RetrogeneDB ID:

retro_ggor_2551

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:7:136725252..136726635(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:IMPDH1
Ensembl ID:ENSGGOG00000003963
Aliases:None
Description:Inosine-5'-monophosphate dehydrogenase [Source:UniProtKB/TrEMBL;Acc:G3QMZ1]


Retrocopy-Parental alignment summary:






>retro_ggor_2551
TCCCTGACTTGGAAGATCATGCTGAAGATGCCATTGATCTCCTTCCCCATGGACACTGTGACAGAAGCTGACATGGCCAT
CGTGATGGCTCTGATGGGAGGTATTGGTTTCATTCACCACCACTGCACCCCAGAGTTCCAGGCCAACAAGGTGCAGAAGG
TCAAGAAGTTTGAATGGGGCTTTATCATGGACCCCGTGGTACTAAGCCCCTCACACACCGTGGGTGATGTGCTGGAGGCC
AAGATGCAGCATGGCTTCTCGGGCATCCCCATCACTGAGACAGTCACCATGGGCAGCAAGCTGGTGGACATCGTCACCTC
CTGAGACATCAACTTTCTTGCTGAGAAGGACCACATCACCCTCCTCAGTGAGGTGATGACACCAAGGATTGAGCTGGTGG
TGGCTCCAGCAGGTGTGATGTTGAAAGAGGCAAATGAGATCCTGCAGCCGTAGCAAGAAAGGGAAGCTGCCTATCGTCAA
TGATCGCAATGAGCTGGTGGCCATCATCGCCCACACCAACATGAAGAAGAACTGAGACTACCCTCTGGCCTCCAAGGATT
CCCACAAGCAGCTGCTGTGCGGGGCAGCTGTGGGCACCCGTGAGGATGACAAATACCGCCTGGACCTGTTCACCCAGGTG
GGCGTTGACGTCATAGTCTTGGACTTGTCCCAAGGGAACTCATTGTATCAGATGGCCATGGTGTATTACATCAAACAGAA
GTACCCCCACCTCCAGGTGATTGGGGGGAACATGGTGACAGCAGCCCAGGCGAAGAACCTGATTGACGCTGGTGTGGAAG
GGCTGCACGTGGGCACGGGCTGCAGCTCCATCTGCATCACCCAGGAAGTGGTGGCCTACAGTTGGCCCCAGGGCACTGCT
GTGTACAAGGTGGCCGAGTATGCCCGGCACTTTGGTGTGCCTACATAGCCGATGGCGGCATCCAGACCATGGGGCACATG
GTCAAGGCCCTGGCCCTTGGAGCCTCCACAGTGATGATGGGCTCCCTTCTGGCCGCCACCACGGAGGTCCCCAGCGAGTA
CTTCTTCCCAGATGGGGTGTGGCTCAAGAAGTACCGGGGCATGGGCTCACTGGATGCCCTGGAGAAGAGCAGCGGCAGCC
AGAAACAATACTTCATGGAGGGGGATAAGGTGAAGATCGCGCAGGGTGTCTCCAGTTCCATCCAGGACAAAGGGTCCATT
CAGAAGTTCATGCCCTACCTCATAGCGGGCATCCAGCATGGCTGCCAGGATACTGGGGTCTGCAACCTGTCTGTCCTTTG
GTCCATGATGTACTCAGGAGAGCACAAGTTTGAGAAGTGGACCATATTGGCCCAGATCAAGGGTGGCGTCCAAGGCCTGC
ACTCTTACAAGAAGAGGCTGTAC

ORF - retro_ggor_2551 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.53 %
Parental protein coverage: 76.96 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalALTRKITLKTPLISSPMDTVTEADMAIAMALMGGIGFIHHNCTPEFQANEVRKVKKFEQGFITDPVVLSP
.LT.KI.LK.PLIS.PMDTVTEADMAI.MALMGGIGFIHH.CTPEFQAN.V.KVKKFE.GFI.DPVVLSP
RetrocopySLTWKIMLKMPLISFPMDTVTEADMAIVMALMGGIGFIHHHCTPEFQANKVQKVKKFEWGFIMDPVVLSP
ParentalSHTVGDVLEAKMRHGFSGIPITETGTMGSKLVGIVTSRDIDFLAEKDHTTLLSEVMTPRIELVVAPAGVT
SHTVGDVLEAKM.HGFSGIPITET.TMGSKLV.IVTS.DI.FLAEKDH.TLLSEVMTPRIELVVAPAGV.
RetrocopySHTVGDVLEAKMQHGFSGIPITETVTMGSKLVDIVTS*DINFLAEKDHITLLSEVMTPRIELVVAPAGVM
ParentalLKEANEILQ-RSKKGKLPIVNDRDELVAIIARTDLKKNRDYPLASKDSQKQLLCGAAVGTREDDKYRLDL
LKEANEILQ.RSKKGKLPIVNDR.ELVAIIA.T..KKN.DYPLASKDS.KQLLCGAAVGTREDDKYRLDL
RetrocopyLKEANEILQ>RSKKGKLPIVNDRNELVAIIAHTNMKKN*DYPLASKDSHKQLLCGAAVGTREDDKYRLDL
ParentalLTQAGVDVIVLDSSQGNSVYQIAMVHYIKQKYPHLQVIGGNVVTAAQAKNLIDAGVDGLRVGMGCGSICI
.TQ.GVDVIVLD.SQGNS.YQ.AMV.YIKQKYPHLQVIGGN.VTAAQAKNLIDAGV.GL.VG.GC.SICI
RetrocopyFTQVGVDVIVLDLSQGNSLYQMAMVYYIKQKYPHLQVIGGNMVTAAQAKNLIDAGVEGLHVGTGCSSICI
ParentalTQEVMACGRPQGTAVYKVAEYARRFGVP-IIADGGIQTVGHVVKALALGASTVMMGSLLAATTEAPGEYF
TQEV.A...PQGTAVYKVAEYAR.FGVP..IADGGIQT.GH.VKALALGASTVMMGSLLAATTE.P.EYF
RetrocopyTQEVVAYSWPQGTAVYKVAEYARHFGVP<YIADGGIQTMGHMVKALALGASTVMMGSLLAATTEVPSEYF
ParentalFSDGVRLKKYRGMGSLDAMEKSSSSQKRYFSEGDKVKIAQGVSGSIQDKGSIQKFVPYLIAGIQHGCQDI
F.DGV.LKKYRGMGSLDA.EKSS.SQK.YF.EGDKVKIAQGVS.SIQDKGSIQKF.PYLIAGIQHGCQD.
RetrocopyFPDGVWLKKYRGMGSLDALEKSSGSQKQYFMEGDKVKIAQGVSSSIQDKGSIQKFMPYLIAGIQHGCQDT
ParentalGARSLSVLRSMMYSGELKFEKRTMSAQIEGGVHGLHSYEKRLY
G...LSVL.SMMYSGE.KFEK.T..AQI.GGV.GLHSY.KRLY
RetrocopyGVCNLSVLWSMMYSGEHKFEKWTILAQIKGGVQGLHSYKKRLY

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 30 .79 RPM
SRP007412_cerebellum 0 .00 RPM 31 .20 RPM
SRP007412_heart 0 .00 RPM 12 .45 RPM
SRP007412_kidney 0 .00 RPM 10 .79 RPM
SRP007412_liver 0 .00 RPM 6 .25 RPM
SRP007412_testis 0 .10 RPM 21 .76 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_2551 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2551 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 9 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000177701 retrocopy
retro_cjac_2045,
Homo sapiens ENSG000001063487 retrocopies
retro_hsap_2360, retro_hsap_2368, retro_hsap_2608, retro_hsap_3797, retro_hsap_4005, retro_hsap_4247, retro_hsap_4808,
Gorilla gorilla ENSGGOG00000003963 6 retrocopies
retro_ggor_1790, retro_ggor_1798, retro_ggor_1827, retro_ggor_2551 , retro_ggor_2688, retro_ggor_2993,
Gorilla gorilla ENSGGOG000000132451 retrocopy
retro_ggor_594,
Macropus eugenii ENSMEUG000000160822 retrocopies
retro_meug_2095, retro_meug_542,
Macaca mulatta ENSMMUG000000145092 retrocopies
retro_mmul_1551, retro_mmul_317,
Nomascus leucogenys ENSNLEG000000123411 retrocopy
retro_nleu_2508,
Pongo abelii ENSPPYG000000179767 retrocopies
retro_pabe_2133, retro_pabe_2138, retro_pabe_2346, retro_pabe_3102, retro_pabe_3292, retro_pabe_3392, retro_pabe_3736,
Pan troglodytes ENSPTRG000000196607 retrocopies
retro_ptro_1087, retro_ptro_1724, retro_ptro_1758, retro_ptro_2575, retro_ptro_2719, retro_ptro_2886, retro_ptro_3198,


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