RetrogeneDB ID:

retro_mmul_81

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:1:215085077..215086394(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000001703
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:BECN1
Ensembl ID:ENSMMUG00000029971
Aliases:BECN1, beclin-1
Description:beclin-1 [Source:RefSeq peptide;Acc:NP_001253614]


Retrocopy-Parental alignment summary:






>retro_mmul_81
GCAGGAGTCAGTCCCTCCGCCATGACTTCCATCCGCTTCCTGTGCCAGCGCTGCCACCAGGCTCTAAGGCTGAGTTGCTC
CTCGGAGTCCGGGAGCCTCCCTGCAGCCGCGGCGCCCACCTCGGGGCAGGCTGGGCCCGGAGACACCCCGGAGCCCGGCG
CCACCACCAGCGAGGTGACAGATGCTGAGGAACCACAGGACGGCGCCTCCAGCAGACCCCTTCCAGGTGATGGCAGTGTG
TCCAAGGACCAGGCCAACGTCTTCACGCTGCTGGGGGAGCTTGGCGCCATGCAAACGCTCAGTAGCATCCAGAAGGCAGC
TGGTGACATTTTTGACATCGTCTCTGGCCAAGAAGATGTGGACCATCCCCTGTGTGAAGAGTGCACCGACAGTCTTCTAG
AGCAGCTGGACATCCAGCTCGCTCTCACAGAAGCTGAGAGTCAGAACTACCAACGCTGCCTGGAGACCGGGATGCTGGCG
ACCAGCGAGGACCAGACGGCGGCGCTGCGGGCGGAGCTGCGGGACCTGGAGCTGGAGGAGGCCAGGCTGGTGCAGGAGCT
GGAGGATGTGGACAGGAGCAATGCAAGAGCAGCCACGGATCTCGAGGCAGCCCAGGCAGAGGCTGCGGAGCTGGATCAGC
AGGAGAGGCGGTACTACAGGGAGTACAGTGCCTTGAAGTGGCAGCAGCTGGAACTGCTTGACCAGCTGGGGAACGTGGAG
AACCAGCTGCAATATGCCAGGGTCCAGATGGACCGGTTGAAGGAAATCAACTGTTTCACTGCCACGTTTGAGATCTGGGT
GGAGGGCTCCTTGGGCGTCATCAATAACTTCAGGTTGGGCTGCCTCCCCACTGTCCCTGTGGGCTGGAATGAGATTAACG
CTGCCTGGGGACAGGCGGCTTTGCTGCTCCTTGCCCTGGCCAATACAATTGGACTGCAGTTTCAGAGGTATCGACTCATC
CCCTGCGGAAACCATTCCTATCTGAAGTCTTTAACAGATGAGGGCACTGAGCTCCCCTTGTTCTCTTACGGGGGGCAGGA
TGTTTTCCTCAATAACAAGTTCGACCGCGCGATGGTGGCCTTGCTGGACTGCATGCAGCAGTTCAAGGAAGAGGCTGAGA
AGGGTGAGCTGGGCCTCTGTCTGCCCTACAGGATCCAGGTGGAGACAGGCCTGATGGAGGACGCTGGCGGCCGAGGGGAA
TGCTATTCCATCAGAACCCATCTGAACACGCAGGAGCTGTGGACAAAGGCACTCAAGTTCTTGCTTATAAATTTAAAGTG
GAGTCTCATCTGGGTTGCCTCAAGGTATCAAAAGTAG

ORF - retro_mmul_81 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.1 %
Parental protein coverage: 88.89 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalTTAQAKPGETQEEETNSGEEPFIETPRQDGVSRRFIPPARMMSTESANSFTLIGEASDGGTMENLSRRLK
T..QA.PG.T.E......E....E.P.QDG.S.R..P.....S...AN.FTL.GE....G.M..LS...K
RetrocopyTSGQAGPGDTPEPGATTSEVTDAEEP-QDGASSRPLPGDGSVSKDQANVFTLLGEL---GAMQTLSSIQK
ParentalVTGDLFDIMSGQTDVDHPLCEECTDTLLDQLDTQLNVTENECQNYKRCLEI-LEQMNEDDSEQLQMELKE
..GD.FDI.SGQ.DVDHPLCEECTD.LL.QLD.QL..TE.E.QNY.RCLE.......ED....L..EL..
RetrocopyAAGDIFDIVSGQEDVDHPLCEECTDSLLEQLDIQLALTEAESQNYQRCLETGMLATSEDQTAALRAELRD
ParentalLALEEERLIQELEDVEKNRKIVAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRY
L.LEE.RL.QELEDV.......A..LE..QAEA..LDQ.E..Y.REYS..K.QQLEL.D.L..VENQ..Y
RetrocopyLELEEARLVQELEDVDRSNARAATDLEAAQAEAAELDQQERRYYREYSALKWQQLELLDQLGNVENQLQY
ParentalAQIQLDKLKKTNVFNATFHIWHSGQFGTINNFRLGRLPSVPVEWNEINAAWGQTVLLLHALANKMGLKFQ
A..Q.D.LK..N.F.ATF.IW..G..G.INNFRLG.LP.VPV.WNEINAAWGQ..LLL.ALAN..GL.FQ
RetrocopyARVQMDRLKEINCFTATFEIWVEGSLGVINNFRLGCLPTVPVGWNEINAAWGQAALLLLALANTIGLQFQ
ParentalRYRLVPYGNHSYLESLTDKSKELPLYCSGGLRFFWDNKFDHAMVAFLDCVQQFKEEVEKGETRFCLPYRM
RYRL.P.GNHSYL.SLTD...ELPL...GG...F..NKFD.AMVA.LDC.QQFKEE.EKGE...CLPYR.
RetrocopyRYRLIPCGNHSYLKSLTDEGTELPLFSYGGQDVFLNNKFDRAMVALLDCMQQFKEEAEKGELGLCLPYRI
ParentalDVEKGKIEDTGGSGGSYSIKTQFNSEEQWTKALKFMLTNLKWGLAWVSSQF
.VE.G..ED.GG.G..YSI.T..N..E.WTKALKF.L.NLKW.L.WV.S..
RetrocopyQVETGLMEDAGGRGECYSIRTHLNTQELWTKALKFLLINLKWSLIWVASRY

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 0 .00 RPM 52 .89 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 57 .51 RPM
SRP007412_cerebellum 0 .00 RPM 38 .23 RPM
SRP007412_heart 0 .00 RPM 47 .64 RPM
SRP007412_kidney 0 .00 RPM 41 .90 RPM
SRP007412_liver 0 .00 RPM 19 .36 RPM
SRP007412_testis 0 .00 RPM 49 .53 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_81 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_81 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_81 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_268
Parental genes homology:
Parental genes homology involve 17 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000068671 retrocopy
retro_amel_16,
Bos taurus ENSBTAG000000199141 retrocopy
retro_btau_226,
Dipodomys ordii ENSDORG000000009561 retrocopy
retro_dord_675,
Felis catus ENSFCAG000000131361 retrocopy
retro_fcat_62,
Homo sapiens ENSG000001265811 retrocopy
retro_hsap_335,
Macropus eugenii ENSMEUG000000117001 retrocopy
retro_meug_600,
Macaca mulatta ENSMMUG00000029971 1 retrocopy
retro_mmul_81 ,
Monodelphis domestica ENSMODG000000150641 retrocopy
retro_mdom_1778,
Mus musculus ENSMUSG000000350861 retrocopy
retro_mmus_390,
Nomascus leucogenys ENSNLEG000000118401 retrocopy
retro_nleu_1776,
Oryctolagus cuniculus ENSOCUG000000159643 retrocopies
retro_ocun_1021, retro_ocun_1732, retro_ocun_218,
Procavia capensis ENSPCAG000000140491 retrocopy
retro_pcap_345,
Pan troglodytes ENSPTRG000000228191 retrocopy
retro_ptro_268,
Sorex araneus ENSSARG000000003671 retrocopy
retro_sara_136,
Sus scrofa ENSSSCG000000173861 retrocopy
retro_sscr_75,
Ictidomys tridecemlineatus ENSSTOG000000126121 retrocopy
retro_itri_25,
Tursiops truncatus ENSTTRG000000117161 retrocopy
retro_ttru_595,


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