RetrogeneDB ID: retro_meug_346

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold103596:3411..4304(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPD1
• Ensembl ID: ENSMEUG00000015143
• Aliases: None
• Description: glycerol-3-phosphate dehydrogenase 1 (soluble) [Source:HGNC Symbol;Acc:4455]

Sequence

>retro_meug_346
ACAGACATCATCAGTAACGATCATGAGAACGTAAAATACCTCCCCGGACACAAGCTGCCTGAAAATGTGATTACTGTCCC
AAGTCTCATTGAGGTGGTTGGAGATGCAGACCTCCTGGTCTTTGTGATTCCTCACCAGTTCATTCACAGGATCTGCGATA
ACATCACTGGAGGAGACCCCAAGAAAGCTCTGGGGATTATCTCATCAAGGAAATTGATGCGGGTCCCAAAGGGCTCAAAC
TTATTTCTGACAATATCCAAGAGAAGATGGCCATTGATATCAGCGTACTGATGGGTGCCAACATCGCCAACGAGGTGACT
GCTGAGAAGTTTTGTGAGACCACAATAGGCAGCAAAGTCCTGGAGAAGGGACTGCTCTTCAAGGAACTCCTCCAAACTCC
AAAGTTCCGAATCACTGTAGTGGATGATGCCGACACCGTGGAACTGCTTGGGGTGTTCAAGAATATTGTGGCAGTGGGAG
CCGGCTTCTGTGACAGACTCTGCTGCGGGGACAACACCAAGGCTGCCGTCATCCTTCTGGGGCTCATGGAAATGATCTCT
TTCTCCAGGATCTTTTGCAAGGGGTAAGTGTCCAGGGCCACCTTCCTGGAGAGCTGTGGCATGACTGACCTGATCACCAC
GTGCTACTCAAGCCGGAACCGAAGAATAGCTGAAACATTTGTCAAGACTGGAAAGACTATCCAGGAATTGGAGAAAGACC
TGCTAAATGGCCAGAAGCTCCAGGGATCCCCGACCTCAGTAGCGGTATACCGCATCCTCAAGCACAAGGGGATACTGGAG
AAGTTCCCCTTGTTTACGGTCATCTAACAGATCTGCTACGAAGGTCGACTAGTGCAGGAGATGCTGTCCTGCCTCCAGAA
CTGCCAAAAGCAT

Alignment

ORF - retro_meug_346 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.88 %
• Parental protein coverage: 85.39 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TEIINTKHENVKYLPGHKLPPNVVAVPDVIQAAADADILIFVVPHQFIGKICDQLKGHLKGNAIGVS-LI
          T.II...HENVKYLPGHKLP.NV..VP..I....DAD.L.FV.PHQFI..ICD...G.....A.G...LI
Retrocopy TDIISNDHENVKYLPGHKLPENVITVPSLIEVVGDADLLVFVIPHQFIHRICDNITGGDPKKALGII<LI

Parental  KGVDEGPDGLKLISEVIHERLGIPISVLMGANIANEVADEKFCETTIGCKDPAQGQLLKELLQTPNFRIT
          K..D.GP.GLKLIS..I.E...I.ISVLMGANIANEV..EKFCETTIG.K....G.L.KELLQTP.FRIT
Retrocopy KEIDAGPKGLKLISDNIQEKMAIDISVLMGANIANEVTAEKFCETTIGSKVLEKGLLFKELLQTPKFRIT

Parental  VVKEVDTVEICGALKNVVAVGAGFCDGLGFGDNTKAAVIRLGLMEMISFSKLFCKGPVSSATFLESCGVA
          VV...DTVE..G..KN.VAVGAGFCD.L..GDNTKAAVI.LGLMEMISFS..FCKG.VS.ATFLESCG..
Retrocopy VVDDADTVELLGVFKNIVAVGAGFCDRLCCGDNTKAAVILLGLMEMISFSRIFCKG*VSRATFLESCGMT

Parental  DLITTCYGGRNRKVAEAFARTGKSIEQLEKEMLNGQKLQGPQTARELHNILKHKGMVDKFPLFMAVYQVC
          DLITTCY..RNR..AE.F..TGK.I..LEK..LNGQKLQG..T......ILKHKG...KFPLF....Q.C
Retrocopy DLITTCYSSRNRRIAETFVKTGKTIQELEKDLLNGQKLQGSPTSVAVYRILKHKGILEKFPLFTVI*QIC

Parental  YEGHPVQKFIQYLQKHPEH
          YEG..VQ.....LQ....H
Retrocopy YEGRLVQEMLSCLQNCQKH

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_346 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_346 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020375	1 retrocopy	retro_etel_1326,
Macropus eugenii	ENSMEUG00000015143	1 retrocopy	retro_meug_346 ,
Ictidomys tridecemlineatus	ENSSTOG00000004948	1 retrocopy	retro_itri_1868,
Tursiops truncatus	ENSTTRG00000001012	1 retrocopy	retro_ttru_1295,