RetrogeneDB ID: retro_meug_616

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold14681:16743..17278(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000005072
• Aliases: None
• Description: None

Sequence

>retro_meug_616
ATGGGGAATATATTTGCTAACCTCTTCAACACTGGCAAAAAAGAAATGTGGATCCTAATGGTTGGTCTGGATTCTGCAGG
AAAGACAATTATTTTGTACAAAGTGAAGCTGAGTGAAATAGTAGTTACTATTCCCACTATAGGTTTCAGTGTAGATACTG
TGGAATAAAAAACATTAGCTTCACAGTGTGGGATGTAGGTGGTCAGGACAAGATCCTACCCCTGTGGTTCCTTTACTTCC
AGAACACACAAGGACTGATTTTTGTTCTTGACAGTAATGACAGAGATAGAGTGAATGAAGCCTGAGAAGAATTGACGAGA
ATGTTGGCAGAGGATAAGCTTAGAGATGTTGTTGTATTAGTGTTTGCTAAGAAATAGCATATTCCCAATGTCATGAATGA
AACTGAAATCTCAGGTACACTTGGACTGCATTATTTTGTCACAGAAACTGGTACATGCAAGCCACCAGCACCACTAGTAG
GGATGGGCTCTATGAGGGACTGAACTAATTGTCCGATCAACTCTGAAACCAGAAA

Alignment

ORF - retro_meug_616 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.68 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGNIFGNLLKSLIGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVE-YKNISFTVWDVG
          MGNIF.NL.....GKKEM.ILMVGLD.AGKT.ILYK.KL.EIV.TIPTIGF.V.TVE..KNISFTVWDVG
Retrocopy MGNIFANLFNT--GKKEMWILMVGLDSAGKTIILYKVKLSEIVVTIPTIGFSVDTVE<IKNISFTVWDVG

Parental  GQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEI
          GQDKI.PLW..YFQNTQGLIFV.DSNDR.RVNEA.EEL.RMLAED.LRD.V.LVFA.K...PN.MN..EI
Retrocopy GQDKILPLWFLYFQNTQGLIFVLDSNDRDRVNEA*EELTRMLAEDKLRDVVVLVFAKK*HIPNVMNETEI

Parental  TDKLGLH-SLRHRNWYIQATCATSGDGLYEGLDWLANQLKNKK
          ...LGLH....HRNWY.QAT..TS.DGLYEGL..L..QL.N.K
Retrocopy SGTLGLH<LFCHRNWYMQATSTTSRDGLYEGLN*LSDQL*NQK

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_616 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_616 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 27 parental genes, and 38 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000008240	1 retrocopy	retro_acar_12,
Ailuropoda melanoleuca	ENSAMEG00000007042	2 retrocopies	retro_amel_28, retro_amel_70,
Canis familiaris	ENSCAFG00000008767	1 retrocopy	retro_cfam_119,
Cavia porcellus	ENSCPOG00000025074	1 retrocopy	retro_cpor_92,
Ciona savignyi	ENSCSAVG00000007011	1 retrocopy	retro_csav_2,
Felis catus	ENSFCAG00000000088	2 retrocopies	retro_fcat_2, retro_fcat_59,
Homo sapiens	ENSG00000134287	1 retrocopy	retro_hsap_36,
Latimeria chalumnae	ENSLACG00000019009	1 retrocopy	retro_lcha_10,
Loxodonta africana	ENSLAFG00000004207	1 retrocopy	retro_lafr_115,
Macropus eugenii	ENSMEUG00000005072	7 retrocopies	retro_meug_1036, retro_meug_1117, retro_meug_1857, retro_meug_29, retro_meug_395, retro_meug_616 , retro_meug_946,
Microcebus murinus	ENSMICG00000017545	1 retrocopy	retro_mmur_37,
Myotis lucifugus	ENSMLUG00000029846	1 retrocopy	retro_mluc_119,
Macaca mulatta	ENSMMUG00000006968	1 retrocopy	retro_mmul_174,
Monodelphis domestica	ENSMODG00000013804	1 retrocopy	retro_mdom_241,
Mustela putorius furo	ENSMPUG00000014730	1 retrocopy	retro_mputfur_86,
Mus musculus	ENSMUSG00000051853	1 retrocopy	retro_mmus_147,
Nomascus leucogenys	ENSNLEG00000017859	2 retrocopies	retro_nleu_1348, retro_nleu_94,
Ochotona princeps	ENSOPRG00000007411	2 retrocopies	retro_opri_13, retro_opri_3,
Petromyzon marinus	ENSPMAG00000000531	1 retrocopy	retro_pmar_5,
Pongo abelii	ENSPPYG00000004473	1 retrocopy	retro_pabe_126,
Pteropus vampyrus	ENSPVAG00000004626	1 retrocopy	retro_pvam_7,
Rattus norvegicus	ENSRNOG00000033155	1 retrocopy	retro_rnor_272,
Rattus norvegicus	ENSRNOG00000048089	1 retrocopy	retro_rnor_2521,
Sarcophilus harrisii	ENSSHAG00000003635	2 retrocopies	retro_shar_25, retro_shar_364,
Ictidomys tridecemlineatus	ENSSTOG00000004295	1 retrocopy	retro_itri_175,
Tetraodon nigroviridis	ENSTNIG00000011685	1 retrocopy	retro_tnig_19,
Tursiops truncatus	ENSTTRG00000004698	1 retrocopy	retro_ttru_1081,