RetrogeneDB ID:

retro_ggor_1460

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:19:54618852..54619626(+)
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:ENSGGOG00000014442
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1460
GCCAAGGAGAAGAAGGTGGCCCCAGTCCCTGCTGTCATGAAGAAGCAGGAGACCATGAAACTGGTGAATCCTCTGTTTGA
GAAAAGGCCTAAGAATCTTGGCACTGGACAGGACATCCAACCCAAAACGGACCTCACGCGTTTTGTCAAACAGTCTCACG
TTGCAGTGGCAAAGAACCATTCTCTCCATGAGTGGCTGAAAGTGCCTCCTGCAATCCGCCAGTGCACCCAGGCCTCAGAC
TCTCACGCAGCCACCCAACTGCTTAAGCTGGCCCAGTACACACCAGAGGTAAAGCAGAAGGAGAAGCAGAGACTGTTGTC
CTGGGCTAAGAAGAAAGCTGTCAGCAAAGGGAACACCCCCACGAAGAGACCACCCATCCTTAAAGCAGGGTTAACACTGC
CACCACCATGTTCACACACAGCAAGAAGGCTCAGCTGATGGTGACTGCGTGTGACATGGATCCCAGCAAGCTGTCTGTCT
TCCTGTCTGCCCTGGATTGTAAGATGGGAGTTCCTGACTGCATTAATGAGGGGAAGGCAAGACTGGGGTACTGAGTCCAT
AGGAAGACCAGCACCGCTGTTACCTTCACGCCAGTTAACTTGGGAGACAAAGGAGCTTTGGCTAAGCTGGTGGAAGCTAC
CAGGACCAATTAAATTAACAGATATGATGAGATCTGTAGTCACTGGGGAGGCAACATCCTGGGTCCAAAATCCCTGGCTT
GCATTGCCAAAGCTGGAAACGGCAAAGGCTAAAGAACTTGCCACCAAACTGGGT

ORF - retro_ggor_1460 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.68 %
Parental protein coverage: 96.65 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAKGKKVAPAPAVVKKQEAKKVVNPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQRAILYKRLKV
AK.KKVAP.PAV.KKQE..K.VNPLFEKRPKN.G.GQDIQPK.DLTRFVK.................LKV
RetrocopyAKEKKVAPVPAVMKKQETMKLVNPLFEKRPKNLGTGQDIQPKTDLTRFVK-QSHVAVAKNHSL-HEWLKV
ParentalPPAINQFTQALDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGDVPTKRPPVLRAG-VNTVTT
PPAI.Q.TQA.D...ATQLLKLA..Y.PE.KQ..KQRLL..A.KKA..KG..PTKRPP.L.AG.VNT.TT
RetrocopyPPAIRQCTQASDSHAATQLLKLA-QYTPEVKQKEKQRLLSWAKKKAVSKGNTPTKRPPILKAG<VNTATT
ParentalL-VENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGRLVHRKTCTTVAFTQVNSEDKGA
.....KKAQL.V.A.D.DP..L.VFL.AL..KMGVP.CI..GKARLG..VHRKT.T.V.FT.VN..DKGA
RetrocopyMFTHSKKAQLMVTACDMDPSKLSVFLSALDCKMGVPDCINEGKARLGY*VHRKTSTAVTFTPVNLGDKGA
ParentalLAKLVEAIRTNYNDRYDEIRRHWGGNILGPKSVARIA-KLEKAKAKELATKLG
LAKLVEA.RTN...RYDEI..HWGGNILGPKS.A.IA.KLE.AKAKELATKLG
RetrocopyLAKLVEATRTN*INRYDEICSHWGGNILGPKSLACIA>KLETAKAKELATKLG

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_prefrontal_cortex 0 .00 RPM 178 .34 RPM
SRP007412_cerebellum 0 .00 RPM 170 .91 RPM
SRP007412_heart 0 .00 RPM 128 .24 RPM
SRP007412_kidney 0 .00 RPM 367 .06 RPM
SRP007412_liver 0 .00 RPM 347 .77 RPM
SRP007412_testis 0 .00 RPM 247 .50 RPM
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_1460 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1460 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2016

Parental genes homology:
Parental genes homology involve 30 parental genes, and 415 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001170829 retrocopies
Bos taurus ENSBTAG000000115595 retrocopies
Canis familiaris ENSCAFG0000001768036 retrocopies
Callithrix jacchus ENSCJAG000000148273 retrocopies
Cavia porcellus ENSCPOG000000013244 retrocopies
Dasypus novemcinctus ENSDNOG000000244248 retrocopies
Dipodomys ordii ENSDORG000000064713 retrocopies
Equus caballus ENSECAG000000085482 retrocopies
Erinaceus europaeus ENSEEUG000000002032 retrocopies
Felis catus ENSFCAG0000000582520 retrocopies
Homo sapiens ENSG0000014830321 retrocopies
Gorilla gorilla ENSGGOG00000014442 48 retrocopies
Loxodonta africana ENSLAFG000000064362 retrocopies
Macropus eugenii ENSMEUG0000001455016 retrocopies
Myotis lucifugus ENSMLUG0000000466610 retrocopies
Macaca mulatta ENSMMUG000000223419 retrocopies
Monodelphis domestica ENSMODG000000127543 retrocopies
Mustela putorius furoENSMPUG0000001239813 retrocopies
Mus musculus ENSMUSG0000006264710 retrocopies
Nomascus leucogenys ENSNLEG0000001306822 retrocopies
Otolemur garnettii ENSOGAG0000001402716 retrocopies
Ochotona princeps ENSOPRG000000057264 retrocopies
Pongo abelii ENSPPYG0000001973052 retrocopies
Pteropus vampyrus ENSPVAG0000001704511 retrocopies
Rattus norvegicus ENSRNOG0000004909710 retrocopies
Sarcophilus harrisii ENSSHAG000000043374 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000036713 retrocopies
Tupaia belangeri ENSTBEG0000000859526 retrocopies
Tarsius syrichta ENSTSYG0000000546720 retrocopies
Tursiops truncatus ENSTTRG000000076453 retrocopies



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