RetrogeneDB ID: retro_meug_1281

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold35060:3336..4994(-)
• 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_1281
ATGGCTGCACTCAGCCAGGACCCGAACTTCCAGAAGCAAGTCCAGTGGCACTGCCAGCACACGGCCAAGCTCAACCTCTG
GTGCCTCTTTGAGGCTGACCAGGACTGCTTTAGCTGCTTCAACTTGAATCTCGACACCAAGAATGGATACATCCTTGTGA
ATTGTTGCAAGAACCTCATTACAGAAGATATGATGAAGATGCTTATTGAGCTGGCCAGGCCTCGAGAGGTGGAAGATGTT
CAGGCACAAATGTTCAAGGGGACAAAGATCAATTTCACTGAGGATCGGGCTGTGCTCCACTTGGCACTGTAGAATCACTC
TAACACCCCCATGCTAGTGGACGGCAAGGATGTGGTACCAGAGGTGAACAAAGTGCCGGAGGAAATGAAGGCATTCTGCC
AGTGTGTCCGTGGTGGAGACTGGAAGGGCTTCACAAGAAAGACTATTACAGATGTGGTCAACATTGGCATTGGAGGTTCT
TACTTGGGTCCTCTGATGGTGACAAAAGCCCTGAAGCCCTACTCCACAGAAGGTCTTCATGTTTGGTTTGTCTCCAATAT
TGATGATACACATATTGCCAAGACCCTTGCTGAACTTAACCTGGAAACCTTCCTCTTCATCATTGCCTCAAAGACATTTA
CCACCCAGGAGACCATCACCAATGCAGAGACAGTCAAGGAGTAGTTCCTTTAGAGAGCAAAAGATCTTTCAACTGTGGCA
AAGCACTTCGTGGCCTTGCTTACCAATGCACCAAAAGTTCAAGATTTTGGAATCAACACTTAAAATATGTTTGAATTCTA
GGACTGGGTTGGTGGATGTTACTCCTTGTGGTCAGCTATTGGTCTCTCCATTGCCCTGCATGTTGGTTTTGATAACTTTG
AGCAGCTGTTGTCGGGGGCTCACTGAATGGACAATCACTTCCTCACCATCCCACTGGAGAAGAATGCCCCTGTGCTGCTT
TCCATGCTAGGCATCTGGTATGTTATCTGTTTTGGATGTAAGACTCAGGCCCTGCTTCCATATGACCAGTATATGCATCA
CTTTTCCGCTTACTTCCAGCAGGGTGACATGGAGTCTAATAGGAAGTACATCACCAAGTCAGGAGCTCAGGTTGATTACA
GTACAGGCCCCATTGTGTGTGGAGAGCCATGGATCAATGGACAACATGCTTTCTATCGGCTTATTCACCAGAGTACCCGG
ATGATCCCTTGTGATTTTCTCATCCCTGTTCAGACACAGAATCCAATCTGGAATGGCCTTCATCGCAAGATTCTTCTAGC
CAACTTCCTGGCTCAGAATGAGACTCTGATGAAAGGAAAGACAGCAGAGGAGGCACGCAAGGAGCTGGAGGCTGCAGGCA
AGAGTGGTGACGCCTTGAAGAAGATGCTGCCTCATAAGGTCTTTGGGGGAAATCGTCCACTAATTACATTGTCTTCACAA
AGCTCACTCCTTTCATTCTTGGAGCCTTGATTGCCATGTATGAGCACAAAATCTTTGTTCAGAGTGTTGTCTGGGATGTC
AACAGTTATGATCAGTGGGGAGTGGAACTGGGAAATCAATTCGCCAAGAAAATTGAGCCTTAGTTGGACTCTGATAAACC
TGTGACTTCTCATGATGCCTCTACCAATGGGCTGATCAGCTTTATCAAGCAGCACCGG

Alignment

ORF - retro_meug_1281 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.2 %
• Parental protein coverage: 99.64 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAALSKDPNFQKLVQWHRQHAAELNLRRLFEADHDRFNRFSVNLDTKNGHILVDYSKNLITEDVMKMLIE
          MAALS.DPNFQK.VQWH.QH.A.LNL..LFEAD.D.F..F..NLDTKNG.ILV...KNLITED.MKMLIE
Retrocopy MAALSQDPNFQKQVQWHCQHTAKLNLWCLFEADQDCFSCFNLNLDTKNGYILVNCCKNLITEDMMKMLIE

Parental  LAKSRGVEDARAQMFKGTKINFTEDRAVLHVALRNRSNTPMLVDGKDVVPEVNKVLEKMKAFCQRVRGGE
          LA..R.VED..AQMFKGTKINFTEDRAVLH.AL.N.SNTPMLVDGKDVVPEVNKV.E.MKAFCQ.VRGG.
Retrocopy LARPREVEDVQAQMFKGTKINFTEDRAVLHLAL*NHSNTPMLVDGKDVVPEVNKVPEEMKAFCQCVRGGD

Parental  WKGYTGKMITDVINIGIGGSDLGPLMVTEALKPYSKGGPRVWFVSNIDGTHIAKTLAELNPETSLFIIAS
          WKG.T.K.ITDV.NIGIGGS.LGPLMVT.ALKPYS..G..VWFVSNID.THIAKTLAELN.ET.LFIIAS
Retrocopy WKGFTRKTITDVVNIGIGGSYLGPLMVTKALKPYSTEGLHVWFVSNIDDTHIAKTLAELNLETFLFIIAS

Parental  KTFTTQETITNAETAKEWFLHSAKDPSAVAKHFVALSTNAPKVQDFGIDTQNMFEFWDWVGGRYSLWSAI
          KTFTTQETITNAET.KE.FL..AKD.S.VAKHFVAL.TNAPKVQDFGI.T.NMFEF.DWVGG.YSLWSAI
Retrocopy KTFTTQETITNAETVKE*FL*RAKDLSTVAKHFVALLTNAPKVQDFGINT*NMFEF*DWVGGCYSLWSAI

Parental  GLSIALHVGFDNFEQLLSGAHWMDNHFLTTPLEKNAPVLLAMLGIWYINCFGCETQALLPYDQYMHRFAA
          GLSIALHVGFDNFEQLLSGAH.MDNHFLT.PLEKNAPVLL.MLGIWY..CFGC.TQALLPYDQYMH.F.A
Retrocopy GLSIALHVGFDNFEQLLSGAH*MDNHFLTIPLEKNAPVLLSMLGIWYVICFGCKTQALLPYDQYMHHFSA

Parental  YFQQGDMESNGKYITKSGARVDYSTGPIVWGEPGTNGQHAFYQLIHQGTRMIPCDFLIPVQTQNPIRNGL
          YFQQGDMESN.KYITKSGA.VDYSTGPIV.GEP..NGQHAFY.LIHQ.TRMIPCDFLIPVQTQNPI.NGL
Retrocopy YFQQGDMESNRKYITKSGAQVDYSTGPIVCGEPWINGQHAFYRLIHQSTRMIPCDFLIPVQTQNPIWNGL

Parental  HHKILLANFLAQTEALMKGKTVEEARKELEAAGKSGDALKKLLPHKVFEGNRP-TNSIVFTKLTPFILGA
          H.KILLANFLAQ.E.LMKGKT.EEARKELEAAGKSGDALKK.LPHKVF.GNRP.TN.IVFTKLTPFILGA
Retrocopy HRKILLANFLAQNETLMKGKTAEEARKELEAAGKSGDALKKMLPHKVFGGNRP<TNYIVFTKLTPFILGA

Parental  LIAMYEHKIFVQGVVWDVNSYDQWGVELGKQLAKKIEPELDSDKPVTSHDASTNGLISFIKQHR
          LIAMYEHKIFVQ.VVWDVNSYDQWGVELG.Q.AKKIEP.LDSDKPVTSHDASTNGLISFIKQHR
Retrocopy LIAMYEHKIFVQSVVWDVNSYDQWGVELGNQFAKKIEP*LDSDKPVTSHDASTNGLISFIKQHR

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_1281 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1281 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,