RetrogeneDB ID:

retro_ggor_890

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:12:88405986..88407459(-)
Located in intron of:ENSGGOG00000008572
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GALNT12
Ensembl ID:ENSGGOG00000005792
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_890
GATGAACTGAAGCAGCAAGAAGAACTCATTGAGAGATACGCCATCAATATTTACCTCAGTGACAGGATTTCCTTGCATCG
ACACATAGAGGATAAAAGAATGTATGAGTGTAAGTCCCAGAAGTTCAACTATAGGACACTTCCTACCACCTCTGTTATCA
TTGCTTTCTATAACGAAGCCTGGTCGACTTTGCTCCGTACCATTCACAGTGTTTTAGAAACTTCTCCTGCAGTTCTTTTG
AAAGAGATCATCTTGGTGGATGACTTGAGTGACAGAGTTTATTTGAAGACACAACTTGAAACTTACATCAGCAATCTTGA
TAGAGTACGCTTGATTAGGACCAATAAGCGAGAGGGGCTGGTTAGGGCCCGTCTGATTGGGGCCACTTTCGCCACTGGGG
ACGTCCTCACTTTCCTGGATTGTCATTGTGAGTGTAATTCCGGTTGGCTGGAACCGCTTTTGGAAAGGATTGGGAGAGAT
GAAACAGCAGTTGTGTGTCCTGTTATAGACACAATTGATTGGAATACTTTTGAATTCTATATGCAGACAGGGGAGCCCAT
GATTGGTGGGTTTGACTGGCGTTTAACATTTCAGTGGCATTCTGTCCCCAAACAGGAAAGGGACAGGCGGATATCAAGAA
TTGACCCCATCAGATCACCTACCATGGCTGGAGGACTGTTTGCTGTCAGCAAGAAATATTTTCAGTACCTTGGAACGTAT
GACACAGGAATGGAAGTGTGGGGAGGTGAAAACCTTGAGCTGTCTTTTAGGGTGTGGCAGTGTGGTGGCAAATTGGAGAT
CCACCCGTGTTCCCACGTGGGCCATGTGTTCCCCAAGCGGGCACCATATGCTCGCCCCAATTTCCTACGGAATACTGCTC
GGGCAGCAGAAGTTTGGATGGATGAGTACAAAGAGCACTTCTACAATAGAAACCCTCCAGCAAGAAAAGAAGCTTATGGT
GACATTTCTGAAAGAAAATTACTACGAGAGCGGCTGAGATGCAAGAGCTTTGACTGGTATTTGAAAAACGTTTTTCCTAA
TTTACATGTTCCAGAGGATAGACCAGGCTGGCATGGGGCTATTCGCAGTAGAGGGATCTCGTCTGAATGTTTAGATTATA
ATTCTCCTGACAACAACCCCACAGGTGCTAACCTTTCACTGTTTGGATGCCATGGTCAAGGAGGCAATCAATTCTTTGAA
TATACTTCAAACAAAGAAATAAGGTTTAATTCTGTGACAGAGTTATGTGCAGAGGTACCTGAGCAAAAAAATTATGTAGG
AATGCAAAATTGTCCCAAAGATGGGTTCCCTGTACCAGCAAACATTATTTGGCATTTTAAAGAAGATGGAACTATTTTTC
ACCCACACTCAGGACTGTGTCTTAGTGCTTATCGGACACCGGAGGGCCGACCTGATGTACAAATGAGAACTTGTGATGCT
CTAGATAAAAATCAAATTTGGAGTTTTGAGAAA

ORF - retro_ggor_890 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.53 %
Parental protein coverage: 86.73 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalEELRLQEESVRLHQINIYLSDRISLHRRLPERWNPLCKEKKYDYDNLPRTSVIIAFYNEAWSTLLRTVYS
.EL..QEE......INIYLSDRISLHR.........CK..K..Y..LP.TSVIIAFYNEAWSTLLRT..S
RetrocopyDELKQQEELIERYAINIYLSDRISLHRHIEDKRMYECKSQKFNYRTLPTTSVIIAFYNEAWSTLLRTIHS
ParentalVLETSPDILLEEVILVDDYSDREHLKERLANELSGLPKVRLIRANKREGLVRARLLGASAARGDVLTFLD
VLETSP..LL.E.ILVDD.SDR..LK..L....S.L..VRLIR.NKREGLVRARL.GA..A.GDVLTFLD
RetrocopyVLETSPAVLLKEIILVDDLSDRVYLKTQLETYISNLDRVRLIRTNKREGLVRARLIGATFATGDVLTFLD
ParentalCHCECHEGWLEPLLQRIHEEESAVVCPVIDVIDWNTFEYLGNSGEPQIGGFDWRLVFTWHTVPERERIRM
CHCEC..GWLEPLL.RI...E.AVVCPVID.IDWNTFE.....GEP.IGGFDWRL.F.WH.VP..ER.R.
RetrocopyCHCECNSGWLEPLLERIGRDETAVVCPVIDTIDWNTFEFYMQTGEPMIGGFDWRLTFQWHSVPKQERDRR
ParentalRSPVDVIRSPTMAGGLFAVSKKYFEYLGSYDTGMEVWGGENLEFSFRIWQCGGVLETHPCSHVGHVFPKQ
.S..D.IRSPTMAGGLFAVSKKYF.YLG.YDTGMEVWGGENLE.SFR.WQCGG.LE.HPCSHVGHVFPK.
RetrocopyISRIDPIRSPTMAGGLFAVSKKYFQYLGTYDTGMEVWGGENLELSFRVWQCGGKLEIHPCSHVGHVFPKR
ParentalAPYSRNKALANSVRAAEVWMDEFKELYYHRNPRARLEPFGDVTERKQLRAKLQCKDFKWFLETVYPELHV
APY.R...L.N..RAAEVWMDE.KE..Y.RNP.AR.E..GD..ERK.LR..L.CK.F.W.L..V.P.LHV
RetrocopyAPYARPNFLRNTARAAEVWMDEYKEHFYNRNPPARKEAYGDISERKLLRERLRCKSFDWYLKNVFPNLHV
ParentalPEDRPGFFGMLQNKGLTDYCFDYNPPDENQIVGHQVILYLCHGMGQNQFFEYTSQKEIRYNTHQPEGCIA
PEDRPG..G.....G....C.DYN.PD.N...G....L..CHG.G.NQFFEYTS.KEIR.N....E.C..
RetrocopyPEDRPGWHGAIRSRGISSECLDYNSPDNNP-TGANLSLFGCHGQGGNQFFEYTSNKEIRFNS-VTELCAE
ParentalVEAGMDTLIMHLCEE---TAPENQKFVLQEDGSLFHEQSKKCVQAARKESSDSFVPLLRDCTNSD-HQKW
V........M..C.......P.N......EDG..FH..S..C..A.R.......V...R.C...D..Q.W
RetrocopyVPEQKNYVGMQNCPKDGFPVPANIIWHFKEDGTIFHPHSGLCLSAYRTPEGRPDVQ-MRTCDALDKNQIW
ParentalFFKE
.F..
RetrocopySFEK

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 1 .58 RPM 5 .75 RPM
SRP007412_cerebellum 1 .06 RPM 31 .64 RPM
SRP007412_heart 0 .44 RPM 0 .41 RPM
SRP007412_kidney 3 .52 RPM 4 .91 RPM
SRP007412_liver 1 .90 RPM 2 .22 RPM
SRP007412_testis 3 .42 RPM 5 .59 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_890 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_890 has 8 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_777
Pongo abelii retro_pabe_949
Macaca mulatta retro_mmul_888
Mus musculus retro_mmus_183
Rattus norvegicus retro_rnor_2453
Oryctolagus cuniculus retro_ocun_1260
Bos taurus retro_btau_1410
Equus caballus retro_ecab_52
Parental genes homology:
Parental genes homology involve 34 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000023021 retrocopy
retro_acar_54,
Ailuropoda melanoleuca ENSAMEG000000045201 retrocopy
retro_amel_93,
Anas platyrhynchos ENSAPLG000000121971 retrocopy
retro_apla_8,
Bos taurus ENSBTAG000000090371 retrocopy
retro_btau_1410,
Canis familiaris ENSCAFG000000024941 retrocopy
retro_cfam_683,
Cavia porcellus ENSCPOG000000124181 retrocopy
retro_cpor_1467,
Equus caballus ENSECAG000000165461 retrocopy
retro_ecab_52,
Ficedula albicollis ENSFALG000000051881 retrocopy
retro_falb_8,
Felis catus ENSFCAG000000088311 retrocopy
retro_fcat_126,
Gorilla gorilla ENSGGOG00000005792 1 retrocopy
retro_ggor_890 ,
Gorilla gorilla ENSGGOG000000087841 retrocopy
retro_ggor_399,
Loxodonta africana ENSLAFG000000220111 retrocopy
retro_lafr_536,
Meleagris gallopavo ENSMGAG000000072441 retrocopy
retro_mgal_1,
Microcebus murinus ENSMICG000000110751 retrocopy
retro_mmur_282,
Myotis lucifugus ENSMLUG000000026301 retrocopy
retro_mluc_804,
Macaca mulatta ENSMMUG000000195611 retrocopy
retro_mmul_888,
Mustela putorius furoENSMPUG000000065021 retrocopy
retro_mputfur_569,
Mus musculus ENSMUSG000000397741 retrocopy
retro_mmus_183,
Nomascus leucogenys ENSNLEG000000170191 retrocopy
retro_nleu_940,
Oryctolagus cuniculus ENSOCUG000000162211 retrocopy
retro_ocun_1260,
Otolemur garnettii ENSOGAG000000014082 retrocopies
retro_ogar_3253, retro_ogar_717,
Ochotona princeps ENSOPRG000000060292 retrocopies
retro_opri_121, retro_opri_515,
Procavia capensis ENSPCAG000000050681 retrocopy
retro_pcap_63,
Pongo abelii ENSPPYG000000194371 retrocopy
retro_pabe_949,
Pelodiscus sinensis ENSPSIG000000172461 retrocopy
retro_psin_1,
Pan troglodytes ENSPTRG000000211801 retrocopy
retro_ptro_777,
Pteropus vampyrus ENSPVAG000000087741 retrocopy
retro_pvam_1347,
Rattus norvegicus ENSRNOG000000080993 retrocopies
retro_rnor_1084, retro_rnor_1085, retro_rnor_2453,
Sarcophilus harrisii ENSSHAG000000174741 retrocopy
retro_shar_44,
Sus scrofa ENSSSCG000000053791 retrocopy
retro_sscr_32,
Ictidomys tridecemlineatus ENSSTOG000000213061 retrocopy
retro_itri_41,
Tupaia belangeri ENSTBEG000000036271 retrocopy
retro_tbel_2065,
Tarsius syrichta ENSTSYG000000049751 retrocopy
retro_tsyr_386,
Tursiops truncatus ENSTTRG000000108481 retrocopy
retro_ttru_212,




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