RetrogeneDB ID: retro_meug_1659

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold51604:6791..7988(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MKRN1
• Ensembl ID: ENSMEUG00000007399
• Aliases: None
• Description: E3 ubiquitin-protein ligase makorin-1 [Source:UniProtKB/Swiss-Prot;Acc:Q9TT91]

Sequence

>retro_meug_1659
ACAGCTCCTAGAACAAGAGCCATAACAACCTCAAGTGTGGCAGTGGCCTCCCCCACCCTCACCTCCACTGGCCGTTCCAA
GTCCCCAGTGGTGGGAGGAGAAGGGGGCAGCAGCAGCAGTGGCTGGACCAAACAGGTCACCTGCAGGTATTTCATGCATG
GGGTTTGCAAGGAAGGAAACAACTGCTGCTACTCCCATGACCTCACCGCTAGTCATTCTGGTATGGCGTGCAGATACTAT
CAGTAAGGGTGCTGTGCTTATGGAGACCACTGCAGATATGAATGTACCAAGGCACTGAAACCAGAAGTGACTGCTGTCAT
TCTAGCTGTAACATCTGACCCACCAGCCTCCTCAAGCCTTCCAGCACTGGTTGAACCACTTGCTGAAGTCAGTACTGGTG
AAGCTGAATCAGTCAATTCAAATTTTACAGCTTCAGGAGCAGGTGGGGAAGACTGGGTAAATGCCATTGAGTTTGTTCCT
GGGCAACCCTACTGTGGACGTGCAGCCCCTTCCTGCACTGAAGCACCCCTGTAGAGCATGGTGATTGAGGAAGAGTTAGA
AAAACAGCAAACCAATGCGGAAATGAAGAAGCAGCTTCAATCCTATACAGCAGCAGGAGAATGTCATTATGCGGAGAATT
GTGTTTATCTTCATGGGGATGCCTATGACACGTGTGGTTTGCAGGTCTTGTGCCCAGTAGATGCTGCCCAGAGATCACAA
CATATAAAATCTTGAAATGAGGCTCATGAGAAGGACATGAAACTCTCATTTGCTGTCCAGCACAGTAAGGACATGGTGTA
TGGGATCTGCATGGAGGTAATCTATGAGAAAGCCAACCCTAGTGAGGGCCGCTTTGGGATTCTCTCCAACTGCAACTACA
CCTGCTGTCTAAAGTGCATCTACAAATGGAGAAGTACTAAGCAGTTTTAGAGCAAGATTATAAAGTCCTGCCCAGAATGC
CACATGACATTGAGCTTTGTCTTTCTAAGTGAATACTGGGTGGAGAAAAAAGAGGAGAAGCAGAAACTCATTCAGAAGTA
CAAGGAAGCGATGAGCAACAAACCAAGCAGGTATTTCGCTGAAGGACGTGGGAGGTGCTCATGTGGAGGGAAATGTTTTT
ACAAGAGCACATACCCTGATGGCGGTAGACAGGAGCCTCAGAGACAAAAAGTGGGAACATCAATCCCATACCAGGCA

Alignment

ORF - retro_meug_1659 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.25 %
• Parental protein coverage: 83.68 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TATTSGAAAAAAVAAASPTLTPTVASQSPAAGGGGGGSGGGWTKQVTCRYFMHGVCKEGNNCRYSHDLST
          TA....A.....VA.ASPTLT.T..S.SP..GG.GG.S..GWTKQVTCRYFMHGVCKEGNNC.YSHDL..
Retrocopy TAPRTRAITTSSVAVASPTLTSTGRSKSPVVGGEGGSSSSGWTKQVTCRYFMHGVCKEGNNCCYSHDLTA

Parental  SQSAMVCRYYQRGCCAYGDRCRYEHTKPLKREEVTAANLAAKSDLPASSSLPALVEPLAEVSTGEAESVN
          S.S.M.CRYYQ.GCCAYGD.CRYE.TK.LK..EVTA..LA..SD.PASSSLPALVEPLAEVSTGEAESVN
Retrocopy SHSGMACRYYQ*GCCAYGDHCRYECTKALK-PEVTAVILAVTSDPPASSSLPALVEPLAEVSTGEAESVN

Parental  SNFAAAGAGGEDWVNAIEFVPGQPYCGRAAPSCTEAPLQGMVIEEELEKQQTNVEMKKQLCPYAAVGECR
          SNF.A.GAGGEDWVNAIEFVPGQPYCGRAAPSCTEAPL..MVIEEELEKQQTN.EMKKQL..Y.A.GEC.
Retrocopy SNFTASGAGGEDWVNAIEFVPGQPYCGRAAPSCTEAPL*SMVIEEELEKQQTNAEMKKQLQSYTAAGECH

Parental  YGENCVYLHGDACDMCGLQVLHPVDAAQRSQHIKSCIEAHEKDMELSFAVQRSKDMVCGICMEVVYEKAN
          Y.ENCVYLHGDA.D.CGLQVL.PVDAAQRSQHIKS..EAHEKDM.LSFAVQ.SKDMV.GICMEV.YEKAN
Retrocopy YAENCVYLHGDAYDTCGLQVLCPVDAAQRSQHIKS*NEAHEKDMKLSFAVQHSKDMVYGICMEVIYEKAN

Parental  PSERRFGILSNCNHTYCLKCIRKWRSAKQFESKIIKSCPECRITSNFVIPSEYWVEEKEEKQKLIQKYKE
          PSE.RFGILSNCN.T.CLKCI.KWRS.KQF.SKIIKSCPEC..T..FV..SEYWVE.KEEKQKLIQKYKE
Retrocopy PSEGRFGILSNCNYTCCLKCIYKWRSTKQF*SKIIKSCPECHMTLSFVFLSEYWVEKKEEKQKLIQKYKE

Parental  AMSNKPCRYFDEGRGSCPFGGNCFYKHAYPDGRREEPQRQKVGTSNRYRA
          AMSNKP.RYF.EGRG.C..GG.CFYK..YPDG.R.EPQRQKVGTS..Y.A
Retrocopy AMSNKPSRYFAEGRGRCSCGGKCFYKSTYPDGGRQEPQRQKVGTSIPYQA

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_1659 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1659 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000008306	2 retrocopies	retro_btau_401, retro_btau_943,
Canis familiaris	ENSCAFG00000003953	2 retrocopies	retro_cfam_2157, retro_cfam_253,
Callithrix jacchus	ENSCJAG00000013474	2 retrocopies	retro_cjac_210, retro_cjac_2991,
Cavia porcellus	ENSCPOG00000000948	1 retrocopy	retro_cpor_109,
Gorilla gorilla	ENSGGOG00000023977	4 retrocopies	retro_ggor_119, retro_ggor_2813, retro_ggor_3031, retro_ggor_381,
Macropus eugenii	ENSMEUG00000007399	1 retrocopy	retro_meug_1659 ,
Macaca mulatta	ENSMMUG00000010420	3 retrocopies	retro_mmul_191, retro_mmul_2597, retro_mmul_76,
Pongo abelii	ENSPPYG00000018057	3 retrocopies	retro_pabe_3435, retro_pabe_3776, retro_pabe_947,