RetrogeneDB ID: retro_meug_1727

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold55024:11066..11931(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000013860
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000016209
• Aliases: None
• Description: None

Sequence

>retro_meug_1727
AAGGACCTATGGAGGGAATGAAGAGCAACATGGGAGAAGAATTTGAAAAAGATTGAAATGCACAATCTGGAGTAGAGACT
GGCAAATGTAGTTTCTGGATGGAAATGAACAAGTTTGGAGATATGACCAATGAGGAATTCAAACAAGTGAGGAATGGCTT
AAGACATGAAAGATTTCAAATGAACACCAGAGGAACTTAAGAACATCTCTTTGAACAGATCCCTGAACCTATAGACTAGA
AAGACAAAGGCTATATAACTTCTGTTAAGGATCAGGGTTCTAGCTGGGTGTTCAGTACAACTGGTTCCCTGGAAGGCCAG
TGGTTCTATAAGAGTGACAAACTTGTTTCACTTAGTGAACAGAATTTGATGGACTGCTCTTGGGATGATATCAACATTGG
ATGTCATGGTGGTTTAATGGATCATGCCCTTGAATATATGAAGGAAAATGGAAGCATTGATACAGAGGAATCCTATCCCT
GTCTTAGACTGGATGGCAACTATTGGTATAAGCCAGAAACCTCTGCTGCTAATGTCACTGGATATGTGGACATCCCATCT
GGGAGGGAAAGCACTCTCACAGAGGCTGTGGCAACCATGGGTCCCATCTCGGTTGCTACTGATGCAGAGCGTCCATCTTT
CCAGTTCAATGAGTCTGGTGTTTATTATGAACCACACTGCAGTAGTCAAAATCTAAATCATGCTGTATTGGTTGTGGGAT
GTGCTGCTGCTGAAGACACGTAGAGAAATACTGGATTGTCAAGAATAGCTATGAGGAAGATTGGGGCAACTATGTATATA
TTGTAATGGCCAGGGACCAGGATAACCATTGTGGAATAGCAGCATTAGCCAGCTGTCCTGAAGTA

Alignment

ORF - retro_meug_1727 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.54 %
• Parental protein coverage: 87.01 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EDNWR--RATWEKNLRMIEMHNLEYR-AGKHSFRMEMNKFGDMTNEEFRQVMNGFQKRDFKKGNLFR-EP
          .D.WR..RATWEKNL..IEMHNLE.R..GK.SF.MEMNKFGDMTNEEF.QV.NG.....F........E.
Retrocopy KDLWRE*RATWEKNLKKIEMHNLE*R<TGKCSFWMEMNKFGDMTNEEFKQVRNGLRHERFQMNTRGT*EH

Parental  PFVKIPESIDWRKKGAVTPAKNQGVCGSSWAFSATGSLEGQWFLKTGKLVSLSEQNLVDCSAAEGSCGCE
          .F..IPE.ID...KG..T..K.Q...GSSW.FS.TGSLEGQWF.K..KLVSLSEQNL.DCS......GC.
Retrocopy LFEQIPEPID*KDKGYITSVKDQ---GSSWVFSTTGSLEGQWFYKSDKLVSLSEQNLMDCSWDDINIGCH

Parental  TGSPENAFVYVKEHGGIDTEESYPYIGMVGNCQYKAETAGANVTGYVDLPQ-LESALKMAVATVGPISVY
          .G....A..Y.KE.G.IDTEESYP.....GN..YK.ET..ANVTGYVD.P...ES.L..AVAT.GPISV.
Retrocopy GGLMDHALEYMKENGSIDTEESYPCLRLDGNYWYKPETSAANVTGYVDIPSGRESTLTEAVATMGPISVA

Parental  IDAGHLSFRFYESGVYYEPECSSYELTHYMLVVGYNVDEGT-EEKYWIVKNSWGEDWGDKGYISMARDEY
          .DA...SF.F.ESGVYYEP.CSS..L.H..LVVG....E.T..EKYWIVKNS..EDWG...YI.MARD..
Retrocopy TDAERPSFQFNESGVYYEPHCSSQNLNHAVLVVGCAAAEDT<VEKYWIVKNSYEEDWGNYVYIVMARDQD

Parental  NHCGIATEATYPKV
          NHCGIA..A..P.V
Retrocopy NHCGIAALASCPEV

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1727 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1727 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 18 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001149	1 retrocopy	retro_cfam_43,
Choloepus hoffmanni	ENSCHOG00000007548	8 retrocopies	retro_chof_1227, retro_chof_1332, retro_chof_1345, retro_chof_141, retro_chof_1464, retro_chof_2392, retro_chof_383, retro_chof_424,
Dasypus novemcinctus	ENSDNOG00000012037	1 retrocopy	retro_dnov_2387,
Dipodomys ordii	ENSDORG00000019810	1 retrocopy	retro_dord_197,
Echinops telfairi	ENSETEG00000007977	1 retrocopy	retro_etel_1465,
Macropus eugenii	ENSMEUG00000002168	2 retrocopies	retro_meug_1349, retro_meug_1567,
Macropus eugenii	ENSMEUG00000014293	1 retrocopy	retro_meug_1873,
Macropus eugenii	ENSMEUG00000016209	2 retrocopies	retro_meug_159, retro_meug_1727 ,
Myotis lucifugus	ENSMLUG00000003975	1 retrocopy	retro_mluc_2231,
Myotis lucifugus	ENSMLUG00000025440	1 retrocopy	retro_mluc_2399,
Macaca mulatta	ENSMMUG00000013861	1 retrocopy	retro_mmul_1669,
Monodelphis domestica	ENSMODG00000002844	1 retrocopy	retro_mdom_1101,
Otolemur garnettii	ENSOGAG00000001349	2 retrocopies	retro_ogar_1053, retro_ogar_1373,
Ochotona princeps	ENSOPRG00000001030	2 retrocopies	retro_opri_186, retro_opri_499,
Petromyzon marinus	ENSPMAG00000003453	1 retrocopy	retro_pmar_7,
Tupaia belangeri	ENSTBEG00000016406	1 retrocopy	retro_tbel_2841,
Tarsius syrichta	ENSTSYG00000002858	2 retrocopies	retro_tsyr_150, retro_tsyr_603,
Vicugna pacos	ENSVPAG00000004397	1 retrocopy	retro_vpac_433,