RetrogeneDB ID: retro_meug_201

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_5781:31409..31974(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000009921
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RAC3
• Ensembl ID: ENSMEUG00000006196
• Aliases: None
• Description: ras-related C3 botulinum toxin substrate 3 (rho family, small GTP binding protein Rac3) [Source:HGNC Symbol;Acc:9803]

Sequence

>retro_meug_201
ATGCAGAGCATCAAGTGTGTGGTGGTGGGCGACGGGGCAGTGGGCAAGACGTGCCTTCTCATCTGCTATACCACCAATGC
CTTCCCTAAGGAGTACATCCCAACAGTGTTTGACAACTACAGTGCCCAAAGCACTGTGGATGGGCGCACAGTCAATCTGA
ACCTGTGGGACACAGCAGGCCAGGAAGAATATGACCGGCTACGTACCCTGTCCTATCCCCAGACCAACGTCTTTGTCATC
TGCTTCTCCATTGCCAGCCCACCTTCCTATGAGAATGTGCGGCACAAGTGGTACCCAGAAGTATGTCACCACTGCCCTGA
TGTGCCCATCCTGCTCGTGGGCACCAAGAAGGACCTGCGGGCCCAGCCAGATGCCGTAAGGCGGCTGAAGGAGCAGGGCC
AGGCACCCATCACACCCCAGCAGGGTGTAGCCCTGAGCAAGCAGATCCATGCTGTTCGCTACCTCGAGTGCTCCGCGCTG
CAGCAGGATGGCGTCAAAGAAGTGTTCGCTGAGGGCTGTCCGGGCCGTGCTCAATCCAACACCACTCAAGCGAGGCCGTT
CCTGT

Alignment

ORF - retro_meug_201 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.47 %
• Parental protein coverage: 98.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPL
          MQ.IKCVVVGDGAVGKTCLLI.YTTNAFP.EYIPTVFDNYSA...VDG..VNL.LWDTAGQE.YDRLR.L
Retrocopy MQSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQSTVDGRTVNLNLWDTAGQEEYDRLRTL

Parental  SYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIERLRDKKLAPITYP
          SYPQT.VF.ICFS..SP.S.ENVR.KWYPEV.HHCP..PI.LVGTK.DLR...D...RL.....APIT..
Retrocopy SYPQTNVFVICFSIASPPSYENVRHKWYPEVCHHCPDVPILLVGTKKDLRAQPDAVRRLKEQGQAPITPQ

Parental  QGLAMAREIGSVKYLECSALTQRGLKTVFDE-AIRAVLCPPPIKKPGKKC
          QG.A....I..V.YLECSAL.Q.G.K.VF.E.A.RAVL.P.P.K..G..C
Retrocopy QGVALSKQIHAVRYLECSALQQDGVKEVFAE>AVRAVLNPTPLKR-GRSC

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_201 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_201 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 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017364	1 retrocopy	retro_amel_1104,
Callithrix jacchus	ENSCJAG00000018194	1 retrocopy	retro_cjac_2687,
Cavia porcellus	ENSCPOG00000013861	1 retrocopy	retro_cpor_18,
Echinops telfairi	ENSETEG00000012902	3 retrocopies	retro_etel_1565, retro_etel_1645, retro_etel_42,
Felis catus	ENSFCAG00000011671	1 retrocopy	retro_fcat_431,
Macropus eugenii	ENSMEUG00000006196	1 retrocopy	retro_meug_201 ,
Macropus eugenii	ENSMEUG00000012295	2 retrocopies	retro_meug_252, retro_meug_552,
Otolemur garnettii	ENSOGAG00000012467	1 retrocopy	retro_ogar_2140,
Procavia capensis	ENSPCAG00000009949	1 retrocopy	retro_pcap_16,
Pongo abelii	ENSPPYG00000008763	2 retrocopies	retro_pabe_1047, retro_pabe_2546,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Takifugu rubripes	ENSTRUG00000016201	1 retrocopy	retro_trub_15,