RetrogeneDB ID:

retro_ptro_1637

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2B:127940555..127941597(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:WBP11
Ensembl ID:ENSPTRG00000004724
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1637
AGAGCTGCGTTTTTAAAAATGAAGGATCCCAAACAGATTACCCGGGACATGGAGAAACTGGATGAAATGGAGTTTAACCC
ACTGCAACAGCCACAATTAAATGAGAAAGTACTGAAAAACAAGCGTAAAAAACTGCGTGAAACCTTTGAACATATTCTAT
GACTATGAAAAAGAAAATCCAGATATTTACAAGGACTTGAAAAACTAGAAGTAGAGTATGAACAGAAGAGGGCTCAACTT
AGGCAATATTTTGATGCTGTCGAGAATGCTCAGCAAGCGGAAGTGGAGAGCATTCTTTTGCCAGATGTGCCGCGTGCTCC
TTCCAACATTTTGATCCAGGACATTCCACTTCCTGGTCCCAGCCACTCTCCATCCTTAGGAAAACCTCAGCCTATGGACC
TCCAAGTCGGGCAGTTTCTATCCTTCCTCTTCTTGGGCATAATGTTCCACGTTTGCCCCCTGGCAGAAAATCTCCTGGCT
CTTCCCCGGCCCACCTCCTCCTGAAGTCTTGCACATGTATGGCCGTAAAGTGGGTTTTGCCCTAGATCTTCCCCTTCATG
GGCGAGATGAAGAAGACATGTTATATAATCCTGAACTTGCCCGGCAAGGTCATGGTGATGATGTTTCTAGCGCCAGTGAA
GATGATGGCCCTTCTGAGGACAAGGACCAACATAAGCATGGTAACAATCCTGATGATGGTGACACCAACAGATCAGATGG
AGAAAGTGGGGGGATGAATTGTGTACCGTGATGATGGTGAGAGAGACAGCAATGAAGAAAACAACTCAGGTCTGAGTGTA
CGGTTTGCAGAGATGCCTGGAAAATCAAGGAAGAAAAAGAAGAACATGAAGGGGTTAAGTCCTCTTCAAGCCATGATGCT
TCCATGGCAGGTCAAGAAGTCCCTGAGGAGAGACCAGAAGTAGAGGAATTTTCAGAGGACGATGATGAAGATGATTCTGA
TGACTCTGAAGCAGAAAAACAATCACAAAAACAGCATAAAGAAGAGTCTCATTCTGATGACACATCCACCGCTTCTTCAC
AG

ORF - retro_ptro_1637 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.87 %
Parental protein coverage: 54.45 %
Number of stop codons detected: 2
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalRAAVLKMKDPKQIIRDMEKLDEMEFNPVQQPQLNEKVLKDKRKKLRETFERILRLYEKENPDIYKELRKL
RAA.LKMKDPKQI.RDMEKLDEMEFNP.QQPQLNEKVLK.KRKKLRETFE.IL.L...........L.KL
RetrocopyRAAFLKMKDPKQITRDMEKLDEMEFNPLQQPQLNEKVLKNKRKKLRETFEHIL*L*KRKSRYL-QGLEKL
ParentalEVEYEQKRAQLSQYFDAVKNAQHVEVESIPLPDMPHAPSNILIQDIPLPG-AQPPSILKKTSAYGPPTRA
EVEYEQKRAQL.QYFDAV.NAQ..EVESI.LPD.P.APSNILIQDIPLPG..QP.SIL.KTSAYGPP.RA
RetrocopyEVEYEQKRAQLRQYFDAVENAQQAEVESILLPDVPRAPSNILIQDIPLPG<SQPLSILRKTSAYGPPSRA
ParentalVSILPLLGHGVPRLPPGRKPPGPP-PGPPPPQVVQMYGRKVGFALDLPPRRRD-EDMLYSPELAQRGHDD
VSILPLLGH.VPRLPPGRK.PG...PGPPPP.V..MYGRKVGFALDLP...RD.EDMLY.PELA..GH.D
RetrocopyVSILPLLGHNVPRLPPGRKSPGSS<PGPPPPEVLHMYGRKVGFALDLPLHGRDEEDMLYNPELARQGHGD
ParentalDVSSTSEDDGYPEDMDQDKHDDSTDDSDTDKSDGESD-GDE-FVHRDDGERDNNEEKKSGLSVRFADMPG
DVSS.SEDDG..ED.DQ.KH....DD.DT..SDGES..GDE..V.RDDGERD.NEE..SGLSVRFA.MPG
RetrocopyDVSSASEDDGPSEDKDQHKHGNNPDDGDTNRSDGESG<GDE<IVYRDDGERDSNEENNSGLSVRFAEMPG
ParentalKSRKKKKNMKELTPLQAMML-RMAGQEIPEEGREVEEFSEDDDEDDSDDSEAEKQSQKQHKEESHSDGTS
KSRKKKKNMK.L.PLQAMML..MAGQE.PEE..EVEEFSEDDDEDDSDDSEAEKQSQKQHKEESHSD.TS
RetrocopyKSRKKKKNMKGLSPLQAMML<SMAGQEVPEERPEVEEFSEDDDEDDSDDSEAEKQSQKQHKEESHSDDTS
ParentalTASSQ
TASSQ
RetrocopyTASSQ

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 48 .89 RPM
SRP007412_cerebellum 0 .00 RPM 84 .85 RPM
SRP007412_heart 0 .00 RPM 43 .34 RPM
SRP007412_kidney 0 .00 RPM 47 .88 RPM
SRP007412_liver 0 .00 RPM 37 .64 RPM
SRP007412_testis 0 .00 RPM 377 .48 RPM

ChIP-Seq - click to see more details

Pan troglodytes was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ptro_1637 retrocopy.

TSS - click to see more details

Pan troglodytes was not studied using FANTOM5 data.

Lab - click to see more details

retro_ptro_1637 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1637 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Gorilla gorilla retro_ggor_1711
Parental genes homology:
Parental genes homology involve 22 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147591 retrocopy
retro_btau_20,
Canis familiaris ENSCAFG000000129262 retrocopies
retro_cfam_1369, retro_cfam_1911,
Callithrix jacchus ENSCJAG000000216111 retrocopy
retro_cjac_1737,
Homo sapiens ENSG000000844632 retrocopies
retro_hsap_1878, retro_hsap_4719,
Gorilla gorilla ENSGGOG000000044483 retrocopies
retro_ggor_1375, retro_ggor_1711, retro_ggor_2932,
Macropus eugenii ENSMEUG000000139711 retrocopy
retro_meug_1952,
Myotis lucifugus ENSMLUG000000152161 retrocopy
retro_mluc_1074,
Macaca mulatta ENSMMUG000000192991 retrocopy
retro_mmul_1329,
Monodelphis domestica ENSMODG000000179491 retrocopy
retro_mdom_143,
Mustela putorius furoENSMPUG000000116191 retrocopy
retro_mputfur_280,
Mus musculus ENSMUSG000000302161 retrocopy
retro_mmus_2740,
Nomascus leucogenys ENSNLEG000000039261 retrocopy
retro_nleu_2651,
Oryctolagus cuniculus ENSOCUG000000171771 retrocopy
retro_ocun_974,
Otolemur garnettii ENSOGAG000000105181 retrocopy
retro_ogar_207,
Ochotona princeps ENSOPRG000000150083 retrocopies
retro_opri_107, retro_opri_1159, retro_opri_678,
Pongo abelii ENSPPYG000000043233 retrocopies
retro_pabe_1558, retro_pabe_2099, retro_pabe_3663,
Pan troglodytes ENSPTRG00000004724 3 retrocopies
retro_ptro_1260, retro_ptro_1637 , retro_ptro_3136,
Rattus norvegicus ENSRNOG000000055053 retrocopies
retro_rnor_1287, retro_rnor_2726, retro_rnor_741,
Rattus norvegicus ENSRNOG000000495931 retrocopy
retro_rnor_740,
Sorex araneus ENSSARG000000070851 retrocopy
retro_sara_753,
Sarcophilus harrisii ENSSHAG000000166491 retrocopy
retro_shar_81,
Tupaia belangeri ENSTBEG000000033941 retrocopy
retro_tbel_2213,


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