RetrogeneDB ID:

retro_ggor_1810

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:2b:97752022..97753412(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HSPA8
Ensembl ID:ENSGGOG00000008381
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1810
CACCTTGGGAAGACTATTTCCAATGTTATGGTCATAGGACCTAATGACTCTAATGTCAGGCTACCAAAGATCCTGGAACC
ATTGCTGGTCTCAATGTACTTAGAATTATCAATGAGCCAACTACTGCTTCTATTGCTTATGGCACAGACAAAAAGGTTGG
AGCTGAAAGACATGTGCTCGTCTATGACTTAAGAGATGAAATTTTTGATGTGTCTGTCCTTACTCTTGAAGATGAAATCT
TTGAGATCAAATCTACAGCTGGAGACACCCACTTAGGTGAAGAAGATTTTGACAACCAAATGATCAACCATTTTATTGCT
GAGTTCAAATACAAGCATAAGGACAGTAGTGAGAACAGCAGGGCTGTCTGACGCTTCTGTACTGCTTGTGATGGGCTAAT
TGCACTGTCCCTTCCAGCACCCAGGCCAGTAGTGAGATTAATTCTCTCTGTGAAGGAACAGATATTTATACCTCCATTAC
CCATGCCCAATTTGAAGAACTGAATGCTGCCCTGTTCCGTGGCACCCAGGACCCCATAGAGATAGCCCTTCAGGACACCA
AACTAGACAAGTTGCAGATCCATGTTATTGTCCTGGTAGGTGGTTCTATCTCTATCTCCTAGATCCAAAAGCTCTCTCAA
TAATTATTTAGTGGAAAATAACTGAGCAAGAGCATTGACCCTGATAAAGCTGTTGCTTATGGTGCAGCAGTCCAGGCAGC
CATCCTATCTTAAGACAAATCTTAAACTCTTCAAGATTTGCTACTTTTGGATTCACTTCTCTTCTCTTTGGTAATGATGC
TGCTGTGGAGTCATGACTGTTCCCATGAAATGCAATACACTTTTCTTACCAAGCACACCCAGACCTTCACTACCTACCCT
GACAACCAACCTGATGTCCTCATTCAAGTTTATGAAGGTGAGAGTGCCATAACCAAGGATAACAATTTGCTTGTTATCCA
GGGCAAGTTTGAGCCCACAGGCATACTTCCTGCTCCCTTTGCTGTTCCTCACATTAAAGTCACTTGTGATATTGATGTCA
ACAGCAGCCTCAATATCTCTGCTGTAAGTAAGAGTACAGAAAAAGAGAACAAAATTATCATCACTAATGACCAGGGGCAT
TTGAGCAAGGAAGACATTGAGAATATGGTCCAGGAAGCTGAGTACAAAGCTGAAGATGAGAAGCAGAAGAACAAGGTGGC
ATCAAAGAATTCACTTGACTCTTATGCATTCAACATGAAAGCAACTGAGAAACTTCAAGGCAAGATCAACAATAAGGATA
AACAGAAGATACTTGACAAGTGTAAAAAAATCATCAACTGACTTGATAAGAATCAGACTATAATGAAGGAAGAATTTGAA
CATCAGCAGAAAGAGCTAGTTTGCAGTCCA

ORF - retro_ggor_1810 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.88 %
Parental protein coverage: 76.25 %
Number of stop codons detected: 7
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalYLGKTVTNAVVTVPAYFNDSQR-QATKDAGTIAGLNVLRIINEPTAAAIAYGLDKKVGAERNVLIFDLGG
.LGKT..N..V..P...NDS...QATKD.GTIAGLNVLRIINEPT.A.IAYG.DKKVGAER.VL..DL..
RetrocopyHLGKTISNVMVIGP---NDSNV<QATKDPGTIAGLNVLRIINEPTTASIAYGTDKKVGAERHVLVYDLRD
ParentalGTFDVSILTIEDGIFEVKSTAGDTHLGGEDFDNRMVNHFIAEFKRKHKKDISENKRAVRRLRTACER-AK
..FDVS.LT.ED.IFE.KSTAGDTHLG.EDFDN.M.NHFIAEFK.KHK.D.SEN.RAV.R..TAC...A.
RetrocopyEIFDVSVLTLEDEIFEIKSTAGDTHLGEEDFDNQMINHFIAEFKYKHK-DSSENSRAV*RFCTACDG<AN
ParentalRTLSSSTQASIEIDSLYEGIDFYTSITRARFEELNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGST
.T..SSTQAS.EI.SL.EG.D.YTSIT.A.FEELNA.LFRGT.DP.E.AL.D.KLDK.QIH.IVLVGGS.
RetrocopyCTVPSSTQASSEINSLCEGTDIYTSITHAQFEELNAALFRGTQDPIEIALQDTKLDKLQIHVIVLVGGSI
ParentalRIPKIQKLLQDFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENVQDLLLLD-VTPLSLGIETAG-GV
.I..IQKL.Q..F.GK.L.KSI.PD.AVAYGAAVQAAILS.DKS...QDLLLLD..T.L..G...A..GV
RetrocopySIS*IQKLSQ*LFSGK*LSKSIDPDKAVAYGAAVQAAILS*DKS*TLQDLLLLD<FTSLLFGNDAAV<GV
ParentalMTVLIKRNT-TIPTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLL---GKFELTGIPPAPRGVPQIE
MTV..K.NT.T..TK.TQTFTTY.DNQP.VLIQVYEGE.A.TKDNNLL...GKFE.TGI.PAP..VP.I.
RetrocopyMTVPMKCNT<TFLTKHTQTFTTYPDNQPDVLIQVYEGESAITKDNNLLVIQGKFEPTGILPAPFAVPHIK
ParentalVTFDIDANGILNVSAVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDKVSSKNSLESY
VT.DID.N..LN.SAV.KST.KENKI.ITND.G.LSKEDIE.MVQEAE.YKAEDEKQ..KV.SKNSL.SY
RetrocopyVTCDIDVNSSLNISAVSKSTEKENKIIITNDQGHLSKEDIENMVQEAE-YKAEDEKQKNKVASKNSLDSY
ParentalAFNMKATVEDEKLQGKINDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNP
AFNMKAT...EKLQGKIN..DKQKILDKC..IIN.LDKNQT..KEEFEHQQKEL..VC.P
RetrocopyAFNMKAT---EKLQGKINNKDKQKILDKCKKIIN*LDKNQTIMKEEFEHQQKEL--VCSP

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 984 .21 RPM
SRP007412_cerebellum 0 .00 RPM 402 .18 RPM
SRP007412_heart 0 .00 RPM 225 .64 RPM
SRP007412_kidney 0 .00 RPM 1085 .60 RPM
SRP007412_liver 0 .00 RPM 366 .65 RPM
SRP007412_testis 0 .00 RPM 549 .80 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_1810 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1810 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2384
Pan troglodytes retro_ptro_1743
Macaca mulatta retro_mmul_963
Parental genes homology:
Parental genes homology involve 30 parental genes, and 89 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000048842 retrocopies
retro_acar_21, retro_acar_6,
Ailuropoda melanoleuca ENSAMEG000000084251 retrocopy
retro_amel_126,
Anas platyrhynchos ENSAPLG000000106671 retrocopy
retro_apla_6,
Bos taurus ENSBTAG000000131621 retrocopy
retro_btau_354,
Canis familiaris ENSCAFG000000116663 retrocopies
retro_cfam_140, retro_cfam_191, retro_cfam_509,
Ciona intestinalis ENSCING000000096651 retrocopy
retro_cint_12,
Callithrix jacchus ENSCJAG000000076485 retrocopies
retro_cjac_2388, retro_cjac_3306, retro_cjac_3898, retro_cjac_4057, retro_cjac_721,
Cavia porcellus ENSCPOG000000041693 retrocopies
retro_cpor_1072, retro_cpor_619, retro_cpor_938,
Ciona savignyi ENSCSAVG000000085881 retrocopy
retro_csav_3,
Echinops telfairi ENSETEG000000109961 retrocopy
retro_etel_43,
Ficedula albicollis ENSFALG000000058121 retrocopy
retro_falb_18,
Felis catus ENSFCAG000000011326 retrocopies
retro_fcat_132, retro_fcat_1331, retro_fcat_1571, retro_fcat_1775, retro_fcat_556, retro_fcat_79,
Gallus gallus ENSGALG000000065121 retrocopy
retro_ggal_8,
Gorilla gorilla ENSGGOG00000008381 8 retrocopies
retro_ggor_1053, retro_ggor_1810 , retro_ggor_1888, retro_ggor_1918, retro_ggor_2501, retro_ggor_3054, retro_ggor_3057, retro_ggor_360,
Gorilla gorilla ENSGGOG000000141541 retrocopy
retro_ggor_1747,
Gorilla gorilla ENSGGOG000000268791 retrocopy
retro_ggor_2082,
Loxodonta africana ENSLAFG000000303124 retrocopies
retro_lafr_1218, retro_lafr_391, retro_lafr_790, retro_lafr_797,
Meleagris gallopavo ENSMGAG000000019291 retrocopy
retro_mgal_9,
Myotis lucifugus ENSMLUG000000048343 retrocopies
retro_mluc_1800, retro_mluc_2300, retro_mluc_777,
Monodelphis domestica ENSMODG000000129582 retrocopies
retro_mdom_127, retro_mdom_99,
Mustela putorius furoENSMPUG000000058109 retrocopies
retro_mputfur_1048, retro_mputfur_1056, retro_mputfur_1144, retro_mputfur_131, retro_mputfur_188, retro_mputfur_309, retro_mputfur_627, retro_mputfur_694, retro_mputfur_958,
Mus musculus ENSMUSG000000156568 retrocopies
retro_mmus_2244, retro_mmus_2584, retro_mmus_26, retro_mmus_2621, retro_mmus_2840, retro_mmus_316, retro_mmus_351, retro_mmus_620,
Oryctolagus cuniculus ENSOCUG000000155334 retrocopies
retro_ocun_1308, retro_ocun_53, retro_ocun_584, retro_ocun_753,
Oreochromis niloticus ENSONIG000000047591 retrocopy
retro_onil_2,
Pongo abelii ENSPPYG000000039879 retrocopies
retro_pabe_183, retro_pabe_2193, retro_pabe_2254, retro_pabe_2260, retro_pabe_2261, retro_pabe_3153, retro_pabe_355, retro_pabe_3804, retro_pabe_3808,
Pelodiscus sinensis ENSPSIG000000124502 retrocopies
retro_psin_17, retro_psin_5,
Taeniopygia guttata ENSTGUG000000004911 retrocopy
retro_tgut_7,
Takifugu rubripes ENSTRUG000000052651 retrocopy
retro_trub_30,
Tursiops truncatus ENSTTRG000000111396 retrocopies
retro_ttru_1507, retro_ttru_1650, retro_ttru_1696, retro_ttru_35, retro_ttru_741, retro_ttru_808,
Xiphophorus maculatus ENSXMAG000000016021 retrocopy
retro_xmac_20,


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