RetrogeneDB ID:

retro_pcap_9

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:scaffold_176843:3329..3752(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPCAG00000009373
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:NXT2
Ensembl ID:ENSPCAG00000008006
Aliases:None
Description:nuclear transport factor 2-like export factor 2 [Source:HGNC Symbol;Acc:18151]


Retrocopy-Parental alignment summary:






>retro_pcap_9
ATGTCACTGGTGGATTTCAAGACCTATGTGGATCAGGCATGCCGAGCTGCAGAGGAATTTGTCAATATCTACTACACCAC
CATGGACAAGCGGAGGCGTCTGCTGTCGCGGCTTTACATGGGCACAGCCACCCTTGTATGGAATGGAAATGCTGTTTCAG
GACAAGAATCCTTGAGTGAGTTTTTTGAAATGTTGCCTTCCAGTGAGTTTCAAATTAATGTGGTAGACTGCCAGCCAGTT
CATGATGAAGCAACACCAAGCCAGACCACAGTCCTTGTTGTCATCTGTGGGACAGTGAAGTTTGAGGGTAACAAACAGCG
GGACTTCAACCAGAATTTTATCCTGACAGCCCAGGCCTCTGCCAGCAACACAGTGTGGAAGATTGCAAGTGACTGCTTCC
GGTTCCAGGACTGGGCTAGCTAG

ORF - retro_pcap_9 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.45 %
Parental protein coverage: 69.54 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLDFKTYVDQACRAAEEFANIYYETMDKRRRLLIKLYLDKATLIWNGNAVTGVDALANFFEMLPSSEFLVN
.DFKTYVDQACRAAEEF.NIYY.TMDKRRRLL..LY...ATL.WNGNAV.G...L..FFEMLPSSEF..N
RetrocopyVDFKTYVDQACRAAEEFVNIYYTTMDKRRRLLSRLYMGTATLVWNGNAVSGQESLSEFFEMLPSSEFQIN
ParentalMLDCQPVHEHATPSQTTVLVVTSGIVKFDGNKQHYFNQTFLLAAQTNANNTVWKITSDCFRFQDWAT
..DCQPVH..ATPSQTTVLVV..G.VKF.GNKQ..FNQ.F.L.AQ..A.NTVWKI.SDCFRFQDWA.
RetrocopyVVDCQPVHDEATPSQTTVLVVICGTVKFEGNKQRDFNQNFILTAQASASNTVWKIASDCFRFQDWAS

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_9 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 28 parental genes, and 36 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000179991 retrocopy
Bos taurus ENSBTAG000000207391 retrocopy
Canis familiaris ENSCAFG000000285741 retrocopy
Callithrix jacchus ENSCJAG000000073691 retrocopy
Cavia porcellus ENSCPOG000000033101 retrocopy
Dipodomys ordii ENSDORG000000107141 retrocopy
Echinops telfairi ENSETEG000000080022 retrocopies
Felis catus ENSFCAG000000022401 retrocopy
Homo sapiens ENSG000001018881 retrocopy
Gorilla gorilla ENSGGOG000000135931 retrocopy
Loxodonta africana ENSLAFG000000071161 retrocopy
Microcebus murinus ENSMICG000000145113 retrocopies
Myotis lucifugus ENSMLUG000000006313 retrocopies
Macaca mulatta ENSMMUG000000132041 retrocopy
Monodelphis domestica ENSMODG000000213431 retrocopy
Mustela putorius furoENSMPUG000000039731 retrocopy
Mus musculus ENSMUSG000000422711 retrocopy
Oryctolagus cuniculus ENSOCUG000000082611 retrocopy
Procavia capensis ENSPCAG00000008006 1 retrocopy
retro_pcap_9 ,
Pongo abelii ENSPPYG000000206251 retrocopy
Pteropus vampyrus ENSPVAG000000061491 retrocopy
Rattus norvegicus ENSRNOG000000191682 retrocopies
Sorex araneus ENSSARG000000093071 retrocopy
Sus scrofa ENSSSCG000000125811 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000052433 retrocopies
Tarsius syrichta ENSTSYG000000019241 retrocopy
Tursiops truncatus ENSTTRG000000051151 retrocopy
Vicugna pacos ENSVPAG000000073141 retrocopy



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