RetrogeneDB ID:

retro_mdom_1189

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:412291312..412291606(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AP1S2
Ensembl ID:ENSMODG00000017197
Aliases:None
Description:adaptor-related protein complex 1, sigma 2 subunit [Source:HGNC Symbol;Acc:560]


Retrocopy-Parental alignment summary:






>retro_mdom_1189
AGACCTCAAAGCCTATATTTCTGCTGTGCCTTTGAGAGCCAATTCAATGTGTTCATCACGCCCGAAATGATCCAGCGATA
TGTGGAGCTCCTGGACAGATATTTTGGCAGTATTCGTGAACTTGATGTCATCTTCAATTTTGAGAAGACCTATGTTATCT
ATGATGGATTTCTGATGGGTGGCAATGTCCAGGATACCTCAAAGAAAAGTGTGCTAAAGGCCATAGAATGAGCATATCTA
CTACAGGAGGAAGATGAGTCACCTCAAAGTGTCCTGGAGATGATGGGTTTAACA

ORF - retro_mdom_1189 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.41 %
Parental protein coverage: 62.03 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRYASLYFCCAIEDQDNELITLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEVQETSKKN
R..SLYFCCA.E.Q.N..IT.E.I.RYVELLD.YFGS..ELD.IFNFEK.Y.I.D.FL.GG.VQ.TSKK.
RetrocopyRPQSLYFCCAFESQFNVFITPEMIQRYVELLDRYFGSIRELDVIFNFEKTYVIYDGFLMGGNVQDTSKKS
ParentalVLKAIEQADLLQEEAETPRSVLEEIGLT
VLKAIE.A.LLQEE.E.P.SVLE..GLT
RetrocopyVLKAIE*AYLLQEEDESPQSVLEMMGLT

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_1189 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1189 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 18 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000204201 retrocopy
Callithrix jacchus ENSCJAG000000043931 retrocopy
Dasypus novemcinctus ENSDNOG000000138881 retrocopy
Homo sapiens ENSG000001822871 retrocopy
Macaca mulatta ENSMMUG000000140551 retrocopy
Monodelphis domestica ENSMODG00000017197 7 retrocopies
Monodelphis domestica ENSMODG000000175791 retrocopy
Monodelphis domestica ENSMODG000000211981 retrocopy
Otolemur garnettii ENSOGAG000000113423 retrocopies
Procavia capensis ENSPCAG000000007331 retrocopy
Pteropus vampyrus ENSPVAG000000102181 retrocopy
Sorex araneus ENSSARG000000001171 retrocopy
Sarcophilus harrisii ENSSHAG000000131192 retrocopies
Sus scrofa ENSSSCG000000121421 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000085171 retrocopy
Tupaia belangeri ENSTBEG000000088342 retrocopies
Tarsius syrichta ENSTSYG000000052902 retrocopies
Vicugna pacos ENSVPAG000000076421 retrocopy



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