RetrogeneDB ID:

retro_mdom_1619

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:6:196330716..196331298(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SLMO2
Ensembl ID:ENSMODG00000016608
Aliases:None
Description:slowmo homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:15892]


Retrocopy-Parental alignment summary:






>retro_mdom_1619
ATGAAAATTGGGATGTCAGAGCACGCTTTTGACCACCTTTGGGAAACAGTTACAACAGCTGCTATGCAGAAATATCCAAA
TCCTATGAATCCGAGTGTAGTTGGAGTTGATGTATTAGTCAGACATCCAGATCCCACCGGAAAATTGCATAGCCGTAGAC
TTCTTAGCACAGAGTGGGGAATGCCTTCTATTGTAAAATCGCTTATCAGCGTAGCAAGAATTAAACCGTATGTACAGGAA
CATTCTGTAGTTGATCCTGTAGAGAAAACAATGGACTTTAAATCCACTAATATTTCATTTACAAATTTGGTTTCAGTAGA
TGAGAGACATATATATAAACCACATCCTCAAGGACCAGGAAAGACCATTTTGACTCAAGAAGCCATTATCACTGTGAAAG
GAGTAAGCCTTAGTAGTTATCCAGAAGGACTGATGGAAGGTACAATATTATCTAATGCTAATAAAGGCTGTGAAGCAATG
GAGTGGGTAATTAACAAATGAAATGCTGAGACTGAAGCATGGACAGCTTCAGCAAGAGGGAGCATGAGGACACCAATGGC
AGTGGCAGCATTTGTAGAGGAA

ORF - retro_mdom_1619 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.11 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKIWTSEHVFDHPWETVTTAAMQKYPNPMNPSVVGVDVLARHIDPTGKLHSHRLLSTEWGMPSIVKSLIG
MKI..SEH.FDH.WETVTTAAMQKYPNPMNPSVVGVDVL.RH.DPTGKLHS.RLLSTEWGMPSIVKSLI.
RetrocopyMKIGMSEHAFDHLWETVTTAAMQKYPNPMNPSVVGVDVLVRHPDPTGKLHSRRLLSTEWGMPSIVKSLIS
ParentalAARTKTYVQEHSVVDPVEKTMELKSTNISFTNLVSVDERLIYKPHPQEPGKTILTQEAIITVKGVSLSSY
.AR.K.YVQEHSVVDPVEKTM..KSTNISFTNLVSVDER.IYKPHPQ.PGKTILTQEAIITVKGVSLSSY
RetrocopyVARIKPYVQEHSVVDPVEKTMDFKSTNISFTNLVSVDERHIYKPHPQGPGKTILTQEAIITVKGVSLSSY
ParentalLEGLMESTISSNANKGREAMEWVINKLNAEIEELTASARGSMRTPMAAAAFVEK
.EGLME.TI.SNANKG.EAMEWVINK.NAE.E..TASARGSMRTPMA.AAFVE.
RetrocopyPEGLMEGTILSNANKGCEAMEWVINK*NAETEAWTASARGSMRTPMAVAAFVEE

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 37 .19 RPM
SRP007412_cerebellum 0 .00 RPM 38 .20 RPM
SRP007412_heart 0 .00 RPM 189 .18 RPM
SRP007412_kidney 0 .00 RPM 105 .35 RPM
SRP007412_liver 0 .00 RPM 186 .79 RPM
SRP007412_testis 0 .00 RPM 146 .15 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1619 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1619 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 32 parental genes, and 119 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000044023 retrocopies
Canis familiaris ENSCAFG000000122201 retrocopy
Callithrix jacchus ENSCJAG000000189054 retrocopies
Cavia porcellus ENSCPOG000000123974 retrocopies
Dasypus novemcinctus ENSDNOG000000145483 retrocopies
Equus caballus ENSECAG000000005131 retrocopy
Erinaceus europaeus ENSEEUG000000036974 retrocopies
Echinops telfairi ENSETEG000000096513 retrocopies
Felis catus ENSFCAG000000314311 retrocopy
Homo sapiens ENSG000001011666 retrocopies
Gorilla gorilla ENSGGOG000000048035 retrocopies
Loxodonta africana ENSLAFG000000003001 retrocopy
Microcebus murinus ENSMICG0000001490212 retrocopies
Myotis lucifugus ENSMLUG000000149072 retrocopies
Macaca mulatta ENSMMUG000000075604 retrocopies
Monodelphis domestica ENSMODG00000016608 5 retrocopies
Mustela putorius furoENSMPUG000000070751 retrocopy
Mus musculus ENSMUSG000000162572 retrocopies
Nomascus leucogenys ENSNLEG000000095793 retrocopies
Oryctolagus cuniculus ENSOCUG000000056218 retrocopies
Otolemur garnettii ENSOGAG0000001338210 retrocopies
Ochotona princeps ENSOPRG000000025508 retrocopies
Pongo abelii ENSPPYG000000111827 retrocopies
Pan troglodytes ENSPTRG000000136825 retrocopies
Pteropus vampyrus ENSPVAG000000052262 retrocopies
Rattus norvegicus ENSRNOG000000466442 retrocopies
Sorex araneus ENSSARG000000046712 retrocopies
Sus scrofa ENSSSCG000000075253 retrocopies
Tupaia belangeri ENSTBEG000000004931 retrocopy
Tarsius syrichta ENSTSYG000000125332 retrocopies
Tursiops truncatus ENSTTRG000000084172 retrocopies
Vicugna pacos ENSVPAG000000010442 retrocopies



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