RetrogeneDB ID:

retro_meug_2174

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold98233:8012..9221(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMEUG00000010779
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_meug_2174
GATGACTCTTTCAACACCTTCTTTAGTGAAACTGGGACTGGCAAGCATGTTCCCCATGCTGGATTTGTAGACCTGGAACC
AACTGTTATTGATGAAGTTTGAACTGGAACCTACTGCCAGTTCTTCCATCCTGAGCAGCTGATCACTGGCAAAGAAGATG
CCGCCAATAACTACACCCATGGACACTATACTATTGGCAAAGAAATAATTGACATTGTTCCGGACAGAATTCGGAAACTT
ACTGATCTGTGCACAGATCTTCAGGGCTTCTTGGTTTTCCACAGGTTTGGTGGTAGGACTGCCTCTGCTTCACCTCTATG
CTGATGGAATGTCTGTCCACTGATTATGGCAAGAAGTCCAAGGTGAAGTTCTCCATTTACTCAGCCCCTCAGGTTTCCAC
AGTAGTAGTGGAACCGTACAACTCCATTCTGATCACTCAAACCACTCTGGAGCACTCTGATTATCCCTTCATGTTAGACA
ATGAAGCCATCTATGATATCTGTTGCAGAAACCTTGACTTTGAATGCCCAACCTATACTAATCTGAATCATCTTATTAAG
CAAATTGTATCCTCCATCACTGCCTCTCTCTGAGTGGATGGTGCCCTGAATGTTGATCTGACAGAATTTCAGACCACCGT
GGTGCCCTATTCCCATATTTATTTCCTTCTGGCTACATATGCCCCAGTCATCTCCGATGAGAAAACCTACCATGAGCAGT
TGATTGTAGCAGAGATCACCAGCGCTTGCTTTGAGCCTGCCAAACATGCTAAAATGTGACCCTCGTCATGGTAAGTACAT
GACTTGTTGCCTGCTCTGTCATGGTGATGTGGTTCCTGAAGATGTCAATGCTGCTATTGCCACTATCAGGACAAAGCGTA
TCATCCAGTTTGTGGACTGGTGCCCAACTGGCTTCAAGGTTGGTATCAATCACCAGCCTCGCACTGTGATTCCTAGTGGT
GACCTGGCCAAGGTACAGCTGGCTGTGCGCATGTTGAGCAACACTACAGCTGTTGCTGAGGCCTTGTCTCACCTGGACCA
CAAATTTGATCTGATATATGCCAAGTGTGCCTTTGTCCATTGGTATGTGGGGGAGGGCATGGAGGAAGGAAAGTTCTCTG
AGGCATGAGAGGATATGGCTGCCCTGGAGAAAGTTTATAAGAAGTTTGGAGCAGATAGTGCTGATGGGGAAAATGAAGGT
AAGGAATAT

ORF - retro_meug_2174 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.15 %
Parental protein coverage: 90.02 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalDDSFNTFFSETGAGKHVPRAVFVDLEPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEII
DDSFNTFFSETG.GKHVP.A.FVDLEPTVIDEV.TGTY.Q.FHPEQLITGKEDAANNY..GHYTIGKEII
RetrocopyDDSFNTFFSETGTGKHVPHAGFVDLEPTVIDEV*TGTYCQFFHPEQLITGKEDAANNYTHGHYTIGKEII
ParentalDIVLDRIRKLADQCTGLQGFLVFHSFGGGTGSG-FTSLLMERLSVDYGKKSKLEFSIYPAPQVSTAVVEP
DIV.DRIRKL.D.CT.LQGFLVFH.FGG.T.S..FTS.LME.LS.DYGKKSK..FSIY.APQVST.VVEP
RetrocopyDIVPDRIRKLTDLCTDLQGFLVFHRFGGRTASA<FTSMLMECLSTDYGKKSKVKFSIYSAPQVSTVVVEP
ParentalYNSILTTHTTLEHSDCAFMVDNEAIYDICRRNLDIERPTYTNLNRLISQIVSSITASLRFDGALNVDLTE
YNSIL.T.TTLEHSD..FM.DNEAIYDIC.RNLD.E.PTYTNLN.LI.QIVSSITASL..DGALNVDLTE
RetrocopyYNSILITQTTLEHSDYPFMLDNEAIYDICCRNLDFECPTYTNLNHLIKQIVSSITASL*VDGALNVDLTE
ParentalFQTNLVPYPRIHFPLATYAPVISAEKAYHEQLTVAEITNACFEPA-NQMVKCDPRHGKYMACCLLYRGDV
FQT..VPY..I.F.LATYAPVIS.EK.YHEQL.VAEIT.ACFEPA.N...KCDPRHGKYM.CCLL..GDV
RetrocopyFQTTVVPYSHIYFLLATYAPVISDEKTYHEQLIVAEITSACFEPA>NML-KCDPRHGKYMTCCLLCHGDV
ParentalVPKDVNAAIATIKTKRSIQFVDWCPTGFKVGINYQPPTVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDH
VP.DVNAAIATI.TKR.IQFVDWCPTGFKVGIN.QP.TV.P.GDLAKVQ.AV.MLSNTTA.AEA...LDH
RetrocopyVPEDVNAAIATIRTKRIIQFVDWCPTGFKVGINHQPRTVIPSGDLAKVQLAVRMLSNTTAVAEALSHLDH
ParentalKFDLMYAKRAFVHWYVGEGMEEGEFSEAREDMAALEKDYEEVGVDSVEGEGEEEGEEY
KFDL.YAK.AFVHWYVGEGMEEG.FSEA.EDMAALEK.Y...G.DS....GE.EG.EY
RetrocopyKFDLIYAKCAFVHWYVGEGMEEGKFSEA*EDMAALEKVYKKFGADS--ADGENEGKEY

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_2174 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_2174 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 29 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000122441 retrocopy
retro_btau_402,
Bos taurus ENSBTAG000000399921 retrocopy
retro_btau_840,
Canis familiaris ENSCAFG000000086612 retrocopies
retro_cfam_960, retro_cfam_978,
Choloepus hoffmanni ENSCHOG000000084442 retrocopies
retro_chof_179, retro_chof_360,
Callithrix jacchus ENSCJAG000000208742 retrocopies
retro_cjac_1603, retro_cjac_1861,
Dipodomys ordii ENSDORG000000001543 retrocopies
retro_dord_460, retro_dord_564, retro_dord_786,
Equus caballus ENSECAG000000095041 retrocopy
retro_ecab_1041,
Erinaceus europaeus ENSEEUG000000040681 retrocopy
retro_eeur_669,
Echinops telfairi ENSETEG000000102962 retrocopies
retro_etel_1816, retro_etel_1993,
Felis catus ENSFCAG000000248521 retrocopy
retro_fcat_361,
Felis catus ENSFCAG000000272771 retrocopy
retro_fcat_596,
Felis catus ENSFCAG000000286893 retrocopies
retro_fcat_1802, retro_fcat_254, retro_fcat_798,
Homo sapiens ENSG000001234161 retrocopy
retro_hsap_808,
Macropus eugenii ENSMEUG00000010779 2 retrocopies
retro_meug_1648, retro_meug_2174 ,
Macropus eugenii ENSMEUG000000111674 retrocopies
retro_meug_1121, retro_meug_157, retro_meug_1616, retro_meug_1964,
Microcebus murinus ENSMICG000000008041 retrocopy
retro_mmur_103,
Monodelphis domestica ENSMODG000000152062 retrocopies
retro_mdom_1632, retro_mdom_348,
Mus musculus ENSMUSG000000230046 retrocopies
retro_mmus_1562, retro_mmus_1607, retro_mmus_1742, retro_mmus_1987, retro_mmus_3297, retro_mmus_3327,
Mus musculus ENSMUSG000000430911 retrocopy
retro_mmus_843,
Oryctolagus cuniculus ENSOCUG000000280321 retrocopy
retro_ocun_111,
Otolemur garnettii ENSOGAG000000094351 retrocopy
retro_ogar_240,
Pan troglodytes ENSPTRG000000129501 retrocopy
retro_ptro_2158,
Pteropus vampyrus ENSPVAG000000046461 retrocopy
retro_pvam_929,
Pteropus vampyrus ENSPVAG000000107981 retrocopy
retro_pvam_1019,
Rattus norvegicus ENSRNOG000000035971 retrocopy
retro_rnor_2819,
Rattus norvegicus ENSRNOG000000155443 retrocopies
retro_rnor_1193, retro_rnor_2260, retro_rnor_960,
Sus scrofa ENSSSCG000000001902 retrocopies
retro_sscr_380, retro_sscr_702,
Ictidomys tridecemlineatus ENSSTOG000000194971 retrocopy
retro_itri_203,
Tursiops truncatus ENSTTRG000000100421 retrocopy
retro_ttru_531,


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