RetrogeneDB ID:

retro_meug_1608

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold48234:6547..7716(+)
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_1608
GAGACCTTAGGAAGAATCATGAATGTGACTGGAGAGCTTATCGATGAAGGGGTCCAATCAAAACCAAACAGTTTGCTGCT
ATTCATGCTGAGGCTCCTGAATTCGTAGAGATGAGTGTAGAGCAAGAAATCCTGGTCACTGGCATCAAAGTTGTGGATCT
TTTGGCCCCATATGCCAAGGGTGGCAAAATTGGTCTCTTTGGTGGTGCTGGTGTGGGAAAGACGGTATTGATTATGGAAC
TAATCAACAATGTTGCCAATGCCCGCGGTGGTTATTCTGTGTTTGCTGGTGTTGGTGAACGGACTCGAGAAGGCAATGAC
TTGTACCACGAGATAATTGAGTCTGGTGTCATCAATCTGAAGGATACCACTTCCAAAGTAGCGTTGGAATATGGTCAAAT
GAATGAACCACCTGGTACTCGAGCTCGGGTAGCCTTGACTGGCCTCACTGTGGCTGAATACTTCAGAGATCAAGAGGGTC
AGGATGTATTGCTCTTCATTGATAATATCTTCCGATTCACTCAGGCTGGCTCAGAGGTGTCTGCTTTACTAGGCAGAATC
CCCTCTGCTGTCGGGTACCAACCCACTTTGGCCACTGATATGGGCACCATGCAGGAAAGAATTACCACAACCAAGAAAGG
TTCTATCACCTCTGTGCAAGCCATCTATGTCCCTGCCGATGACTTGACTGACCCTGCTCCTGCCACCATCTTTGCCCACT
TGGATGCTACCACTGTGCTGTCCCGGGCTATTGCTGAGCTGGGCATTTATCCTGCAGTGGATCCTCTGGACTCCACTTCC
CGGATCATGGACCCCCAACATTGTTGGCAATGAGCACTATGATGTTGCCCGAGGTGTGCAAAAGATTCTGCAGGACTATA
AGTCCCTCCAGGATACCATTGCTATCCTTGGTATGGATGAGCTGTCTGAAGAAGACAAGTTGACAGTGTCTTGGGCCGGA
AAATCCAGCATTTCTTGTCACAGCCATTCCAGGTTGCTGAGGTATTCACAGGACACTTGGGGAAGTTGGTACCCCTGAAA
GAAACTATTAAGGGATTCCAGCAAATCTTGGCAGGTCAGTATGACCATCTCCCAGAGCAGGCCTTCTATATGGTCAGACC
CATTGAATAAGCTGTGACAAAAGCTGAAAAACTGGCTGAAGAGCACTCG

ORF - retro_meug_1608 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.67 %
Parental protein coverage: 73.86 %
Number of stop codons detected: 1
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalETLGRIMNVIGEPIDE-RGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGG
ETLGRIMNV.GE.IDE.RGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGG
RetrocopyETLGRIMNVTGELIDE<RGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGG
ParentalAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDTTSKVALVYGQMNEPPG
AGVGKTVLIMELINNVA.A.GGYSVFAGVGERTREGNDLYHE.IESGVINLKDTTSKVAL.YGQMNEPPG
RetrocopyAGVGKTVLIMELINNVANARGGYSVFAGVGERTREGNDLYHEIIESGVINLKDTTSKVALEYGQMNEPPG
ParentalARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERIT
.RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERIT
RetrocopyTRARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERIT
ParentalTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMD-PNIVGNE
TTKKGSITSVQAIYVPADDLTDPAPAT.FAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMD.PNIVGNE
RetrocopyTTKKGSITSVQAIYVPADDLTDPAPATIFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMD>PNIVGNE
ParentalHYDVARGVQKILHDYKSLQDIIAILGMDELSEEDKLTVSRA-RKIQRFLSQPFQVAEVFTGHLGKLVPLK
HYDVARGVQKIL.DYKSLQD.IAILGMDELSEEDKLTVS.A.RKIQ.FLSQPFQVAEVFTGHLGKLVPLK
RetrocopyHYDVARGVQKILQDYKSLQDTIAILGMDELSEEDKLTVSWA<RKIQHFLSQPFQVAEVFTGHLGKLVPLK
ParentalETIKGFQQILAGQYDHLPEQAFYMVGPIEEAVTKAEKLAEEHS
ETIKGFQQILAGQYDHLPEQAFYMV.PIE.AVTKAEKLAEEHS
RetrocopyETIKGFQQILAGQYDHLPEQAFYMVRPIE*AVTKAEKLAEEHS

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_1608 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_1608 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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