCTGGCCTCCTGGATAA

ORF - retro_mdom_102 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.58 %
Parental protein coverage: 88.1 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDTIFGKIIRKEIPAKIIFEDDQCLAFHDVCPQAPTHFLVIPKKPITQISVAEEDDENLLGHLMIVGKKCA
D.IF.KIIR.EIPA.IIFEDD.C.AFHD.CPQAPTHFLV.PKKPI.....AE..DE.L.GHL.IVGKKCA
RetrocopyDSIFVKIIRREIPANIIFEDDSCFAFHDSCPQAPTHFLVVPKKPIACMLEAEDCDESLIGHLIIVGKKCA
ParentalADLGLKKGYRMVINEGPDGGQSVYHIHLHVLGGRQMKWPPG
...GLKKGYRMVINEG.DGGQ.V.HIH.HVLGGRQM.WPPG
RetrocopySEVGLKKGYRMVINEGTDGGQAVLHIHVHVLGGRQMTWPPG

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 .12 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 .50 RPM 0 .00 RPM
SRP007412_testis 211 .36 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_102 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_102 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 26 parental genes, and 59 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000177744 retrocopies
Bos taurus ENSBTAG000000109595 retrocopies
Canis familiaris ENSCAFG000000321521 retrocopy
Callithrix jacchus ENSCJAG000000143983 retrocopies
Equus caballus ENSECAG000000231803 retrocopies
Erinaceus europaeus ENSEEUG000000081751 retrocopy
Echinops telfairi ENSETEG000000101271 retrocopy
Homo sapiens ENSG000001695671 retrocopy
Gorilla gorilla ENSGGOG000000119671 retrocopy
Macropus eugenii ENSMEUG000000053682 retrocopies
Myotis lucifugus ENSMLUG000000010912 retrocopies
Macaca mulatta ENSMMUG000000099852 retrocopies
Monodelphis domestica ENSMODG00000028727 3 retrocopies
retro_mdom_102 , retro_mdom_1741, retro_mdom_286,
Mustela putorius furoENSMPUG000000116394 retrocopies
Mus musculus ENSMUSG000000202671 retrocopy
Nomascus leucogenys ENSNLEG000000124311 retrocopy
Oryctolagus cuniculus ENSOCUG000000066075 retrocopies
Otolemur garnettii ENSOGAG000000088502 retrocopies
Procavia capensis ENSPCAG000000047371 retrocopy
Pongo abelii ENSPPYG000000157472 retrocopies
Pan troglodytes ENSPTRG000000172061 retrocopy
Rattus norvegicus ENSRNOG000000006221 retrocopy
Sarcophilus harrisii ENSSHAG000000058342 retrocopies
Sus scrofa ENSSSCG000000142642 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000279204 retrocopies
Tursiops truncatus ENSTTRG000000086534 retrocopies



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