RetrogeneDB ID: retro_meug_159

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_4690:94500..95504(-)
• Located in intron of: ENSMEUG00000004118

Retrocopy information

• Ensembl ID: ENSMEUG00000004179
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

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

Sequence

>retro_meug_159
ATGAATTTCTACCTGTGTTTAGCTTCCCTATGCTTGGGGATAGCAGCTGCTGCTCCACAATTTGACCAGACTTTAGATGC
TAAGTGGTATCAATGGAAGTCACAACACAGAAGGACCTATGGAGCGAATGAAGATAATTGGAGGAGAGCAACATGGGAGA
AGAATTTGAGAATGACTGAAATGCACAATCTGGAGTACAGTGCTGGCAAACATGGTTTCCAGATGGAAATGAACAAGTTT
GGAGATATGACCAATGAGGAATTCAGACAAGTGATGAATGGTTTTAGACATGATAGATTTCAGAGGAAGGCCAAAGGAAA
TCTGTTTCGTGAACCTTTCTTTGTAAAGATCCCTAAATCTGTAGACTGGAGAGAAAAAGGCTATGTAACTGCTGTAAGAA
TCAGGGTCAGTGTGGTTCTTGCTGGGTATTTAGTGCAACTGGTACCCTGGAAGGCCAGTGGTTCCATAAGACAGGGAAAC
TTGTTCCACTTAGTGAATAGAATTTGGTTGACTGCTCTAAGGATGATGGTAATGAAGGCTGTAATGGTGGTTTAATGGAT
AATGCCTTTCTATATGTGAAGAAAAATAAAGGCATTGATACAGAGGAAACCTATCCATACGAAGCAAAGGATGGCAGCTG
TCATTATCGGCCAGAATGCTCCAGTGTCTATGTCACTGGATTTGTGGATATCCCATCAGGGCAGGAAAATGCTCTTAAAA
AGGCTGTAGCAACCGTGGGTCCCATCTCTGTGGCTGTTGATGCAGGACATACATCCTTCCAATTCTATCGGTCTGGGGTT
TATTATGAACCTGAATGCAGTAGTCAACAGCGGGATCATGGCATATTTGTTGTGGGCTATGGTGTGGAGGGAAAAAATGG
AAAGAAATACTGGATTGTCAAGAACAGCTGGGGTGAAGAGTGGGGTGACAAGGGGTACATTTTGATGAGCAGGGACCAGA
GTAACCACTGTGGAATAGCAACTGCAGCCAGCTATCCTGAAGTA

Alignment

ORF - retro_meug_159 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.32 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MNFYLCLASLCLGIAAAAPQLDPTLDAKWEQWKSQHRRTYGGNEDNWRRATWEKNLRMIEMHNLEYRAGK
          MNFYLCLASLCLGIAAAAPQ.D.TLDAKW.QWKSQHRRTYG.NEDNWRRATWEKNLRM.EMHNLEY.AGK
Retrocopy MNFYLCLASLCLGIAAAAPQFDQTLDAKWYQWKSQHRRTYGANEDNWRRATWEKNLRMTEMHNLEYSAGK

Parental  HSFRMEMNKFGDMTNEEFRQVMNGFQKRDFK---KGNLFREPPFVKIPESIDWRKKGAVTP-AKNQGVCG
          H.F.MEMNKFGDMTNEEFRQVMNGF....F....KGNLFREP.FVKIP.S.DWR.KG.VT...KNQG.CG
Retrocopy HGFQMEMNKFGDMTNEEFRQVMNGFRHDRFQRKAKGNLFREPFFVKIPKSVDWREKGYVTA<CKNQGQCG

Parental  SSWAFSATGSLEGQWFLKTGKLVSLSEQNLVDCSAAEGSCGCETGSPENAFVYVKEHGGIDTEESYPYIG
          S.W.FSATG.LEGQWF.KTGKLV.LSE.NLVDCS...G..GC..G...NAF.YVK...GIDTEE.YPY..
Retrocopy SCWVFSATGTLEGQWFHKTGKLVPLSE*NLVDCSKDDGNEGCNGGLMDNAFLYVKKNKGIDTEETYPYEA

Parental  MVGNCQYKAETAGANVTGYVDLPQ-LESALKMAVATVGPISVYIDAGHLSFRFYESGVYYEPECSSYELT
          ..G.C.Y..E.....VTG.VD.P...E.ALK.AVATVGPISV..DAGH.SF.FY.SGVYYEPECSS....
Retrocopy KDGSCHYRPECSSVYVTGFVDIPSGQENALKKAVATVGPISVAVDAGHTSFQFYRSGVYYEPECSSQQRD

Parental  HYMLVVGYNVDEGTEEKYWIVKNSWGEDWGDKGYISMARDEYNHCGIATEATYPKV
          H...VVGY.V......KYWIVKNSWGE.WGDKGYI.M.RD..NHCGIAT.A.YP.V
Retrocopy HGIFVVGYGVEGKNGKKYWIVKNSWGEEWGDKGYILMSRDQSNHCGIATAASYPEV

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_159 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_159 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,