RetrogeneDB ID: retro_meug_1139

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold303111:252..1116(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000005398
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RNF128
• Ensembl ID: ENSMEUG00000001567
• Aliases: None
• Description: ring finger protein 128, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:21153]

Sequence

>retro_meug_1139
GAATTGGGGGAAACTGGGGTATTTGGAAGAGGATCCATTTTGAAGAGGGTAGCTGGAGTTGTGGTGCCACCAGAGGGAAG
GAACCAAAATGCCTGTAATCCCTTGACCAATTTCAGCAAACCCAAGGACTCAGAAATGTGGCTTGCCCTCATAGAGCGGG
GAGGTTGTACTTTCACACAGAAAATAAAAATAGCAGCAGACAAAGGAGCCAGTGGGGTGATCATCTACAACTTCCCAGGA
ACTGGCAACCAAGTATTTCCCATGTCTCACCAAGGAATCGGAGATATTGTTGCGGTAATGATTGGCAACTTAAAAGGCAC
AGAGATTTTGCATTTGATTCAGAAGGGAGTTCATGTGACTGTTATGATTGAGGTAGGCCGAAAGCATATCATCTGGATGA
ATCACTACTTTGTGTCTTTTGTTATTGTCACAACTGCTACCTTGACCTACTTCATTTTCTATCATATTCGAAGACTCTGG
GTAGCAAGGATTCAAAACAGAAGATGGCAACGGTTAACAACAGATCTTAAGAAAGCTTTTGGACAGCTCCAGCTGCGTGT
TTTAAAAGAAGGGGATGAGGAAACAAATCCAAATGGGGACAGCTGTGTTGTGTGCTTTGAAGCATATAAGCCCAATGATA
TAGTGCGTATTCTAACTTGTAAACATTTTTTCCACAAAAATTGCATTGACCCCTGGATTCTAGCTCATGGCACCTGCCCC
ATGTGCAAATGTGACATTCTCAAAGCTCTAGGGATTGTGGTGGATATTGAAGATGGTGCTGAATCTTTGCAAGTTTTAAT
GTCGAATGAATCACTTACTGCTACATCACCTAATGAAGAGAGTTCTGGCAATGACCATCGTTCT

Alignment

ORF - retro_meug_1139 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.85 %
• Parental protein coverage: 74.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELSEEGVYGQDSPLEPAAGLVLPPDGPGALNACSPHTNFTVPAAGVPWLALIQRGGGCTFADKINLAFDR
          EL.E.GV.G..S.L...AG.V.PP.G....NAC.P.TNF..P.....WLALI.RGG.CTF..KI..A.D.
Retrocopy ELGETGVFGRGSILKRVAGVVVPPEGRNQ-NACNPLTNFSKPKDSEMWLALIERGG-CTFTQKIKIAADK

Parental  GATGAVIYNFAGTRNDVFPMXXXXAGDIVSIMIGNLKGTKILQSIQRGIQVTMVIEVGKKHGPWMNHYSI
          GA.G..IYNF.GT.N.VFPM.....GDIV..MIGNLKGT.IL..IQ.G..VT..IEVG.KH..WMNHY..
Retrocopy GASGVIIYNFPGTGNQVFPMSHQGIGDIVAVMIGNLKGTEILHLIQKGVHVTVMIEVGRKHIIWMNHYFV

Parental  FFVSVSFFIVTAATVGYFIFYSARRLRNARAQNRKQRQLKADAKRAIGKLQLRALKHGDKETGPDGDSCA
          .FV.V.....TA...........R.L..AR.QNR....L..D.K.A.G.LQLR.LK.GD.ET.P.GDSC.
Retrocopy SFVIVT----TATLTYFIFYHIRR-LWVARIQNRRWQRLTTDLKKAFGQLQLRVLKEGDEETNPNGDSCV

Parental  VCIEIFRPNDIVRILTCNHLFHKTCIDPWLLEHRTCPMCKCDILKALGVEADVEAGTVSFQTAGSNPNIN
          VC.E...PNDIVRILTC.H.FHK.CIDPW.L.H.TCPMCKCDILKALG...D.E.G..S.Q...SN....
Retrocopy VCFEAYKPNDIVRILTCKHFFHKNCIDPWILAHGTCPMCKCDILKALGIVVDIEDGAESLQVLMSNESLT

Parental  GSPESYSPREEDSHSETAS
          ......SP.EE.S.....S
Retrocopy AT----SPNEESSGNDHRS

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_1139 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1139 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000022920	1 retrocopy	retro_btau_1358,
Loxodonta africana	ENSLAFG00000002816	1 retrocopy	retro_lafr_946,
Macropus eugenii	ENSMEUG00000001567	1 retrocopy	retro_meug_1139 ,
Macropus eugenii	ENSMEUG00000014821	1 retrocopy	retro_meug_417,
Mustela putorius furo	ENSMPUG00000003695	1 retrocopy	retro_mputfur_340,
Oryctolagus cuniculus	ENSOCUG00000012328	1 retrocopy	retro_ocun_37,
Pan troglodytes	ENSPTRG00000022151	1 retrocopy	retro_ptro_2651,
Sus scrofa	ENSSSCG00000012551	1 retrocopy	retro_sscr_597,
Ictidomys tridecemlineatus	ENSSTOG00000022922	2 retrocopies	retro_itri_1254, retro_itri_1255,
Tursiops truncatus	ENSTTRG00000007536	1 retrocopy	retro_ttru_6,