RetrogeneDB ID: retro_meug_417

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold1117:51349..52066(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF149
• Ensembl ID: ENSMEUG00000014821
• Aliases: None
• Description: ring finger protein 149 [Source:HGNC Symbol;Acc:23137]

Sequence

>retro_meug_417
GGCCGGGCGCTGGAGTGCTACCTGGCTTTGATGAGCAAGGTGTCCGTGGACCCGCCGACCAACGTGACGGGGCAGGGCGC
CATCCAGAGCGGTCACTGTGGCGACAACTCGCCAAGGAGAGCCTGCGGGCCTTGGTGGGCATACCCCGCACCCCAGGCCT
CCACACGAAGGGCTGCGCGGCGACACTCAGTAAGTGCTACGTGCCCCAGCTGGGAAGGCTGGTGGCCAGGAGGCGCGAGC
CCTGCATTGCTCCGGTGGCCCATGGGGACTGCACCTTCAGGGACAAGGGGCTCAGTGCCCATGCAAAAATGCCTCCATAG
GGGTCTTCTACAACGAGGAGCACTACGGAAACTGCACCAACTCCACGTCCCACCTGGGGACGGAAATACAGTGGTATTGA
AGGTTAGCTTATCCGAAAGGAATGGAAATGCTGGGGCCAGCGCAAAGAACAACGCCAGTGAAAATGATCAGCGGGCAAGG
GTTCAGCAGTGGGCAGTCTGCTGTGTTTGTAGTCATGGCTTTCATCACCATGTTGGTCATGTCATTAGCCTGGCTCATAT
TTTACTCCATACAGCGTTTCCTCTATGCTGGTTCACAGCTAAAAATCAGAACCATGGAAAAGAAACAAGAAAGCTATTGG
GCAACTTGGAGCTTGATATTACTACTGTAAAGCATGAAGACCAGGGAACTGATGCTGATGACAAAAATTTGTGCATT

Alignment

ORF - retro_meug_417 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.77 %
• Parental protein coverage: 62.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  GRALEWYSALVSTVYVDPLTNVTVQGATESGRYGDNSP-KESLQGLVGIPRAPGRDRKGCAPD-TQYYVP
          GRALE.Y.AL.S.V.VDP.TNVT.QGA..SG..GDNSP.KESL..LVGIPR.PG...KGCA......YVP
Retrocopy GRALECYLALMSKVSVDPPTNVTGQGAIQSGHCGDNSP<KESLRALVGIPRTPGLHTKGCAATLSKCYVP

Parental  ETG---GRQAEPWIALVARGDCTFKDKVLNAARR-NASAVVIYNEEHYGNGTNSMSHLGT-GNTVVIMVS
          ..G....R..EP.IA.VA.GDCTF.DK.L.A....NAS..V.YNEEHYGN.TNS.SHLGT.GNTVV..VS
Retrocopy QLGRLVARRREPCIAPVAHGDCTFRDKGLSAHAK<NASIGVFYNEEHYGNCTNSTSHLGT<GNTVVLKVS

Parental  -YPKGIEILGPVQRGIPVKMTIEVGTRHVQEFISGQSVVFVAIAFITMMIISLAWLIFYYIQRFLYAGSQ
          .YPKG.E.LGP.QR..PVKM....G....Q...S...VV...I....M...SLAWLIFY.IQRFLYAGSQ
Retrocopy >YPKGMEMLGPAQRTTPVKMISGQGFSSGQ---SAVFVVMAFITMLVM---SLAWLIFYSIQRFLYAGSQ

Parental  F-GNQDHRKETKKAIG---LQLHTVKXXXXGIDVDAENCAV
          ...NQ.H.KET.K..G...L...TVK....G.D.D..N...
Retrocopy L<KNQNHGKETRKLLGNLELDITTVKHEDQGTDADDKNLCI

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_417 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_417 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012057	2 retrocopies	retro_chof_290, retro_chof_555,
Dasypus novemcinctus	ENSDNOG00000011956	3 retrocopies	retro_dnov_2168, retro_dnov_534, retro_dnov_580,
Macropus eugenii	ENSMEUG00000001567	1 retrocopy	retro_meug_1139,
Macropus eugenii	ENSMEUG00000014821	1 retrocopy	retro_meug_417 ,
Myotis lucifugus	ENSMLUG00000007110	1 retrocopy	retro_mluc_1684,
Rattus norvegicus	ENSRNOG00000013946	2 retrocopies	retro_rnor_1406, retro_rnor_2527,
Tursiops truncatus	ENSTTRG00000016450	1 retrocopy	retro_ttru_351,