RetrogeneDB ID: retro_meug_1076

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold27902:9959..10536(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000015590
• Aliases: None
• Description: None

Sequence

>retro_meug_1076
ATGAATATGATCAAGTGGATATTAACCGGGAATGCACCATTCATGCTTTCCCACATTACACACAATTCATAGAGGCATTT
GAAGAAGGTCTAGGCCAGTTTTTCCTTTTGTATGATTGTGGCAGTTATAGGGGCCTATCTCCACGTGTTGGTCCATTTCA
TTCAACCTGGCTTGTTCTTAGCCCTGAGTTCCTTAGTATTGCTAATATGGCTTCTAAGAACACCCTATCATAATGAAACT
GAAAAGAAGAGACTAGTTATTCTGGTTGTATTTGCCTTCCTTGTAGGAAACGAATTGGGACCTACTCTGAATTTATGCAT
TATCACTAATCCTGACATTGTTTCCACGTCTTTATTTGGCACTGTAATGATCTTCAGCTCTTTTTACCTTGAGTTCAATC
TATGTTAAGCATCACAGTTATCTCTTTCTTGGAGGCATCTTGATTTCTGACATGAGCCTCATTCTTGTCACCTCTTTAGG
GACTCTTTTATTTGGACCTCATTTGCTCTTTCAGGTGAACGTGCATATGGGACTAGAAGTTATTTGTGGCTTTATACTTT
TTGATAATAAAAAAATT

Alignment

ORF - retro_meug_1076 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.48 %
• Parental protein coverage: 81.01 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MNMFDRKINFDALLKFSHISPSTQQHLKKVYASFALCMFVAAAGAYVHVVTHFIQAGLLSALGSLGLMIW
          MNM........A....SHI......HLKKV.ASF..CM.VA..GAY.HV..HFIQ.GL..AL.SL.L.IW
Retrocopy MNMIKWILTGNAPFMLSHITHNS*RHLKKV*ASFSFCMIVAVIGAYLHVLVHFIQPGLFLALSSLVLLIW

Parental  LMATPHSHETEQKRLGLLTGFAFLTGVGLGPALDLCIAINPSIIPTSFLGTAMIFSCF-TLSALYARRRS
          L..TP...ETE.KRL..L..FAFL.G..LGP.L.LCI..NP.I..TS..GT.MIFS.F.TLS..Y....S
Retrocopy LLRTPYHNETEKKRLVILVVFAFLVGNELGPTLNLCIITNPDIVSTSLFGTVMIFSSF>TLSSIYVKHHS

Parental  YLFLGGILMSAMSLMLFSSLGNLFFGSFWLFQANLYVGLVVMCGFVLFDTQLI
          YLFLGGIL.S.MSL.L..SLG.L.FG...LFQ.N...GL.V.CGF.LFD...I
Retrocopy YLFLGGILISDMSLILVTSLGTLLFGPHLLFQVNVHMGLEVICGFILFDNKKI

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_1076 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1076 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018588	1 retrocopy	retro_btau_762,
Canis familiaris	ENSCAFG00000008400	2 retrocopies	retro_cfam_1220, retro_cfam_876,
Callithrix jacchus	ENSCJAG00000021032	1 retrocopy	retro_cjac_272,
Dasypus novemcinctus	ENSDNOG00000007882	2 retrocopies	retro_dnov_164, retro_dnov_857,
Macropus eugenii	ENSMEUG00000015590	4 retrocopies	retro_meug_1076 , retro_meug_1706, retro_meug_2157, retro_meug_48,
Monodelphis domestica	ENSMODG00000004277	2 retrocopies	retro_mdom_210, retro_mdom_250,
Otolemur garnettii	ENSOGAG00000005137	2 retrocopies	retro_ogar_1074, retro_ogar_3470,
Pteropus vampyrus	ENSPVAG00000016821	1 retrocopy	retro_pvam_755,
Sarcophilus harrisii	ENSSHAG00000010366	1 retrocopy	retro_shar_622,
Ictidomys tridecemlineatus	ENSSTOG00000001165	2 retrocopies	retro_itri_1273, retro_itri_564,
Tarsius syrichta	ENSTSYG00000002427	1 retrocopy	retro_tsyr_916,