RetrogeneDB ID: retro_meug_559

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold13660:26895..27950(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPI
• Ensembl ID: ENSMEUG00000010190
• Aliases: None
• Description: glucose-6-phosphate isomerase [Source:HGNC Symbol;Acc:4458]

Sequence

>retro_meug_559
ACATGTATTGCCATCATTGCCTCAAAGACATTGACCACCCAGGAGACCATCACCAATTCAGAGACAGTCAAGGAGTGCTT
CCTTCTGGCAGCACAGGATCCTTCAGCTGTTGCAAAGCACTTTGTGGCCTTTTCTCTCAATGCACCGAAAGTTCAAGATT
TTGGAATCAACACTCAAATTACGTTTGAATTCTAGAATTGAGTTCTTGGAAGTTACTCATTGTAGTCAGCTATTGACCTC
TCTATTTCCCTGCATGTTGGTTTTAATAGCTTTGAGCAGCTGTTGTTGGGGGCTCAGTGGATGTACAACTACTTTTTCAC
CACCCCATTGGAAAAGAATGTCCCTGTGTTGCTTGCCATGCTAAGCATCTGGTATGTTAATTGTTTTGGATGTAAGACTC
AGGCCCTGATGCTCTATGACCAGTACATGCACTACTTTTCTGCTTATTTCCAACAGAGTAACATGGAGTATAAGAGGAAG
TACATCATCAAATCAGAAGCCCAGACTGACTAAAGTAGAGGCCTCATTGTGTGGAGAGAACCAGAGATCAATGCACAACA
CACTTTCTGCTACTTTATTCACCAGGGTACCTAGATGATCCCTTGTGACTTTCTCATCCCTGTTCATACTCAGAATCTAA
TCCAGAATGGCCTTCATTACAAGATTTTTCTAACCAACTTCCTAGCTCACACTGAGGCTCTGATGGAAGGAAATACAGCA
GAGGAGGCTCACAAAGAGCTAGAGGCTGTGGACAAGAATAGTGATGCCTTGAAGTAACTGCTGCCTCATGAGGTCTCTGA
GGGAAATCATCCTACTAATTCTATTACCTTCACAAAGCTTACTCCTTTCATTCTTGGAGTTTTGATTGCCATGTATGAAC
ACAAGATCTTTATTCAGGGTGTCGTCTAGGATGTCAACAGTTACGATCAGTAGGAATGGAACTGGGAAAGCAATTGGCCA
AGAACAGTAAGCCTGAGTTCAACTCTGATAAACCTGTGACCTCTCGTGTTGCATGCACTGGTAGGCTACCCAGTTTTATC
AAGCAGCACCAGGCC

Alignment

ORF - retro_meug_559 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.52 %
• Parental protein coverage: 63.42 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TSLFIIASKTFTTQETITNAETAKEWFLHSAKDPSAVAKHFVALSTNAPKVQDFGIDTQNMFEFWDWVGG
          T...IIASKT.TTQETITN.ET.KE.FL..A.DPSAVAKHFVA.S.NAPKVQDFGI.TQ..FEF...V.G
Retrocopy TCIAIIASKTLTTQETITNSETVKECFLLAAQDPSAVAKHFVAFSLNAPKVQDFGINTQITFEF*N*VLG

Parental  RYSLWSAIGLSIALHVGFDNFEQLLSGAHWMDNHFLTTPLEKNAPVLLAMLGIWYINCFGCETQALLPYD
          .YSL.SAI.LSI.LHVGF..FEQLL.GA.WM.N.F.TTPLEKN.PVLLAML.IWY.NCFGC.TQAL..YD
Retrocopy SYSL*SAIDLSISLHVGFNSFEQLLLGAQWMYNYFFTTPLEKNVPVLLAMLSIWYVNCFGCKTQALMLYD

Parental  QYMHRFAAYFQQGDMESNGKYITKSGARVDYSTGPIVWGEPGTNGQHAFYQLIHQGTRMIPCDFLIPVQT
          QYMH.F.AYFQQ..ME...KYI.KS.A..D.S.G.IVW.EP..N.QH.F...IHQGT.MIPCDFLIPV.T
Retrocopy QYMHYFSAYFQQSNMEYKRKYIIKSEAQTD*SRGLIVWREPEINAQHTFCYFIHQGT*MIPCDFLIPVHT

Parental  QNPIRNGLHHKILLANFLAQTEALMKGKTVEEARKELEAAGKSGDALKKLLPHKVFEGNRPTNSIVFTKL
          QN.I.NGLH.KI.L.NFLA.TEALM.G.T.EEA.KELEA..K..DALK.LLPH.V.EGN.PTNSI.FTKL
Retrocopy QNLIQNGLHYKIFLTNFLAHTEALMEGNTAEEAHKELEAVDKNSDALK*LLPHEVSEGNHPTNSITFTKL

Parental  TPFILGALIAMYEHKIFVQGVVWDVNSYDQ-WGVELGKQLAKKIEPELDSDKPVTSHDASTNGLISFIKQ
          TPFILG.LIAMYEHKIF.QGVV.DVNSYDQ..G.ELGKQLAK...PE..SDKPVTS..A.T..L.SFIKQ
Retrocopy TPFILGVLIAMYEHKIFIQGVV*DVNSYDQ<VGMELGKQLAKNSKPEFNSDKPVTSRVACTGRLPSFIKQ

Parental  HRA
          H.A
Retrocopy HQA

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_559 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_559 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000007303	3 retrocopies	retro_cfam_1715, retro_cfam_1935, retro_cfam_2101,
Cavia porcellus	ENSCPOG00000008562	1 retrocopy	retro_cpor_983,
Macropus eugenii	ENSMEUG00000010190	4 retrocopies	retro_meug_1022, retro_meug_1281, retro_meug_559 , retro_meug_991,
Microcebus murinus	ENSMICG00000011620	1 retrocopy	retro_mmur_1496,
Myotis lucifugus	ENSMLUG00000003037	1 retrocopy	retro_mluc_444,
Macaca mulatta	ENSMMUG00000005880	1 retrocopy	retro_mmul_2086,
Mustela putorius furo	ENSMPUG00000007520	1 retrocopy	retro_mputfur_1370,
Mus musculus	ENSMUSG00000036427	1 retrocopy	retro_mmus_237,