RetrogeneDB ID: retro_meug_950

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold24172:7585..8229(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf85
• Ensembl ID: ENSMEUG00000012878
• Aliases: None
• Description: chromosome 1 open reading frame 85 [Source:HGNC Symbol;Acc:29436]

Sequence

>retro_meug_950
GACCGGACCCGCCGAGTGTCCCTACAGGTTATCCCAGGACCTACGACTCCGCACAAAAACTTGTTGCACATCCGGGCTGT
GGGAGCCAGCTCTGCAATTCACTACGTGTGGAGCAGTCTGGGACCCCTAGCCGTGCTCTTTGTGGCTACAGACACCCCTC
ACAGTGTCCTGGGTGTCATCTGGAGCTTCCTGCTGTCTCCAGAACCTGAAGGAAGCCTGGCTATGCTCCCTGCTAAGAGT
GTTCGATTTCCTCAGCCCTCTTCTGCCCCAGGCTATTTGAGTTTGGCAGTACCCACAATTCAGAAATAAAGGACGGATCC
CCAGGAAAGCCTTATCCACCCTACCTGCTGGCCAACTTCTCCTGGGATGATGTCAAGAGCACCCTAGACCCCACTATGCT
GAGTGCCACATTCCAAGGACGTCCTTTGAAGGATCCCTTGGGGACCTTCAGCAATGGCAGTCTGGCTTTCAAGGTCGGTA
TTTTCTCAAGTTCTGGTCGTCCAGCCCATCTCCCTGGACTCTTGCATATGGCAGATACCTCCCAGCTAGAACTGGTTCTG
TCTGGGACTGTCCCACAAAGGAACCATTCCCTTTTCAGGGTGGAGGTCACAACTCCAGCTTTGGATTCTGAGTGTCCCCA
GCTG

Alignment

ORF - retro_meug_950 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.87 %
• Parental protein coverage: 54.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DQTRRVSLEVIPGPTDPAQNLLHIRAVGASSTIHYVWSSLGPPGVLFVTTDTPHSVLSVNWSGLLSPEPE
          D.TRRVSL.VIPGPT.P..NLLHIRAVGASS.IHYVWSSLGP..VLFV.TDTPHSVL.V.WS.LLSPEPE
Retrocopy DRTRRVSLQVIPGPTTPHKNLLHIRAVGASSAIHYVWSSLGPLAVLFVATDTPHSVLGVIWSFLLSPEPE

Parental  GSLAVLPAESVRF-SSALFFPRLFEFDSTKSSETKDGSPGKPYPPYLLASFSWDDVNSTLDHTMLSATFQ
          GSLA.LPA.SVRF.SSALF.PRLFEF.ST..SE.KDGSPGKPYPPYLLA.FSWDDV.STLD.TMLSATFQ
Retrocopy GSLAMLPAKSVRF<SSALFCPRLFEFGSTHNSEIKDGSPGKPYPPYLLANFSWDDVKSTLDPTMLSATFQ

Parental  GRPLKDPSGAFNNGSLAFKVRAFSGPGRPAHLPRLLHTADTSQLELVLSGIVPQGNHSLFGLEVATPALD
          GRPLKDP.G.F.NGSLAFKV..FS..GRPAHLP.LLH.ADTSQLELVLSG.VPQ.NHSLF..EV.TPALD
Retrocopy GRPLKDPLGTFSNGSLAFKVGIFSSSGRPAHLPGLLHMADTSQLELVLSGTVPQRNHSLFRVEVTTPALD

Parental  SECPQL
          SECPQL
Retrocopy SECPQL

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_950 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_950 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000012878	1 retrocopy	retro_meug_950 ,
Mus musculus	ENSMUSG00000001418	1 retrocopy	retro_mmus_3093,