RetrogeneDB ID:

retro_mdom_814

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:2:70485777..70486419(-)
Located in intron of:ENSMODG00000005732
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000015601
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_814
ATGGCTGCCCAAGGAGAACCCCAAGTGCAGTTCAAACTTGTATTAGTTGGTGATGGAGGTACAGAAAAAACTACATTTGT
AAAATGTCACTTGACTGGTGAATTTGAGAAGAAGTATGTAGCCACCTTGGGTGTTGAGGTCCATCCCCTTGTGTTCCATA
CTAACAGAGGTCCTATTAAATTCAACATATGGGATACAGCTGGCCAAGAGTAATTTAGTGGTCTGAGAGATTACATCCAA
GCTCAGTGTGCCATTATAATGTTTGATGTAACATCAAGAGTTACTTACAAGAATGTACCTAACTGGCATAGAGATCTGGT
ACGAGTATGTGAAAATATGCCTATAGTGTTGTGTGGCAACAAAATGGATATTAAGGACAGAAAAGTCAAGGCAAAATCAA
TTGTCTTCCATAGGAAGAAGAATCTCCAGTACTATGACATTTCAGCCAAAAGTAATTACAACTTTGAGAAGCCCTTCCTT
TGGCTTGCTAGAAAACTTATTGGAGACCCTAATTTGGAGTTTGTTGCCATGCCTGCTCTTGCACCTCCAGAGGTTGTCAT
GGACCCAGCACTGGCAGCACAGTATGAGCAGGACTTACAGATTGCTCAGACAACTGTGCTCCCTGATGAAGATGATAATC
TG

ORF - retro_mdom_814 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.91 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE
MAAQGEPQVQFKLVLVGDGGT.KTTFVK.HLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFN.WDTAGQE
RetrocopyMAAQGEPQVQFKLVLVGDGGTEKTTFVKCHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNIWDTAGQE
ParentalKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVKAKSIVFHR
.F.GLRD..YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN.PIVLCGNK.DIKDRKVKAKSIVFHR
Retrocopy*FSGLRD--YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENMPIVLCGNKMDIKDRKVKAKSIVFHR
ParentalKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAAQYEQDLQIAQTTALP
KKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAAQYEQDLQIAQTT.LP
RetrocopyKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAAQYEQDLQIAQTTVLP
ParentalDEDDDL
DEDD.L
RetrocopyDEDDNL

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_814 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_814 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 29 parental genes, and 152 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000042224 retrocopies
Canis familiaris ENSCAFG000000066706 retrocopies
Callithrix jacchus ENSCJAG000000039278 retrocopies
Dasypus novemcinctus ENSDNOG0000000923012 retrocopies
Equus caballus ENSECAG000000205323 retrocopies
Echinops telfairi ENSETEG0000001187518 retrocopies
Felis catus ENSFCAG000000273756 retrocopies
Homo sapiens ENSG000001323413 retrocopies
Gorilla gorilla ENSGGOG000000153404 retrocopies
Loxodonta africana ENSLAFG000000176731 retrocopy
Microcebus murinus ENSMICG000000006534 retrocopies
Macaca mulatta ENSMMUG000000209272 retrocopies
Monodelphis domestica ENSMODG00000015601 8 retrocopies
Mustela putorius furoENSMPUG000000040446 retrocopies
Mus musculus ENSMUSG000000294304 retrocopies
Nomascus leucogenys ENSNLEG000000082824 retrocopies
Ornithorhynchus anatinus ENSOANG000000064471 retrocopy
Oryctolagus cuniculus ENSOCUG000000265062 retrocopies
Otolemur garnettii ENSOGAG000000250468 retrocopies
Ochotona princeps ENSOPRG000000026297 retrocopies
Pongo abelii ENSPPYG000000051243 retrocopies
Pan troglodytes ENSPTRG000000056364 retrocopies
Pteropus vampyrus ENSPVAG0000001474215 retrocopies
Rattus norvegicus ENSRNOG000000009383 retrocopies
Sarcophilus harrisii ENSSHAG000000180181 retrocopy
Sus scrofa ENSSSCG000000097463 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000039923 retrocopies
Tursiops truncatus ENSTTRG000000127326 retrocopies
Vicugna pacos ENSVPAG000000088803 retrocopies



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