RetrogeneDB ID: retro_meug_1077

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold279471:823..1587(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000014684
• Aliases: None
• Description: None

Sequence

>retro_meug_1077
GGTGGTCGGGACTGAGGCATCCCTCAGGGCTGAGGCCAGGGCAGTCCAGAAGGTTTCCAAGAAGGAAAGAAGGTCACTGT
GGAGCCTCATTGACATGAGGGAGTTTTTATTTGTCAAGGAAAGGAAGATTCTCTAGTCACAAAGGACATGGTGCTGGGAA
GTCAGTCTATGGTGAGAAGAGAATCACTGTGGAGGATGATGAGTTGAAGCTGGAGTACTATGGTTGGAACTGCTTCTAGT
CAAAGCTGGCTGCAGTCATCCTTGGTGTAGTGGGTCAGATTCACATCCAACCTGGGACCAAAGTACTCTACTTGGGAGCA
GCATCTGGCACTACTATCTCACATGTCTCTGACATTGTGGGCCCTGAAGGTTTGGTCTTTGCTGCCAAGGTTTCTCATCG
ATCTGGCTGAGACCTCATTAATGGGGCCAAGAAGAAGACAAACATCATTTACATCACTGAGGATGTAAGACACCCCCACA
AATACTGAAAGCTCATTGTGATGGCGGATATGATTTTTGGCAATGCAGCCCAGCTAGACCAGTCCTGAATTGAGGCTCTC
AATGCACACAGTTTCCTGCACAACGGTGGATACTTTGTGATCTCCATTTAGGTCAACTGCATATACGCCACAGCCTCCCC
TGAAACCATGTTTGCCTTGGAAATCAACAAAATGCAGCAGGAAAAGATGAAGCCACAGGAACAGCTCACCTTGGAGCCCT
GTGAGTGACATCATACAGTGGTAGTGCGCATGTACAGTCCTCCA

Alignment

ORF - retro_meug_1077 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.27 %
• Parental protein coverage: 82.52 %
• Number of stop codons detected: 9
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGRGRGTPRGRGRGGRGGFQGGKKVTVEPHRHEGVFICRGKEDALVTKNMV-PGESVYGEKRITVEDGEA
          GGR..G.P.G.G.G...GFQ.GKKVTVEPH.HEGVFIC.GKED.LVTK.MV..G.SVYGEKRITVED.E.
Retrocopy GGRD*GIPQG*GQGSPEGFQEGKKVTVEPH*HEGVFICQGKEDSLVTKDMV<AGKSVYGEKRITVEDDEL

Parental  KLEYRAWNPFRSKLAAAILGGVDQIHIRPGAKVLYLGAASGTTVSHVSDIVGPEGLVYAVEFSHRSGRDL
          KLEY..WN.F.SKLAA.ILG.V.QIHI.PG.KVLYLGAASGTT.SHVSDIVGPEGLV.A...SHRSG.DL
Retrocopy KLEYYGWNCF*SKLAAVILGVVGQIHIQPGTKVLYLGAASGTTISHVSDIVGPEGLVFAAKVSHRSG*DL

Parental  INVAKKRTNIIPVIEDARHPHKYRMLIAMVDVIFADVAQPDQSRIVALNAHNFLRNGGHFVISIKANCID
          IN.AKK.TNII...ED.RHPHKY..LI.M.D.IF...AQ.DQS.I.ALNAH.FL.NGG.FVISI..NCI.
Retrocopy INGAKKKTNIIYITEDVRHPHKY*KLIVMADMIFGNAAQLDQS*IEALNAHSFLHNGGYFVISI*VNCIY

Parental  STASPEAVFASEVKKMQQENMKPQEQLTLEPYERDHAVVVGVYRPP
          .TASPE..FA.E..KMQQE.MKPQEQLTLEP.E..H.VVV..Y.PP
Retrocopy ATASPETMFALEINKMQQEKMKPQEQLTLEPCE*HHTVVVRMYSPP

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_1077 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1077 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 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002579	1 retrocopy	retro_btau_108,
Canis familiaris	ENSCAFG00000005412	1 retrocopy	retro_cfam_1697,
Equus caballus	ENSECAG00000023221	1 retrocopy	retro_ecab_308,
Homo sapiens	ENSG00000105202	1 retrocopy	retro_hsap_99,
Loxodonta africana	ENSLAFG00000000171	1 retrocopy	retro_lafr_23,
Macropus eugenii	ENSMEUG00000014684	1 retrocopy	retro_meug_1077 ,
Microcebus murinus	ENSMICG00000007686	1 retrocopy	retro_mmur_1127,
Mus musculus	ENSMUSG00000046865	4 retrocopies	retro_mmus_1141, retro_mmus_1585, retro_mmus_1609, retro_mmus_89,
Nomascus leucogenys	ENSNLEG00000014234	1 retrocopy	retro_nleu_1947,
Otolemur garnettii	ENSOGAG00000006463	2 retrocopies	retro_ogar_3102, retro_ogar_504,
Pan troglodytes	ENSPTRG00000010982	2 retrocopies	retro_ptro_2208, retro_ptro_3074,
Pteropus vampyrus	ENSPVAG00000010849	1 retrocopy	retro_pvam_231,
Rattus norvegicus	ENSRNOG00000019229	4 retrocopies	retro_rnor_1082, retro_rnor_1780, retro_rnor_643, retro_rnor_75,
Sorex araneus	ENSSARG00000008709	1 retrocopy	retro_sara_768,
Sus scrofa	ENSSSCG00000030510	1 retrocopy	retro_sscr_39,
Ictidomys tridecemlineatus	ENSSTOG00000012486	1 retrocopy	retro_itri_1302,
Tupaia belangeri	ENSTBEG00000007755	2 retrocopies	retro_tbel_3774, retro_tbel_3974,
Tursiops truncatus	ENSTTRG00000003967	1 retrocopy	retro_ttru_30,