RetrogeneDB ID: retro_meug_1022

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold26248:12207..13870(-)
• 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_1022
ATGGCCACGCTCAGCCAGGACTCGAACTTCCAGAAGCTAGTCCAGTGGCACTGCCAGCACACGGGCAAGCTCAACGTCCG
GCACCTTTTGGAGGCTGACCAGGACCACTTCAACCACTTCATCCTGAATCTCCACACCAAAAATGGACACATCCTTGTGG
ATTATTCCAAGAACCTCTTTACAGAAGATGTGATGAAGATGCTTATTGAGCTGGCTAAGTCTCGAGGGGTGGAAGATGCT
CGGGCACAAATGTTCAAGGGGACGAAGATCAATTTCACTGAGGATCGGGTTGTGCTCGACGTGGCTCTGCGGAATCGCTC
TAACACCCCCCATGCTAGTGGATGGCAAGGACATGGTACCAGAGGTGAACAAAGTGCTGGAGAAAATGAAGGCATTCTGT
CAGCGTGTCCATGGTGGAGACTGGAAGGGCTACACGGGAAAGACGATTATAAATGTGATCAGCATTGGCATAGGAGGTTC
TGACTTGGGTCTTCTGATGCTGACAGAAGCCCTGAAGCCCTACTCCAAAGGAAGTCCTCGTGTCTGGTTTGTCTCCAATA
TTGATGGTACACATATTGCCAAGACCCTTGCTGAACTTAACCCGGAAACCTCCCTCTTCATCATTGCCTCAAAGACATTT
ACCACCCAGGAGACCATCACCAATGCAGAGACAGCCAAAGAGTGGTTCCTTCATTCAGCAAAGGATCCTTCCGCTGTGGC
AAAGCACTTTGTGGCCTTGTCTACCAATGCTCCGAAAGTTCAATCTTTTGGAATCAACACTCAAAATATGTTTGAATTCT
GGGATTGGGTTGGTGGATGTTACTTGTTGTGGTCAGCTATCGGTCTCTCCATTGCCCTGCATGTTGGTTTTGATAACTTT
GAACAGCTGTTGTCAGGGGCTCACTGGATGGACAATCACTTCCTCACCACCCCACTGAAGAAGAATGCCCCTGTTCTTCT
TGCCATGCTAGGAATCTGGTACATTAACTGTTTTGGATGTGAGACTCAGGCCCTGCTCCCATATGACCAGTATATGAACC
ACTTTGCTGCCTACTTCCATCAGGGTGACATGGAGTCTAATGGGAAGTACATCACCAAGTCAGGAGCTCAGGTTGACTAT
AGTACAGGCCCCATTGTGTGGGGAGAGCCAGGGACCAATGGACAACATGCTTTCTATCAGCTTATTCAGCAGGGTACCTG
GATGATCCCTTGCGATTTTCTCATCCCTGTTCAGACACAGAATCCAATCTGGAATGGCCTTCATCACAAGATTCTTCAAG
CCAACTTCCTGGCTCAGACTGAGGCCCTGATGAAAGGAAAGACAGTAGAGGAGGCAGGCAAGGAGCTGGAAGCTGCAGGC
AAGAGTGGTGATGCCCTGAAGAAGCTGCTGCCTCATAAGGTCTTTGAGGGAAATCGTCCTACTAATTCCATCATCTTCAC
AAAGCTCACTCCTTTCATTCTTGGAGCCTTGATTGCCATATATGAGCACAAGATCTTTGTTCAGGGTGTTGTCTGGGATG
TCAACAGTTATGATCAGTGGGGAGTGGAACTTGGAAAGCAGTTGGCCAAGAAAATTGAGCCTGAGTTGGACTCTGATAAA
CCTGTGACTTCTCATGATGCCTCTACCAATGGGCTGATCAGCTTTATCAAGCAGCACCGGGCC

Alignment

ORF - retro_meug_1022 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.71 %
• Parental protein coverage: 99.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAALSKDPNFQKLVQWHRQHAAELNLRRLFEADHDRFNRFSVNLDTKNGHILVDYSKNLITEDVMKMLIE
          MA.LS.D.NFQKLVQWH.QH...LN.R.L.EAD.D.FN.F..NL.TKNGHILVDYSKNL.TEDVMKMLIE
Retrocopy MATLSQDSNFQKLVQWHCQHTGKLNVRHLLEADQDHFNHFILNLHTKNGHILVDYSKNLFTEDVMKMLIE

Parental  LAKSRGVEDARAQMFKGTKINFTEDRAVLHVALRNRSNTP-MLVDGKDVVPEVNKVLEKMKAFCQRVRGG
          LAKSRGVEDARAQMFKGTKINFTEDR.VL.VALRNRSNTP.MLVDGKD.VPEVNKVLEKMKAFCQRV.GG
Retrocopy LAKSRGVEDARAQMFKGTKINFTEDRVVLDVALRNRSNTP>MLVDGKDMVPEVNKVLEKMKAFCQRVHGG

Parental  EWKGYTGKMITDVINIGIGGSDLGPLMVTEALKPYSKGGPRVWFVSNIDGTHIAKTLAELNPETSLFIIA
          .WKGYTGK.I..VI.IGIGGSDLG.LM.TEALKPYSKG.PRVWFVSNIDGTHIAKTLAELNPETSLFIIA
Retrocopy DWKGYTGKTIINVISIGIGGSDLGLLMLTEALKPYSKGSPRVWFVSNIDGTHIAKTLAELNPETSLFIIA

Parental  SKTFTTQETITNAETAKEWFLHSAKDPSAVAKHFVALSTNAPKVQDFGIDTQNMFEFWDWVGGRYSLWSA
          SKTFTTQETITNAETAKEWFLHSAKDPSAVAKHFVALSTNAPKVQ.FGI.TQNMFEFWDWVGG.Y.LWSA
Retrocopy SKTFTTQETITNAETAKEWFLHSAKDPSAVAKHFVALSTNAPKVQSFGINTQNMFEFWDWVGGCYLLWSA

Parental  IGLSIALHVGFDNFEQLLSGAHWMDNHFLTTPLEKNAPVLLAMLGIWYINCFGCETQALLPYDQYMHRFA
          IGLSIALHVGFDNFEQLLSGAHWMDNHFLTTPL.KNAPVLLAMLGIWYINCFGCETQALLPYDQYM..FA
Retrocopy IGLSIALHVGFDNFEQLLSGAHWMDNHFLTTPLKKNAPVLLAMLGIWYINCFGCETQALLPYDQYMNHFA

Parental  AYFQQGDMESNGKYITKSGARVDYSTGPIVWGEPGTNGQHAFYQLIHQGTRMIPCDFLIPVQTQNPIRNG
          AYF.QGDMESNGKYITKSGA.VDYSTGPIVWGEPGTNGQHAFYQLI.QGT.MIPCDFLIPVQTQNPI.NG
Retrocopy AYFHQGDMESNGKYITKSGAQVDYSTGPIVWGEPGTNGQHAFYQLIQQGTWMIPCDFLIPVQTQNPIWNG

Parental  LHHKILLANFLAQTEALMKGKTVEEARKELEAAGKSGDALKKLLPHKVFEGNRPTNSIVFTKLTPFILGA
          LHHKIL.ANFLAQTEALMKGKTVEEA.KELEAAGKSGDALKKLLPHKVFEGNRPTNSI.FTKLTPFILGA
Retrocopy LHHKILQANFLAQTEALMKGKTVEEAGKELEAAGKSGDALKKLLPHKVFEGNRPTNSIIFTKLTPFILGA

Parental  LIAMYEHKIFVQGVVWDVNSYDQWGVELGKQLAKKIEPELDSDKPVTSHDASTNGLISFIKQHRA
          LIA.YEHKIFVQGVVWDVNSYDQWGVELGKQLAKKIEPELDSDKPVTSHDASTNGLISFIKQHRA
Retrocopy LIAIYEHKIFVQGVVWDVNSYDQWGVELGKQLAKKIEPELDSDKPVTSHDASTNGLISFIKQHRA

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_1022 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1022 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,