RetrogeneDB ID:

retro_mdom_292

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:5:76287662..76288148(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000025100
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000025764
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_292
GAAAGAAAAATGGCTGCAGAGGGGACCAGGTCTGTGCTGTTCGTCTGCCTGGGTAATATTTGTCGCTCACCTATAGCAGA
AGCAGTTTTTAGAAAACTTGTAGCTGATCAAAATATTTCAGATAAGTGGAGCATAGACAGTGCAGCAACATCTACATATG
AAATAGGAAACCCTCCTGATTATCGAGGGCAGAATTGCATGAAGAAACATGGCATTACCATGAATCATATTGCCAGGCAG
ATTACCAAAGATGATTTCCTCACCTTTGATTATATACTCTGTATGGATGACAGCAATCTGAGAGATTTGAATAGGAAGGT
TAATCAAGTTAAAAACAGCAAAGCTAAAGTTGAACTTTTTGGAAGCTATGATCCACAAAAACAACTTATTATTGAAGATC
CTTATTATGGAAATGACTCTGACTTTGAGACTGTGTATGAACAATGTATGAGGTGCTGCAAAACATTTTTGGAAAAAGCT
CATTAA

ORF - retro_mdom_292 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.1 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAAEGTRSVLFVCLGNICRSPIAEAVFRKLVADQNISDKWSIDSAATSTYEIGNPPDYRGQNCMKKHGIT
MAAEGTRSVLFVCLGNICRSPIAEAVFRKLVADQNISDKWSIDSAATSTYEIGNPPDYRGQNCMKKHGIT
RetrocopyMAAEGTRSVLFVCLGNICRSPIAEAVFRKLVADQNISDKWSIDSAATSTYEIGNPPDYRGQNCMKKHGIT
ParentalMNHIARQITKDDFLTFDYILCMDDSNLRDLNRKVNQVKNSKAKIELLGSYDPQKQLIIEDPYYGNDSDFE
MNHIARQITKDDFLTFDYILCMDDSNLRDLNRKVNQVKNSKAK.EL.GSYDPQKQLIIEDPYYGNDSDFE
RetrocopyMNHIARQITKDDFLTFDYILCMDDSNLRDLNRKVNQVKNSKAKVELFGSYDPQKQLIIEDPYYGNDSDFE
ParentalTVYEQCMRCCKAFLEKAH
TVYEQCMRCCK.FLEKAH
RetrocopyTVYEQCMRCCKTFLEKAH

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 30 .99 RPM
SRP007412_cerebellum 0 .00 RPM 14 .69 RPM
SRP007412_heart 0 .00 RPM 23 .72 RPM
SRP007412_kidney 0 .00 RPM 13 .17 RPM
SRP007412_liver 0 .00 RPM 17 .62 RPM
SRP007412_testis 0 .00 RPM 23 .77 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_292 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_292 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 33 parental genes, and 276 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095542 retrocopies
Bos taurus ENSBTAG000000204984 retrocopies
Canis familiaris ENSCAFG000000300971 retrocopy
Choloepus hoffmanni ENSCHOG0000000389194 retrocopies
retro_chof_1010, retro_chof_1053, retro_chof_1073, retro_chof_1099, retro_chof_1100, retro_chof_1144, retro_chof_119, retro_chof_1190, retro_chof_121, retro_chof_1259, retro_chof_1265, retro_chof_1275, retro_chof_1330, retro_chof_1351, retro_chof_1359, retro_chof_1389, retro_chof_1390, retro_chof_1412, retro_chof_142, retro_chof_1444, retro_chof_1447, retro_chof_1508, retro_chof_1567, retro_chof_1570, retro_chof_1593, retro_chof_1632, retro_chof_1633, retro_chof_1658, retro_chof_1684, retro_chof_169, retro_chof_1698, retro_chof_17, retro_chof_1716, retro_chof_174, retro_chof_1799, retro_chof_1802, retro_chof_1815, retro_chof_1833, retro_chof_1838, retro_chof_1864, retro_chof_1941, retro_chof_1956, retro_chof_1993, retro_chof_2012, retro_chof_2041, retro_chof_2044, retro_chof_2091, retro_chof_2165, retro_chof_2192, retro_chof_2208, retro_chof_2228, retro_chof_2259, retro_chof_2344, retro_chof_2378, retro_chof_2384, retro_chof_2443, retro_chof_245, retro_chof_2478, retro_chof_2512, retro_chof_2532, retro_chof_2542, retro_chof_2551, retro_chof_261, retro_chof_262, retro_chof_2622, retro_chof_2636, retro_chof_2643, retro_chof_2653, retro_chof_2654, retro_chof_2678, retro_chof_2701, retro_chof_2705, retro_chof_2707, retro_chof_319, retro_chof_377, retro_chof_460, retro_chof_598, retro_chof_603, retro_chof_649, retro_chof_650, retro_chof_66, retro_chof_727, retro_chof_80, retro_chof_803, retro_chof_83, retro_chof_842, retro_chof_934, retro_chof_939, retro_chof_958, retro_chof_962, retro_chof_986, retro_chof_991, retro_chof_994, retro_chof_999,
Callithrix jacchus ENSCJAG000000116635 retrocopies
Cavia porcellus ENSCPOG000000028624 retrocopies
Dasypus novemcinctus ENSDNOG0000001738232 retrocopies
Dipodomys ordii ENSDORG000000164696 retrocopies
Equus caballus ENSECAG000000100791 retrocopy
Erinaceus europaeus ENSEEUG000000154681 retrocopy
Echinops telfairi ENSETEG0000001376418 retrocopies
Felis catus ENSFCAG000000267171 retrocopy
Homo sapiens ENSG000001437275 retrocopies
Gorilla gorilla ENSGGOG000000155775 retrocopies
Loxodonta africana ENSLAFG000000029664 retrocopies
Macropus eugenii ENSMEUG000000107333 retrocopies
Myotis lucifugus ENSMLUG000000177074 retrocopies
Macaca mulatta ENSMMUG000000170972 retrocopies
Monodelphis domestica ENSMODG00000025764 3 retrocopies
retro_mdom_236, retro_mdom_292 , retro_mdom_364,
Mustela putorius furoENSMPUG000000127872 retrocopies
Mus musculus ENSMUSG0000004457311 retrocopies
Nomascus leucogenys ENSNLEG000000083596 retrocopies
Oryctolagus cuniculus ENSOCUG0000001287611 retrocopies
Otolemur garnettii ENSOGAG000000003015 retrocopies
Procavia capensis ENSPCAG000000120541 retrocopy
Pongo abelii ENSPPYG000000126946 retrocopies
Pan troglodytes ENSPTRG000000116055 retrocopies
Pteropus vampyrus ENSPVAG000000133875 retrocopies
Rattus norvegicus ENSRNOG0000000526011 retrocopies
Sarcophilus harrisii ENSSHAG000000052164 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000025203 retrocopies
Tarsius syrichta ENSTSYG000000048647 retrocopies
Tursiops truncatus ENSTTRG000000107704 retrocopies



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