RetrogeneDB ID:

retro_pcap_189

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:scaffold_143782:352..832(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5G2
Ensembl ID:ENSPCAG00000008679
Aliases:None
Description:ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C2 (subunit 9) [Source:HGNC Symbol;Acc:842]


Retrocopy-Parental alignment summary:






>retro_pcap_189
CTCCGTCTTTTCTGCACTTGGAGCAGCTCTCCTGCCATATCCCCTCATCCCTTGAAAATGTATATCTGCACCAAGTTCAT
TTCTACCCCCTCCTTGGTCAGGAGCACCTCTCAGTTACTGAGCCGACCATTGTCTGCAGTGATGCTAAGACAACCCGAGA
CACTGACAGATGAGAGCCTCAGCAGCTTGACAGCCCCACGTTCCTTGACCTCATTTATCCCCAGTTGCAGCTTCCAAACC
AGTGCCATCTCACGGGACATTGATACAGCCGCAAAGTTCATTGATGCTGGAGCTGCCACAGTTGGAGTGTCTGGCCCTGG
AGCTGGGATTGGGACAGTGTTTGGGAGCCTCATCATTGGTTATGCCAGGAACCCTTCTCTGAAGCAGCAGCTCTTCTCCT
ACGCTATTCTGGGCTTTGCCCTCTCAGAGGCCATGGGGCGTTTTTGCCTGATGGTGGCCTTTCTCATCCTCTTCACCATG

ORF - retro_pcap_189 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.38 %
Parental protein coverage: 81.63 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLRLLCTWSSSPATSPHPLKMYTCTKFISTPSLVRSTSQLLSRPLSAVMLRQPQTLTDESLSSLTAPRSLT
LRL.CTWSSSPA.SPHPLKMY.CTKFISTPSLVRSTSQLLSRPLSAVMLRQP.TLTDESLSSLTAPRSLT
RetrocopyLRLFCTWSSSPAISPHPLKMYICTKFISTPSLVRSTSQLLSRPLSAVMLRQPETLTDESLSSLTAPRSLT
ParentalSFIPSCSFQTSAISRDIDTAAKFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFA
SFIPSCSFQTSAISRDIDTAAKFI.AGAATVGV.G.GAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFA
RetrocopySFIPSCSFQTSAISRDIDTAAKFIDAGAATVGVSGPGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFA
ParentalLSEAMGLFCLMVAFLILFAM
LSEAMG.FCLMVAFLILF.M
RetrocopyLSEAMGRFCLMVAFLILFTM

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






Procavia capensis was not studied using RNA-Seq expression data.
Procavia capensis was not studied using ChIP-Seq data.
Procavia capensis was not studied using EST data.
Procavia capensis was not studied using FANTOM5 data.
retro_pcap_189 was not experimentally validated.

Retrocopy orthology:
Procavia capensis 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 31 parental genes, and 253 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000061918 retrocopies
Bos taurus ENSBTAG0000000573511 retrocopies
Cavia porcellus ENSCPOG000000228893 retrocopies
Dipodomys ordii ENSDORG000000029551 retrocopy
Equus caballus ENSECAG000000230212 retrocopies
Erinaceus europaeus ENSEEUG000000030511 retrocopy
Echinops telfairi ENSETEG0000000596840 retrocopies
Felis catus ENSFCAG0000000150213 retrocopies
Homo sapiens ENSG000001353906 retrocopies
Gorilla gorilla ENSGGOG000000156415 retrocopies
Macropus eugenii ENSMEUG0000000466167 retrocopies
Microcebus murinus ENSMICG000000116864 retrocopies
Myotis lucifugus ENSMLUG0000001186013 retrocopies
Macaca mulatta ENSMMUG000000162413 retrocopies
Mustela putorius furoENSMPUG000000059276 retrocopies
Mus musculus ENSMUSG000000626831 retrocopy
Nomascus leucogenys ENSNLEG000000176864 retrocopies
Oryctolagus cuniculus ENSOCUG000000089334 retrocopies
Otolemur garnettii ENSOGAG000000036114 retrocopies
Ochotona princeps ENSOPRG000000029781 retrocopy
Procavia capensis ENSPCAG00000008679 3 retrocopies
retro_pcap_140, retro_pcap_189 , retro_pcap_212,
Pongo abelii ENSPPYG000000045867 retrocopies
Pan troglodytes ENSPTRG000000050236 retrocopies
Pteropus vampyrus ENSPVAG000000122911 retrocopy
Rattus norvegicus ENSRNOG000000153206 retrocopies
Sorex araneus ENSSARG000000010277 retrocopies
Sarcophilus harrisii ENSSHAG000000057264 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000082173 retrocopies
Tupaia belangeri ENSTBEG000000057484 retrocopies
Tarsius syrichta ENSTSYG000000034334 retrocopies
Vicugna pacos ENSVPAG000000004091 retrocopy



Copyright © RetrogeneDB 2014-2017