RetrogeneDB ID:

retro_meug_685

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold16077:4259..5419(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5B
Ensembl ID:ENSMEUG00000002875
Aliases:None
Description:ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide [Source:HGNC Symbol;Acc:830]


Retrocopy-Parental alignment summary:






>retro_meug_685
CTAGGAACAGTCATGAATGTGATTGGAGAGCCTGTCGCTGAAAGGGGTCCAATCAAAACCCAACAGTGTGCTGCTATTCA
TGCTGAGGCTCCTAAATTCATAGAGATGAGTGTAGAGCAAGAAATTCTGGTCACTGGCATCACAGTTGTGGATCTTTTGG
CCCCATATGCCAAGCGTGGCATAACGGGTCTTTTTGGTGGTGCTGGTGTGGAAAAGACGGTATTGATTATGGAACTAATC
AACAATGTTACCAAGGCCCATGGTGGTTATTCTGTGTTTGCTGGTGTTGGTGAATGGACTTGAGAAGGCAATGACTTGTA
CCACAAGATGATTGAGTCTGGTGTCATCAGTCTGAAGGATGCCACTTCCAAGATAGCATTGGTATATAGCCAAATGAATG
AACCACCTGGCACTCAAGCTCAGGTAGCCTTGACTGGCCTCACTGTGGCTGAATACTTCAGAGATCAAGACAGTCAGGAT
GTATTGCTCTTCATTGATAATATCTTCCGATTCACTCAGACTGGCTCAGAGGTGTCTGCTTTACTAGGCTGAATCCCCTC
TGCTGTCGGTTACCAACCCACTTTGGCCACTGATATGGGCATCATTCAGGAAAGAATTACCACAACCAAGAAAGTTTCTA
TCACCCCTGTGCAAGCCATCTATGTCCCTGCTGATGACCTGACTGACCCTGCTCCTGCCACCACCTTTTCCCACTTGGAT
GCTACCACTATGCTGTCCTGGGCTATTGCTGAACTGGGCATTTACCCTGCAGTGGATCCTCTGGACTCCACTTTCCGGAT
CATGGACCCCAACATTGTTGGCAATGAGCACTATGATGTTGCCCGAGGTGTGCAAAAGATTCTGCAGGACTATAAGTCCC
TCCAGGACATCATTGCTATCCTTGGTATGGATAAGTTGTCTGAAGAAGACAAGTTGACAGTGTCTCAGACCAGAAAATCC
AGACTTTCTTGTCATAGCCATTCCAGGTTGCTGAGGTATTCACAGGACACATGAGGAAGTTGGTACCCTTGAAAGAAACT
ATTAAGGGATTCCAGCAAATCTTGGCAGGTCAGTATGGCCATCTCCCAGAACAGGCCTTCTATATGGTCAGACCCATTGA
AGAAGCTGTGACAAAAGCCGAAAAACTGGCAGAAGAGCAC

ORF - retro_meug_685 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.89 %
Parental protein coverage: 73.3 %
Number of stop codons detected: 3
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGV
LG..MNVIGEP..ERGPIKT.Q.AAIHAEAP.F.EMSVEQEILVTGI.VVDLLAPYAK.G..GLFGGAGV
RetrocopyLGTVMNVIGEPVAERGPIKTQQCAAIHAEAPKFIEMSVEQEILVTGITVVDLLAPYAKRGITGLFGGAGV
ParentalGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDTTSKVALVYGQMNEPPGARA
.KTVLIMELINNV.KAHGGYSVFAGVGE.T.EGNDLYH.MIESGVI.LKD.TSK.ALVY.QMNEPPG..A
RetrocopyEKTVLIMELINNVTKAHGGYSVFAGVGEWT*EGNDLYHKMIESGVISLKDATSKIALVYSQMNEPPGTQA
ParentalRVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTK
.VALTGLTVAEYFRDQ..QDVLLFIDNIFRFTQ.GSEVSALLG.IPSAVGYQPTLATDMG..QERITTTK
RetrocopyQVALTGLTVAEYFRDQDSQDVLLFIDNIFRFTQTGSEVSALLG*IPSAVGYQPTLATDMGIIQERITTTK
ParentalKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGNEHYDV
K.SIT.VQAIYVPADDLTDPAPATTF.HLDATT.LS.AIAELGIYPAVDPLDST.RIMDPNIVGNEHYDV
RetrocopyKVSITPVQAIYVPADDLTDPAPATTFSHLDATTMLSWAIAELGIYPAVDPLDSTFRIMDPNIVGNEHYDV
ParentalARGVQKILHDYKSLQDIIAILGMDELSEEDKLTVSRAR-KIQRFLSQPFQVAEVFTGHLGKLVPLKETIK
ARGVQKIL.DYKSLQDIIAILGMD.LSEEDKLTVS..R.KIQ.FLS.PFQVAEVFTGH..KLVPLKETIK
RetrocopyARGVQKILQDYKSLQDIIAILGMDKLSEEDKLTVSQTR<KIQTFLS*PFQVAEVFTGHMRKLVPLKETIK
ParentalGFQQILAGQYDHLPEQAFYMVGPIEEAVTKAEKLAEEH
GFQQILAGQY.HLPEQAFYMV.PIEEAVTKAEKLAEEH
RetrocopyGFQQILAGQYGHLPEQAFYMVRPIEEAVTKAEKLAEEH

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Macropus eugenii was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_meug_685 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_685 was not experimentally validated.

Retrocopy orthology:
Macropus eugenii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 17 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000167521 retrocopy
retro_acar_181,
Bos taurus ENSBTAG000000133151 retrocopy
retro_btau_1264,
Choloepus hoffmanni ENSCHOG000000053501 retrocopy
retro_chof_1544,
Callithrix jacchus ENSCJAG000000335712 retrocopies
retro_cjac_1488, retro_cjac_928,
Dasypus novemcinctus ENSDNOG000000112891 retrocopy
retro_dnov_361,
Echinops telfairi ENSETEG000000102081 retrocopy
retro_etel_2162,
Homo sapiens ENSG000001109551 retrocopy
retro_hsap_2128,
Gorilla gorilla ENSGGOG000000115961 retrocopy
retro_ggor_1648,
Macropus eugenii ENSMEUG00000002875 6 retrocopies
retro_meug_1416, retro_meug_1608, retro_meug_411, retro_meug_430, retro_meug_685 , retro_meug_908,
Microcebus murinus ENSMICG000000010841 retrocopy
retro_mmur_495,
Macaca mulatta ENSMMUG000000010271 retrocopy
retro_mmul_103,
Pongo abelii ENSPPYG000000046682 retrocopies
retro_pabe_1921, retro_pabe_2032,
Pan troglodytes ENSPTRG000000051071 retrocopy
retro_ptro_1557,
Sus scrofa ENSSSCG000000004051 retrocopy
retro_sscr_453,
Tarsius syrichta ENSTSYG000000099621 retrocopy
retro_tsyr_644,
Tursiops truncatus ENSTTRG000000021441 retrocopy
retro_ttru_371,
Vicugna pacos ENSVPAG000000040252 retrocopies
retro_vpac_405, retro_vpac_562,


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