RetrogeneDB ID:

retro_dord_209

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_5669:189586..190109(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDORG00000002250
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dord_209
GGCAGCAAGAAAGGAGCCAAGATAAAAGTGGTTGACCCATTTTCTTAGGAAGATTGGTACGAGTGTAAACACTAGCCACG
TTCAATATAAGAAATGTTGGGAAAACATTAGTCACAAGGACTCAAGGAACCCAAATCACTTCTGATGACCTCAAGGGCTG
GATATTTGAAGTGAGCCTCAGTGACCTGCAGAGTGATGAAGTTACATTTAGACAATTCAAGATAATTCCTGAGGATGTTC
AGGGCAAGAACTGCCTGACCAACTTCTATGGCATAGATCTCATCTGAGGTACAGTGTGCTCCATACTCCAAAAGTGGCAG
ATCACAATGGAAGCTCATGTTGATGTCAAGACTGCAGGTGGTTATTTGCTTCATCTGTTCTGTGATGGTTTTACCAAAAA
ATGCAACAATCAGATCTCAAGACCTCCTGTGCTCAGCACCAACAGGCCTGCCAAACCTGGAAGAAAATGATAGAATGCAT
GACCAGAGAAACGCAAATGACTTGAAAAAAATAGTTAATGAAT

ORF - retro_dord_209 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.8 %
Parental protein coverage: 66.54 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalGGKKGAKKKVVDPFSKKDWYDVK-APAMFNIRNIGKTLVTRTQGTKIASDGLKGRVFEVSLADLQNDEVA
G.KKGAK.KVVDPFS..DWY..K...A.FNIRN.GKTLVTRTQGT.I.SD.LKG..FEVSL.DLQ.DEV.
RetrocopyGSKKGAKIKVVDPFS*EDWYECK<TLATFNIRNVGKTLVTRTQGTQITSDDLKGWIFEVSLSDLQSDEVT
ParentalFRKFKLITEDVQGKNCLTNFHGMDLTRDKMCSMVKKWQTMIEAHVDVKTTDGYLLRLFCVGFTKKRNNQI
FR.FK.I.EDVQGKNCLTNF.G.DL.....CS...KWQ...EAHVDVKT..GYLL.LFC.GFTKK.NNQI
RetrocopyFRQFKIIPEDVQGKNCLTNFYGIDLI*GTVCSILQKWQITMEAHVDVKTAGGYLLHLFCDGFTKKCNNQI
ParentalR-KTSYAQHQQVRQIRKKMMEIMTREVQTNDLKEVVN
..KTS.AQHQQ..Q..KKM.E.MTRE.Q....K...N
RetrocopyS<KTSCAQHQQACQTWKKMIECMTRETQMT*KK*LMN

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_209 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 21 parental genes, and 187 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000099083 retrocopies
Canis familiaris ENSCAFG000000079907 retrocopies
Callithrix jacchus ENSCJAG000000022687 retrocopies
Cavia porcellus ENSCPOG000000155699 retrocopies
Dipodomys ordii ENSDORG00000002250 10 retrocopies
Equus caballus ENSECAG000000095736 retrocopies
Erinaceus europaeus ENSEEUG000000049944 retrocopies
Felis catus ENSFCAG000000312885 retrocopies
Gorilla gorilla ENSGGOG000000031822 retrocopies
Loxodonta africana ENSLAFG000000176603 retrocopies
Myotis lucifugus ENSMLUG000000147888 retrocopies
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mustela putorius furoENSMPUG000000071398 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Oryctolagus cuniculus ENSOCUG000000070111 retrocopy
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sarcophilus harrisii ENSSHAG000000150882 retrocopies
Sus scrofa ENSSSCG000000090193 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000242031 retrocopy
Tupaia belangeri ENSTBEG0000000296398 retrocopies
retro_tbel_1005, retro_tbel_11, retro_tbel_1119, retro_tbel_116, retro_tbel_1232, retro_tbel_1318, retro_tbel_133, retro_tbel_137, retro_tbel_1375, retro_tbel_1378, retro_tbel_1383, retro_tbel_1417, retro_tbel_1421, retro_tbel_1509, retro_tbel_1686, retro_tbel_1698, retro_tbel_172, retro_tbel_1720, retro_tbel_1721, retro_tbel_1744, retro_tbel_1814, retro_tbel_1829, retro_tbel_1856, retro_tbel_1896, retro_tbel_1948, retro_tbel_1960, retro_tbel_1999, retro_tbel_206, retro_tbel_2200, retro_tbel_2306, retro_tbel_2463, retro_tbel_2483, retro_tbel_2510, retro_tbel_2626, retro_tbel_2654, retro_tbel_2657, retro_tbel_2745, retro_tbel_2759, retro_tbel_2760, retro_tbel_2764, retro_tbel_281, retro_tbel_2857, retro_tbel_2957, retro_tbel_2959, retro_tbel_3114, retro_tbel_317, retro_tbel_3212, retro_tbel_3255, retro_tbel_3259, retro_tbel_3299, retro_tbel_336, retro_tbel_3372, retro_tbel_3416, retro_tbel_3471, retro_tbel_3486, retro_tbel_3513, retro_tbel_3558, retro_tbel_3613, retro_tbel_3631, retro_tbel_3655, retro_tbel_3705, retro_tbel_373, retro_tbel_375, retro_tbel_3755, retro_tbel_3786, retro_tbel_3815, retro_tbel_3823, retro_tbel_3832, retro_tbel_386, retro_tbel_3882, retro_tbel_39, retro_tbel_3947, retro_tbel_3966, retro_tbel_399, retro_tbel_4116, retro_tbel_4144, retro_tbel_4147, retro_tbel_4211, retro_tbel_4220, retro_tbel_423, retro_tbel_4294, retro_tbel_4304, retro_tbel_4347, retro_tbel_438, retro_tbel_4428, retro_tbel_445, retro_tbel_4579, retro_tbel_598, retro_tbel_619, retro_tbel_623, retro_tbel_671, retro_tbel_859, retro_tbel_90, retro_tbel_912, retro_tbel_92, retro_tbel_928, retro_tbel_956, retro_tbel_973,



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