RetrogeneDB ID:

retro_ggor_143

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:11:101609445..101610636(+)
Located in intron of:ENSGGOG00000002102
Retrocopy
information
Ensembl ID:ENSGGOG00000012736
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:DDI2
Ensembl ID:ENSGGOG00000013537
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_143
ATGCTGATCACCGTGTACTGCGTGCGGAGGGACCTCTCCGAGGTCACCTTCTCTCTCCAGGTCAGCCCCGACTTTGAGCT
CCGAAACTTCAAGGTCCTCTGCGAGGCGGAGTCCAGAGTCCCCGTCGAAGAGATCCAGATTATCCACACGGAGCGACTCC
TCATCGAGGACCACTGTTCCCTGGGCTCCTACGGCCTCAAAGATGGCGATATCGTGGTTTTACTGCAGAAGGACAATGTG
GGACCTCGGGCTCCAGGGCGTGCCCCGAACCAGCCTCGTGTAGACTTCAGTAGCATTGCGGTGCCTGGGACGTCCAGCTC
CCGTCCACAGCACCCTGGACAGCAGCAGCAGCGCACACCCGCTGCCCAGCGGTCACAGGGCTTGGCGTCAGGAGAGAGGG
TGGCCGGCCTGCAAGGTCTGGGCAGCCCCGCCCTGATCCGCAGCATGCTGCTCTCCAACCCCCACGATCTGTCCCTGCTC
AAGGAACGCAACCCTCCCTTGGCGGAAGCCCTGCTCAGCGGAAGCCTTGAGACCTTTTCTCAGGTGCTGATGGAGCAGCA
AAGGGAAAAGGCCTTGAGAGAGCAAGAGAGGCTTCGTCTCTACACAGCCGACCCACTGGATCGGGAAGCTCAGGCCAAAA
TAGAAGAGGAAATCCGGCAGCAAAACATTGAAGAAAACATGAATATAGCGATAGAAGAGGCCCCCGAGAGTTTTGGACAA
GTGACGATGCTCTACATTAACTGCAAAGTGAATGGGCATCCTTTGAAGGCTTTTGTTGACTCGGGCGCCCAGATGACCAT
TATGAGCCAGGCTTGTGCCGAGCGATGTAACATCATGAGGCTGGTGGACCGACGGTGGGCTGGGGTTGCTAAAGGAGTGG
GCACACAGAGAATTATTGGCCGTGTTCATCTAGCTCAGATTCAAATTGAAGGTGATTTCTTACAGTGCTCTTTCTCCATA
CTTGAGGATCAACCCATGGATATGCTTCTAGGCCTAGATATGCTCCGGAGACATCAATGTTCCATCGATTTGAAGAAAAA
TGTGCTGGTCATCGGCACCACTGGCACGCAGACTTATTTTCTTCCTGAGGGAGAGTTGCCGTTATGCTCTAGGATGGTAA
GTGGGCAAGATGAGTTTTCGGACAAGGAAATTACACATTCGGTCATGGATCCAGGACGAAAAGAGCATTAA

ORF - retro_ggor_143 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.42 %
Parental protein coverage: 73.57 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRQKENADPRPPVQFPNLPRIDFSSIAVPGTSSPRQRQPPGTQQSHSSPGEITSSPQGLDNPALLRDMLLA
R....A...P.V.F........SS..........QR.P..........GE.....QGL..PAL.R.MLL.
RetrocopyRAPGRAPNQPRVDFSSIAVPGTSSSRPQHPGQQQQRTPAAQRSQGLASGERVAGLQGLGSPALIRSMLLS
ParentalNPHELSLLKERNPPLAEALLSGDLEKFSRVLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQN
NPH.LSLLKERNPPLAEALLSG.LE.FS.VL.EQQ...A.REQER.RL..ADP.D.EAQAKIEE.IRQQN
RetrocopyNPHDLSLLKERNPPLAEALLSGSLETFSQVLMEQQREKALREQERLRLYTADPLDREAQAKIEEEIRQQN
ParentalIEENMTIAMEEAPESFGQVVMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKG
IEENM.IA.EEAPESFGQV.MLYINCKVNGHP.KAFVDSGAQMTIMSQACAERCNIMRLVDRRWAG.AKG
RetrocopyIEENMNIAIEEAPESFGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKG
ParentalVGTQKIIGRVHLVFLQIKEWFLIVSYFSFIVNDSYSAHLLFLSFESKHLCSIDLKKNVLVIGTTGSQTTF
VGTQ.IIGRVHL...QI...FL..S....I..D.....LL.L.....H.CSIDLKKNVLVIGTTG.QT.F
RetrocopyVGTQRIIGRVHLAQIQIEGDFLQCSF--SILEDQPMDMLLGLDMLRRHQCSIDLKKNVLVIGTTGTQTYF
ParentalLPEGELPECARLAYG
LPEGELP.C.R...G
RetrocopyLPEGELPLCSRMVSG

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 2 .40 RPM
SRP007412_cerebellum 0 .00 RPM 2 .76 RPM
SRP007412_heart 0 .06 RPM 0 .41 RPM
SRP007412_kidney 0 .04 RPM 2 .82 RPM
SRP007412_liver 0 .03 RPM 2 .88 RPM
SRP007412_testis 88 .37 RPM 3 .11 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_143 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_143 has 11 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_96
Pan troglodytes retro_ptro_570
Pongo abelii retro_pabe_158
Macaca mulatta retro_mmul_231
Callithrix jacchus retro_cjac_196
Mus musculus retro_mmus_67
Oryctolagus cuniculus retro_ocun_249
Bos taurus retro_btau_15
Sus scrofa retro_sscr_6
Canis familiaris retro_cfam_193
Equus caballus retro_ecab_110
Parental genes homology:
Parental genes homology involve 24 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000118731 retrocopy
retro_amel_10,
Bos taurus ENSBTAG000000187182 retrocopies
retro_btau_15, retro_btau_650,
Canis familiaris ENSCAFG000000162201 retrocopy
retro_cfam_193,
Callithrix jacchus ENSCJAG000000086251 retrocopy
retro_cjac_196,
Cavia porcellus ENSCPOG000000208851 retrocopy
retro_cpor_88,
Equus caballus ENSECAG000000007621 retrocopy
retro_ecab_110,
Homo sapiens ENSG000001973121 retrocopy
retro_hsap_96,
Gorilla gorilla ENSGGOG00000013537 1 retrocopy
retro_ggor_143 ,
Macropus eugenii ENSMEUG000000061481 retrocopy
retro_meug_1364,
Myotis lucifugus ENSMLUG000000306691 retrocopy
retro_mluc_68,
Macaca mulatta ENSMMUG000000199121 retrocopy
retro_mmul_231,
Monodelphis domestica ENSMODG000000035151 retrocopy
retro_mdom_282,
Mustela putorius furoENSMPUG000000163321 retrocopy
retro_mputfur_1509,
Mus musculus ENSMUSG000000785151 retrocopy
retro_mmus_67,
Oryctolagus cuniculus ENSOCUG000000238911 retrocopy
retro_ocun_249,
Otolemur garnettii ENSOGAG000000277091 retrocopy
retro_ogar_4,
Ochotona princeps ENSOPRG000000184481 retrocopy
retro_opri_4,
Pongo abelii ENSPPYG000000018411 retrocopy
retro_pabe_158,
Pan troglodytes ENSPTRG000000240591 retrocopy
retro_ptro_570,
Pteropus vampyrus ENSPVAG000000050841 retrocopy
retro_pvam_420,
Rattus norvegicus ENSRNOG000000122741 retrocopy
retro_rnor_2606,
Sus scrofa ENSSSCG000000034621 retrocopy
retro_sscr_6,
Ictidomys tridecemlineatus ENSSTOG000000194471 retrocopy
retro_itri_93,
Tarsius syrichta ENSTSYG000000025221 retrocopy
retro_tsyr_1120,


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