RetrogeneDB ID:

retro_dord_55

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_1444:13883..14357(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Acp1
Ensembl ID:ENSDORG00000016469
Aliases:None
Description:acid phosphatase 1, soluble [Source:MGI Symbol;Acc:MGI:87881]


Retrocopy-Parental alignment summary:






>retro_dord_55
ATGGCGGAACGCAGTCACAAGTCCGTGCTAGTCGTGTGTCTGGGTAACATTTGCCGGTCACCCATTGCAGAAGCAGTTTT
CAGAAAACTTGTAGCTGACCAAAATGTTTCAGGTGATTGGAGGATGGACAGGGTGGCCACATCCACATATGAAGTAGGAA
ATCCCCCTGACTATGGAGGGCAGAGCTGCATGAGGAAGCATGGCATCCCCATGAGTCACACTGCCCGGCAGGTTACCAAA
GAAGACTTTGCTACATTCGATTACATATTATGTATGGATGAAAGCAATCTGAGAGATTTGAATAGAAAAAGTAATCAAGT
TAAAAACTGCCAAACTAAAATCAAAGTGCTTGGGAGCTATGATCCACACAAACAACTCATTATTGAAGATCCCTATTATG
GAAACGACTCTGACTTCGAGCTGGTGTACTAGCAGTGTCTCCGGTGCTGCAGGGCCTTCCTAGAGAAGGCCCAC

ORF - retro_dord_55 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.28 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAERSHKSVLFVCLGNICRSPIAEAVFRKLVADQNVSDDWAIDSGAVSDWNVGRAPDPRAMSCLRNHDIS
MAERSHKSVL.VCLGNICRSPIAEAVFRKLVADQNVS.DW..D..A.S...VG..PD....SC.R.H.I.
RetrocopyMAERSHKSVLVVCLGNICRSPIAEAVFRKLVADQNVSGDWRMDRVATSTYEVGNPPDYGGQSCMRKHGIP
ParentalTAHKARQVTKEDFATFDYILCMDESNLRDLNRKSNQVKNCKAKIELLGSYDPHKQLIIEDPYYGNDSDFE
..H.ARQVTKEDFATFDYILCMDESNLRDLNRKSNQVKNC..KI..LGSYDPHKQLIIEDPYYGNDSDFE
RetrocopyMSHTARQVTKEDFATFDYILCMDESNLRDLNRKSNQVKNCQTKIKVLGSYDPHKQLIIEDPYYGNDSDFE
ParentalLVYQQCLRCCRAFLEKAH
LVY.QCLRCCRAFLEKAH
RetrocopyLVY*QCLRCCRAFLEKAH

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_55 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 20 parental genes, and 215 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095542 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,
Cavia porcellus ENSCPOG000000028624 retrocopies
Dasypus novemcinctus ENSDNOG0000001738232 retrocopies
Dipodomys ordii ENSDORG00000016469 6 retrocopies
Echinops telfairi ENSETEG0000001376418 retrocopies
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 ENSMODG000000257643 retrocopies
Nomascus leucogenys ENSNLEG000000083596 retrocopies
Otolemur garnettii ENSOGAG000000003015 retrocopies
Pan troglodytes ENSPTRG000000116055 retrocopies
Pteropus vampyrus ENSPVAG000000133875 retrocopies
Tarsius syrichta ENSTSYG000000048647 retrocopies
Tursiops truncatus ENSTTRG000000107704 retrocopies



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