RetrogeneDB ID:

retro_ggor_460

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:1:177546917..177547612(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM204A
Ensembl ID:ENSGGOG00000010566
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_460
ATGTGGAGTGGGCTGCTACCTCCTGGCCTAAATGAAAGTGATGTTGAGTGAAACTCTGAAGATGAAGCTACATTGGAGAA
CTCTGGACTTAACTTACAAGAAGATAAAGAGGATGGGAGCATCAGAAAAACAGAAATCATAGATTCTCGATAGATGAACC
CAAAACTGAAACAGAGTCGAATGTAAATGCCTATGAAGAGTGTCCTTCTGGAATTCCCCTAGATATGTAGAATATATTTT
AAGAATTGCATAAAAAACATTCTGAACAGAAAAACGCAACCTCAAGATTCAGAGGGAAAAAAAGAAAACGCTCCAGAAAA
GATAAATTGAGGAATGAAAAAGAATCTCACAATGAACAGTTCTCAAATGAAACCCAGTGGAAGGAGCTTACTCAGTATTT
TGGAGTCAGTGATTGATTTGAACCCCATGTTAAAAGGAAAAATGTTGAGAAATCAGGCCTTGAAGAGAGGATAGACCAGG
CTGTGGAGGAGTGGAATATTGAGAAGACTGAGGAACTCAGAAACCAGCTAGCTACTCGAGAGCTTGGTGTAAAAATTGCC
AAAGCAGTTGCCTGCCACAACTTTGTAAAAGCCAAAAAGGAGGTTGAAAATTCACAGGCTGCCCCCAAAAAGAAGAAACT
TGCATGGGAGTTTGAAGCAAAGAAGAGATGGGAAACCCAAAGTGACATGGGATAT

ORF - retro_ggor_460 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.84 %
Parental protein coverage: 99.57 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMWSGLLPPGLNESDAESNSEDEATLENSGVNLQEDKEDESIRETEIVD-FSTDEPKTETESNVNAYEECP
MWSGLLPPGLNESD.E.NSEDEATLENSG.NLQEDKED.SIR.TEI.D.FS.DEPKTETESNVNAYEECP
RetrocopyMWSGLLPPGLNESDVE*NSEDEATLENSGLNLQEDKEDGSIRKTEIID<FSIDEPKTETESNVNAYEECP
ParentalSGIPIDMWNKFQELHKKHSEQKSTTSRFRGKRRKRSRKDKLKKEKEFHSEPSSNETQWKELTQYFGVNDR
SGIP.DM.N.F.ELHKKHSEQK..TSRFRGK.RKRSRKDKL..EKE.H.E..SNETQWKELTQYFGV.D.
RetrocopySGIPLDM*NIF*ELHKKHSEQKNATSRFRGKKRKRSRKDKLRNEKESHNEQFSNETQWKELTQYFGVSD*
ParentalFDPPVKRKKVEKSGLEKRIDQAVEEWNIEKAEELSNQLATRELGVKIAKAVACHNFVKAKKEVENSQAAR
F.P.VKRK.VEKSGLE.RIDQAVEEWNIEK.EEL.NQLATRELGVKIAKAVACHNFVKAKKEVENSQAA.
RetrocopyFEPHVKRKNVEKSGLEERIDQAVEEWNIEKTEELRNQLATRELGVKIAKAVACHNFVKAKKEVENSQAAP
ParentalKKKKLAWGFEAKKRWETKSNMGY
KKKKLAW.FEAKKRWET.S.MGY
RetrocopyKKKKLAWEFEAKKRWETQSDMGY

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






RNA-Seq - click to see more details

(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 .05 RPM 20 .91 RPM
SRP007412_cerebellum 0 .00 RPM 16 .59 RPM
SRP007412_heart 0 .03 RPM 7 .41 RPM
SRP007412_kidney 0 .08 RPM 22 .65 RPM
SRP007412_liver 0 .05 RPM 14 .90 RPM
SRP007412_testis 0 .00 RPM 56 .36 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_460 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_460 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_491
Pan troglodytes retro_ptro_370
Parental genes homology:
Parental genes homology involve 24 parental genes, and 47 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG0000001019912 retrocopies
retro_chof_1296, retro_chof_1713, retro_chof_1977, retro_chof_2137, retro_chof_2367, retro_chof_2436, retro_chof_2558, retro_chof_2685, retro_chof_590, retro_chof_639, retro_chof_698, retro_chof_832,
Callithrix jacchus ENSCJAG000000195651 retrocopy
retro_cjac_3814,
Cavia porcellus ENSCPOG000000027471 retrocopy
retro_cpor_1356,
Dasypus novemcinctus ENSDNOG000000013832 retrocopies
retro_dnov_138, retro_dnov_167,
Dipodomys ordii ENSDORG000000020741 retrocopy
retro_dord_413,
Echinops telfairi ENSETEG000000038552 retrocopies
retro_etel_1021, retro_etel_944,
Homo sapiens ENSG000001656691 retrocopy
retro_hsap_491,
Gorilla gorilla ENSGGOG00000010566 1 retrocopy
retro_ggor_460 ,
Loxodonta africana ENSLAFG000000167744 retrocopies
retro_lafr_1079, retro_lafr_332, retro_lafr_369, retro_lafr_923,
Macropus eugenii ENSMEUG000000026741 retrocopy
retro_meug_606,
Myotis lucifugus ENSMLUG000000274541 retrocopy
retro_mluc_29,
Macaca mulatta ENSMMUG000000127411 retrocopy
retro_mmul_722,
Monodelphis domestica ENSMODG000000093783 retrocopies
retro_mdom_112, retro_mdom_1258, retro_mdom_38,
Mustela putorius furoENSMPUG000000032391 retrocopy
retro_mputfur_1400,
Oryctolagus cuniculus ENSOCUG000000051501 retrocopy
retro_ocun_1487,
Otolemur garnettii ENSOGAG000000285411 retrocopy
retro_ogar_1610,
Procavia capensis ENSPCAG000000115011 retrocopy
retro_pcap_400,
Pongo abelii ENSPPYG000000026941 retrocopy
retro_pabe_242,
Pan troglodytes ENSPTRG000000029841 retrocopy
retro_ptro_370,
Pteropus vampyrus ENSPVAG000000046212 retrocopies
retro_pvam_366, retro_pvam_776,
Sorex araneus ENSSARG000000008193 retrocopies
retro_sara_258, retro_sara_323, retro_sara_541,
Sarcophilus harrisii ENSSHAG000000116013 retrocopies
retro_shar_155, retro_shar_412, retro_shar_476,
Tarsius syrichta ENSTSYG000000091471 retrocopy
retro_tsyr_518,
Tursiops truncatus ENSTTRG000000033511 retrocopy
retro_ttru_1322,




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