RetrogeneDB ID:

retro_ggor_1432

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:19:18394388..18395786(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CS
Ensembl ID:ENSGGOG00000009096
Aliases:None
Description:Citrate synthase [Source:UniProtKB/TrEMBL;Acc:G3R145]


Retrocopy-Parental alignment summary:






>retro_ggor_1432
ATGGCATTACTCACTGTTGCCACCTGACTCTTGGAAATGAAGAATGCATCTTTTTGTATTCTTGCTGTCCAGCATGCCAG
TGCTTCCTCCACGAATTTGAAAGACATATTGGCTGACCTGATACCTAAGGAGCAGGCCAGAATTAAGACCTTCAGGCAGC
AACATGGCAAGAAGGTGGTGGGCCAAATCACTGTGGACATGACGTATGGTGGCATGAGAGGCATGAAGGGATTGGTCTAT
GAAACATCAGTTCTTGATCCTGATGAGGGCATCTGTTTCCGAGGCTTTAGTATCCCTGAATGCCAGAAACTGCTACCCAA
GGCTAAGGGTGGGGAAGAACCCCTGCCTGAGGGCTTATTTTGGCTGCTGGTAACTGGACGTATCCCAACAGAGGAACAGG
TATCTTGGCTCTCAAAAGAGTGGGCAAAGAGGGCAGCTCTGCCTTCCCATGTGGTCACCATGCTGGACAACTTTCCCACC
AATCTACACCCCATGTCTCAGCTCAGTGCAGCCGTTACAGCCCTCAACAGTGAAAGTAACTTTGCCCAAGCATATGCACG
GGGTATCAGCCGAACCAAGTACTGGGAGTTGATTTATGAAGACTCTATGGATCTAATCACAAAGCTACCTCGTGTCGCAG
CAAAGATCTACCGAAATCTCTACAGAGAAGGCAGTGGTATTGGGGCCATTGACTCTAACCTGGACTGGTCTCACAATTTC
ACCAACATGTTAGGCTATACTGATAATCAGTTCCCTGAGCTCATGCACCTGTACCTCACTATCCACAGTGACCATGAGGG
CGGCAATGTAAGTGCCCATACCAGCCACTTGGTGGGCAGTGCCCTTTCAGACCCTTACCTGTCCTTTGCAGCAGCCATGA
ACGGGCTGGCAGGGCCTCTCCATGGACTGGCAAATCAGGAAGTGCTTGTCTGGCTAACACAGCTGCAGAAGTAAGTTGGC
AAAGATGTGTCAGATGAGAAGTTACGAGACTACATCTGGAACACACTCAACTCAGGACGGGTTGTTCCAGGCTATGGCCA
TGCAGTACTAAGGAAGACTGATCCACGATATACCTGTCAGCGAGAGTTTGCTCTGAAACACCTGCCTAATGACCCCATGT
TTAAGTTGGTTGCTCAGCTATACAAGATTGTGCCCAATGTCCTCTTAGAGCAGGGTAAGGCCAAGAATCCTTGGCCCAAT
GTAGATGCTCACAGTGGGGTGCTGCTCCAGTATTATGGCATGACGGAGATGAATTACTGCACGGTCCTGTTTGGGGTGTC
ACGAGCATTGGGTGTACTGGCACAGCTCATCTGGAGCCGAGCCTTAGGCTTCCCTCTAGAAAGCCCCAAGTCCTTGAGCA
CAGAGGGTCTGATGAAGTTTGTGGACTCTAAGTCAGGG

ORF - retro_ggor_1432 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.21 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMALLTAAARLLGTKNASCLVLAARHASASSTNLKDILADLIPKEQARIKTFRQQHGKTVVGQITVDMMYG
MALLT.A..LL..KNAS...LA..HASASSTNLKDILADLIPKEQARIKTFRQQHGK.VVGQITVDM.YG
RetrocopyMALLTVAT*LLEMKNASFCILAVQHASASSTNLKDILADLIPKEQARIKTFRQQHGKKVVGQITVDMTYG
ParentalGMRGMKGLVYETSVLDPDEGIRFRGFSIPECQKLLPKAKSGEEPLPEGLFWLLVTGHIPTEEQVSWLSKE
GMRGMKGLVYETSVLDPDEGI.FRGFSIPECQKLLPKAK.GEEPLPEGLFWLLVTG.IPTEEQVSWLSKE
RetrocopyGMRGMKGLVYETSVLDPDEGICFRGFSIPECQKLLPKAKGGEEPLPEGLFWLLVTGRIPTEEQVSWLSKE
ParentalWAKRAALPSHVVTMLDNFPTNLHPMSQLSAAVTALNSESNFARAYAQGISRTKYWELIYEDSMDLIAKLP
WAKRAALPSHVVTMLDNFPTNLHPMSQLSAAVTALNSESNFA.AYA.GISRTKYWELIYEDSMDLI.KLP
RetrocopyWAKRAALPSHVVTMLDNFPTNLHPMSQLSAAVTALNSESNFAQAYARGISRTKYWELIYEDSMDLITKLP
ParentalCVAAKIYRNLYREGSGIGAIDSNLDWSHNFTNMLGYTDHQFTELMRLYLTIHSDHEGGNVSAHTSHLVGS
.VAAKIYRNLYREGSGIGAIDSNLDWSHNFTNMLGYTD.QF.ELM.LYLTIHSDHEGGNVSAHTSHLVGS
RetrocopyRVAAKIYRNLYREGSGIGAIDSNLDWSHNFTNMLGYTDNQFPELMHLYLTIHSDHEGGNVSAHTSHLVGS
ParentalALSDPYLSFAAAMNGLAGPLHGLANQ-VLVWLTQLQKEVGKDVSDEKLRDYIWNTLNSGRVVPGYGHAVL
ALSDPYLSFAAAMNGLAGPLHGLANQ.VLVWLTQLQK.VGKDVSDEKLRDYIWNTLNSGRVVPGYGHAVL
RetrocopyALSDPYLSFAAAMNGLAGPLHGLANQEVLVWLTQLQK*VGKDVSDEKLRDYIWNTLNSGRVVPGYGHAVL
ParentalRKTDPRYTCQREFALKHLPNDPMFKLVAQLYKIVPNVLLEQGKAKNPWPNVDAHSGVLLQYYGMTEMNYY
RKTDPRYTCQREFALKHLPNDPMFKLVAQLYKIVPNVLLEQGKAKNPWPNVDAHSGVLLQYYGMTEMNY.
RetrocopyRKTDPRYTCQREFALKHLPNDPMFKLVAQLYKIVPNVLLEQGKAKNPWPNVDAHSGVLLQYYGMTEMNYC
ParentalTVLFGVSRALGVLAQLIWSRALGFPLERPKSMSTEGLMKFVDSKSG
TVLFGVSRALGVLAQLIWSRALGFPLE.PKS.STEGLMKFVDSKSG
RetrocopyTVLFGVSRALGVLAQLIWSRALGFPLESPKSLSTEGLMKFVDSKSG

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 .19 RPM 116 .19 RPM
SRP007412_cerebellum 0 .20 RPM 97 .75 RPM
SRP007412_heart 0 .16 RPM 146 .34 RPM
SRP007412_kidney 0 .12 RPM 129 .00 RPM
SRP007412_liver 0 .26 RPM 37 .61 RPM
SRP007412_testis 0 .00 RPM 65 .79 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_1432 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1432 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 21 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000043711 retrocopy
retro_btau_386,
Canis familiaris ENSCAFG000000001151 retrocopy
retro_cfam_765,
Choloepus hoffmanni ENSCHOG000000003971 retrocopy
retro_chof_1803,
Callithrix jacchus ENSCJAG000000112751 retrocopy
retro_cjac_2031,
Dasypus novemcinctus ENSDNOG000000109072 retrocopies
retro_dnov_205, retro_dnov_468,
Echinops telfairi ENSETEG000000120351 retrocopy
retro_etel_584,
Homo sapiens ENSG000000624852 retrocopies
retro_hsap_1972, retro_hsap_3621,
Gorilla gorilla ENSGGOG00000009096 2 retrocopies
retro_ggor_1432 , retro_ggor_2445,
Macropus eugenii ENSMEUG000000056572 retrocopies
retro_meug_1078, retro_meug_1304,
Microcebus murinus ENSMICG000000176592 retrocopies
retro_mmur_1322, retro_mmur_394,
Macaca mulatta ENSMMUG000000024832 retrocopies
retro_mmul_1502, retro_mmul_1840,
Mus musculus ENSMUSG000000056831 retrocopy
retro_mmus_258,
Nomascus leucogenys ENSNLEG000000175142 retrocopies
retro_nleu_1201, retro_nleu_809,
Oryctolagus cuniculus ENSOCUG000000072161 retrocopy
retro_ocun_1183,
Pongo abelii ENSPPYG000000046541 retrocopy
retro_pabe_2972,
Rattus norvegicus ENSRNOG000000235201 retrocopy
retro_rnor_2518,
Sorex araneus ENSSARG000000100932 retrocopies
retro_sara_360, retro_sara_628,
Sus scrofa ENSSSCG000000210911 retrocopy
retro_sscr_321,
Sus scrofa ENSSSCG000000228581 retrocopy
retro_sscr_322,
Tupaia belangeri ENSTBEG000000064251 retrocopy
retro_tbel_4652,
Tarsius syrichta ENSTSYG000000044831 retrocopy
retro_tsyr_1659,


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