RetrogeneDB ID:

retro_ggor_2698

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:8:7524582..7526278(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HSPD1
Ensembl ID:ENSGGOG00000008267
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2698
ATGCTTCCATTACCCACAGTCTTTCACCAGATGAGACCAGTGTCCAGGCTAATGGCTCCTCATGTCACTTGGACTGATGA
CAAAGATGTAAAATTTGGTGCTGATGTCCGAGCCTTAATGCTTCAAAGTGTAGACTTTTTGTCGATGCTGTAGCCGTTAC
AATGGGGCCAAAGGGAAGAACAGTAATTATTGAACATAGCTGGGGAAGTCCCAAAGTAACAAAAGATGGTGTGACTGATG
CAAAGTCAATTGACTTAAAGGATAAATATAAAAACATTGGAGCTAAACTTGTCCAAGATGTTGCCAATAACACAAATGAA
GAGACTGGGGGATGACACTATCACTGCTGCTGTACTGGTATGCTCTATTTCCAAGTAAGGCTTCCAGAAGGTTAACAAAG
GTGCTAATCCAGTGGAAATCAAGAGAGGTGTGATGTTAGCTGTTGATGCTGTAATTGCTGAACTTAAAAACCAGTCTAAA
CCTGTGACCAAACCTGAAGAAATTGTGCAGGTTGCTACATTTTCTGCAAATGGAGACAAAGAAACTGGTAACATCATCTC
TGATGCAATGAAAAAGTTTGGAAGAAAGGGCATCATCACAGTAAAGGATGGAAAAACACTGACTGATGAATTAGAAATTA
TTGAAGGCATGAAAATTTGACCGAGGCTATATTTCTCCATACTTTATTAATACATCAAAAGGTGAGAAATGTGAATTCCA
GGATGCCTATGTTCTGTTGCATGAAAAGAAAATTTCTAGTGTCCAGTCCATTGTACCTGCTCTTGAAATTGCCAATGCTT
ACTGTAAGCCTTTGGTCATAATTGCTGAAGACATTGATGGAGAAGCTCTAACTACACTCATCTTGAATAGGCTAAAGGTT
GGTCTTCAGGTTGTGGCAGTCAAAGCTCCAGGGTTTGGTGACAATAGAAAGAACCAGCTTAAAGATATGGTTATTGCTAC
TGGTGGTACAGCGTTTGGAGAAGAGGGCTGACACTAAATCTTGAAGACGTTCAGCCTCATGACGTAGGAGAAGTTGGAGA
GGTCGCTGTGATCAAAGATGATGCCATGCTCTTAAAAGGAAAAGGTAACAAGGCTCAAATTGAAAAATGTGTTCAAGAAA
TCATTGACCAGTCAGATGTCACAACTAGTGAATACGAAAAGGAAAAACTGGATGGAGAAACTTTCAGAAGGAGTAGCTGT
GCTGAAGGCTGGTGGGACAAGTGATGTTGAAGTGAATGAAGAGAAAGACAGAGTTACAGGTGCACTTAATGCTACAAGAG
CTGCTGTTGAAGAAGGCATTGTTTAGGGAGGGGGTTGTGCCCTGCTTCGATGCATTCCAGCCTTGGACTCATTCACTCCA
GCTAATGAAGATAAAATAATTGCTGTAGAAATTATTAAAAGAACACTCAAAATTCCAGCAATGACCGTTGCTAAGAATGC
AGATGTTGATGGATTTTTGATAGTTGAGAAAATTATGCAAAGTTCCTCAGAAGTTGGTTATGATACTATGTTAGCAGATG
TCGTGAATATGGTGGAAAAAGACATTATTGACCCAACAAAGGTTGTGAGAACTGCTTTATTGGATGCTGCTGGCATGGCC
TCTCTATTAACTACAGCAGCTGTTGTAGTCACAGAAATTCCTAAAGAATGGAACAGCCCTGGAAGGGGTGCAATGTGTGG
AATGGGAGGTGGCTTG

ORF - retro_ggor_2698 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.6 %
Parental protein coverage: 99.13 %
Number of stop codons detected: 2
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMLRLPTVFRQMRPVSRVLAPHLTRAYAKDVKFGADARALMLQGVDLLA-DAVAVTMGPKGRTVIIEQSWG
ML.LPTVF.QMRPVSR..APH.T....KDVKFGAD.RALMLQ.VD.L..DAVAVTMGPKGRTVIIE.SWG
RetrocopyMLPLPTVFHQMRPVSRLMAPHVTWTDDKDVKFGADVRALMLQSVDFLS<DAVAVTMGPKGRTVIIEHSWG
ParentalSPKVTKDGVTVAKSIDLKDKYKNIGAKLVQDVANNTNEEAG-DGTTTATVLARSIAKEGFEKISKGANPV
SPKVTKDGVT.AKSIDLKDKYKNIGAKLVQDVANNTNEE.G.D.T.TA.VL..SI.K.GF.K..KGANPV
RetrocopySPKVTKDGVTDAKSIDLKDKYKNIGAKLVQDVANNTNEETG>DDTITAAVLVCSISK*GFQKVNKGANPV
ParentalEIRRGVMLAVDAVIAELKKQSKPVTTPEEIAQVATISANGDREIGNIISDAMKKVGRKGVITVKDGKTLN
EI.RGVMLAVDAVIAELK.QSKPVT.PEEI.QVAT.SANGD.E.GNIISDAMKK.GRKG.ITVKDGKTL.
RetrocopyEIKRGVMLAVDAVIAELKNQSKPVTKPEEIVQVATFSANGDKETGNIISDAMKKFGRKGIITVKDGKTLT
ParentalDELEIIEGM-KFDRGYISPYFINTSKGQKCEFQDAYVLLSEKKISSVQSIVPALEIANAHRKPLVIIAED
DELEIIEGM.KFDRGYISPYFINTSKG.KCEFQDAYVLL.EKKISSVQSIVPALEIANA..KPLVIIAED
RetrocopyDELEIIEGM>KFDRGYISPYFINTSKGEKCEFQDAYVLLHEKKISSVQSIVPALEIANAYCKPLVIIAED
ParentalVDGEALSTLVLNRLKVGLQVVAVKAPGFGDNRKNQLKDMAIATGGAVFGEE-GLTLNLEDVQPHDLGKVG
.DGEAL.TL.LNRLKVGLQVVAVKAPGFGDNRKNQLKDM.IATGG..FGEE.GLTLNLEDVQPHD.G.VG
RetrocopyIDGEALTTLILNRLKVGLQVVAVKAPGFGDNRKNQLKDMVIATGGTAFGEE<GLTLNLEDVQPHDVGEVG
ParentalEVIVTKDDAMLLKGKGDKAQIEKRIQEIIEQLDVTTSEYEKEKLN-ERLAKLSDGVAVLKVGGTSDVEVN
EV.V.KDDAMLLKGKG.KAQIEK..QEII.Q.DVTTSEYEKEKL..E.L.....GVAVLK.GGTSDVEVN
RetrocopyEVAVIKDDAMLLKGKGNKAQIEKCVQEIIDQSDVTTSEYEKEKLD>EKLS---EGVAVLKAGGTSDVEVN
ParentalEKKDRVTDALNATRAAVEEGIVLGGGCALLRCIPALDSLTPANEDQKIGIEIIKRTLKIPAMTIAKNAGV
E.KDRVT.ALNATRAAVEEGIV.GGGCALLRCIPALDS.TPANED..I..EIIKRTLKIPAMT.AKNA.V
RetrocopyEEKDRVTGALNATRAAVEEGIV*GGGCALLRCIPALDSFTPANEDKIIAVEIIKRTLKIPAMTVAKNADV
ParentalEGSLIVEKIMQSSSEVGYDAMAGDFVNMVEKGIIDPTKVVRTALLDAAGVASLLTTAEVVVTEIPKEEKD
.G.LIVEKIMQSSSEVGYD.M..D.VNMVEK.IIDPTKVVRTALLDAAG.ASLLTTA.VVVTEIPKE...
RetrocopyDGFLIVEKIMQSSSEVGYDTMLADVVNMVEKDIIDPTKVVRTALLDAAGMASLLTTAAVVVTEIPKEWNS
ParentalPGMGA-GGMGGGM
PG.GA..GMGGG.
RetrocopyPGRGAMCGMGGGL

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 .00 RPM 103 .01 RPM
SRP007412_cerebellum 0 .00 RPM 73 .16 RPM
SRP007412_heart 0 .00 RPM 38 .90 RPM
SRP007412_kidney 0 .00 RPM 335 .53 RPM
SRP007412_liver 0 .05 RPM 169 .79 RPM
SRP007412_testis 0 .10 RPM 151 .67 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_2698 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2698 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 18 parental genes, and 74 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000137701 retrocopy
retro_amel_771,
Canis familiaris ENSCAFG000000108654 retrocopies
retro_cfam_1185, retro_cfam_1620, retro_cfam_2165, retro_cfam_614,
Callithrix jacchus ENSCJAG000000039906 retrocopies
retro_cjac_1516, retro_cjac_1534, retro_cjac_1975, retro_cjac_3172, retro_cjac_3400, retro_cjac_4096,
Echinops telfairi ENSETEG000000091844 retrocopies
retro_etel_1440, retro_etel_426, retro_etel_885, retro_etel_925,
Homo sapiens ENSG000001443817 retrocopies
retro_hsap_1006, retro_hsap_2770, retro_hsap_2987, retro_hsap_3151, retro_hsap_3494, retro_hsap_3930, retro_hsap_4018,
Gorilla gorilla ENSGGOG00000008267 6 retrocopies
retro_ggor_1927, retro_ggor_2069, retro_ggor_2361, retro_ggor_2698 , retro_ggor_800, retro_ggor_985,
Loxodonta africana ENSLAFG000000000531 retrocopy
retro_lafr_476,
Macropus eugenii ENSMEUG000000119872 retrocopies
retro_meug_1688, retro_meug_224,
Myotis lucifugus ENSMLUG000000008714 retrocopies
retro_mluc_1458, retro_mluc_2280, retro_mluc_2348, retro_mluc_601,
Macaca mulatta ENSMMUG000000104891 retrocopy
retro_mmul_83,
Monodelphis domestica ENSMODG000000122893 retrocopies
retro_mdom_427, retro_mdom_493, retro_mdom_756,
Mustela putorius furoENSMPUG000000078183 retrocopies
retro_mputfur_1118, retro_mputfur_245, retro_mputfur_434,
Mus musculus ENSMUSG000000259805 retrocopies
retro_mmus_1225, retro_mmus_2494, retro_mmus_3206, retro_mmus_439, retro_mmus_706,
Nomascus leucogenys ENSNLEG000000068747 retrocopies
retro_nleu_1349, retro_nleu_2238, retro_nleu_229, retro_nleu_657, retro_nleu_675, retro_nleu_691, retro_nleu_787,
Otolemur garnettii ENSOGAG000000340535 retrocopies
retro_ogar_2335, retro_ogar_2420, retro_ogar_2740, retro_ogar_3221, retro_ogar_3497,
Pongo abelii ENSPPYG000000130465 retrocopies
retro_pabe_2040, retro_pabe_2244, retro_pabe_2476, retro_pabe_2887, retro_pabe_848,
Rattus norvegicus ENSRNOG000000145259 retrocopies
retro_rnor_1000, retro_rnor_1006, retro_rnor_1308, retro_rnor_1578, retro_rnor_1585, retro_rnor_2812, retro_rnor_2835, retro_rnor_596, retro_rnor_905,
Xenopus tropicalis ENSXETG000000075091 retrocopy
retro_xtro_63,


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