RetrogeneDB ID: retro_meug_901

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold225060:765..1556(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF41
• Ensembl ID: ENSMEUG00000001320
• Aliases: None
• Description: ring finger protein 41 [Source:HGNC Symbol;Acc:18401]

Sequence

>retro_meug_901
GCTCCTAACTGTGAGCATGCCTTCTGCAACACCTGCATCACCCAGGGATCTTCTTGGCAGCAGACATGCCCTATGGATGG
AAGTGTGGTAACAGTCCCTCACCTGCGCCCTATTCCCCGAATTATGCGGAACATGCTGTCCAAACTTCAGATCACCTGCA
ACAATGCTGGGGCTGGTTGTAGTGCCATCTTGAGGCTTGACAATCTCATGGCTCATCTCATCAGTTGTGAACATAACCCC
AGGTGTCCTGTGGCCTGTAGGCATGGCTGTGGCTTAGAGATGTCCAATGAGGAACTGCCCAACCACAACTGCATCAAGCA
CCTACACTCCATGGTCCAACAGCAAGAGATGCACATCACGAAGCTGGAGAAGACATCAGCTGAGCAGAAATATGAGCTAG
CAGAACAGAAACGAGACATTCAGCTGCTGAAGGCCTATGCCCGTGCCCTCCACAGTGGCAGCCCCAATTTTCAGGAACTG
GAAGATACCAATGAGTACAATGAGACCATACAGTTGGTAAACTCCTTGCAGCCAGAAAGTGTGACAAGCTGGGAGGGTGG
GATCTCCACCCCAGATACTACGCACCAACCGATGATTAAGACTTCAATAGAAAATGACTGCTCAGTGCCATTGCCAAAAA
GCTGAATCCCCAAGAGCAACTGGTCCCTGGCCCTGGACACAGTAGGGACAGATCAGATGAAGCAGCGCTGCTTTGTGAGT
TGCAAGGCCAATGTGTCACTGGAAAGATGATAATGGTGGTGAATGCTTATAAGAAGGAACACATGCATGAC

Alignment

ORF - retro_meug_901 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.85 %
• Parental protein coverage: 93.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  APHCEHAFCNACITQWFSQQQTCPVDRSVVTVAHLRPVPRIMRNMLSKLQIACDNAVFGCSAVVRLDNLM
          AP.CEHAFCN.CITQ..S.QQTCP.D.SVVTV.HLRP.PRIMRNMLSKLQI.C.NA..GCSA..RLDNLM
Retrocopy APNCEHAFCNTCITQGSSWQQTCPMDGSVVTVPHLRPIPRIMRNMLSKLQITCNNAGAGCSAILRLDNLM

Parental  SHLSDCEHNPKRPVTCEQGCGLEMPKDELPNHNCIKHLRSVVQQQQTRIAELEKTSAEHKHQLAEQKRDI
          .HL..CEHNP..PV.C..GCGLEM...ELPNHNCIKHL.S.VQQQ...I..LEKTSAE.K..LAEQKRDI
Retrocopy AHLISCEHNPRCPVACRHGCGLEMSNEELPNHNCIKHLHSMVQQQEMHITKLEKTSAEQKYELAEQKRDI

Parental  QLLKAYMRAIRSVNPNLQNLEETIEYNEILEWVNSLQPARVTRWGGMISTPDAVLQAVIKRSLVESGCPA
          QLLKAY.RA..S..PN.Q.LE.T.EYNE....VNSLQP..VT.W.G.ISTPD...Q..IK.S..E..C..
Retrocopy QLLKAYARALHSGSPNFQELEDTNEYNETIQLVNSLQPESVTSWEGGISTPDTTHQPMIKTS-IENDCSV

Parental  SIVNELIENAHERSWPQGLATLETRQMNRRYYENYVA-KRIPGKQAVVVMACENQHMGD
          ......I.......W...L.T..T.QM..R......A.....GK...VV.A....HM.D
Retrocopy PLPKS*IPKS---NWSLALDTVGTDQMKQRCFVSCKA<QCVTGKMIMVVNAYKKEHMHD

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_901 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_901 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001320	1 retrocopy	retro_meug_901 ,
Meleagris gallopavo	ENSMGAG00000006916	1 retrocopy	retro_mgal_15,
Myotis lucifugus	ENSMLUG00000006057	1 retrocopy	retro_mluc_300,
Mus musculus	ENSMUSG00000025373	2 retrocopies	retro_mmus_3645, retro_mmus_3648,
Otolemur garnettii	ENSOGAG00000001525	4 retrocopies	retro_ogar_2365, retro_ogar_2487, retro_ogar_3113, retro_ogar_3228,
Ochotona princeps	ENSOPRG00000001348	1 retrocopy	retro_opri_528,
Rattus norvegicus	ENSRNOG00000023456	1 retrocopy	retro_rnor_2918,
Sarcophilus harrisii	ENSSHAG00000002679	1 retrocopy	retro_shar_38,