RetrogeneDB ID: retro_meug_456

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold117136:307..1062(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPARG
• Ensembl ID: ENSMEUG00000007824
• Aliases: None
• Description: peroxisome proliferator-activated receptor gamma [Source:HGNC Symbol;Acc:9236]

Sequence

>retro_meug_456
AGTGATATCAACCAGCTGAACCAAGAGTCTATTGATGTCCAGGCCCTGATCAGACATTTCTATGACTCATACAGAAATTC
CTTCCTGCTGACCAAAGACCAGGAGAGGGAAATCTTGACAAGAAAGACAATGGACAAATAACCAATTGTTTTGTATGACA
AGAAATCCTTAATGATGGGAGAAGACCAGATTACTTTTAAGTACAACACATACCTGTAGGAACATAGCAAAGAAGTGGAC
AACCACATTTTCCAGACCTGTCAGTTCTACTATGTAGAGGCAGTCGAAGACATCACTGAGGATACTGAGATCATTCCAGG
TTTTCTCAATCTTTACTTGAATGAACAAGTGACCATCTTGATATATGGTGTTCATGAGAACATCTCCACCATGCTGACCT
CCTTAATGAATAAAGATGTGGTTCTTATATTTGACTGCCAAGGATTCATGATGAGGGAGTTTCTGGAGAGGCTTAGAAAA
CCCTTTGGTTACTTTATAGTGCCCAAGTATGAGTTTGTGGTAAAGTTCAATGCATTGAAATTAGATCATAGAGACTAAGT
AATATTTATAGTTGTCATTATCTCACTGGAGACCTCCCTGGTATGCCGAATGTAAAGGCCAATGAGGACATCTAGTGTAA
CTTTCTGAATGCTTTGGAGCTCCAGCTCAAGCTGAAGCACCTTGAAGTATCCCAACTGCTTGCCAGTTTCCTTCAGAAAA
TGACAGACCTCAGTCAGATTGTAACTGAGCATGTC

Alignment

ORF - retro_meug_456 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.4 %
• Parental protein coverage: 50.1 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SDIDQLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHNT
          SDI.QLN.ES.D..AL..H.YDSY..SF.LTK...R.ILT.KT.DK.P.V.YD..SLMMGED.I.FK.NT
Retrocopy SDINQLNQESIDVQALIRHFYDSYRNSFLLTKDQEREILTRKTMDK*PIVLYDKKSLMMGEDQITFKYNT

Parental  PLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKNIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDG
          .L.E.SKEV...IFQ.CQF..VEAV..ITE....IPGF.NL.LN.QVT.L.YGVHE.I.TML.SLMNKD.
Retrocopy YL*EHSKEVDNHIFQTCQFYYVEAVEDITEDTEIIPGFLNLYLNEQVTILIYGVHENISTMLTSLMNKDV

Parental  VLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAIKFNALELDDSDLAIFIAVII-LSGDRPGLLNVKPIE
          VLI...QGFM.REFL..LRKPFG.F..PK.EF..KFNAL.LD..D..IFI.VII.L.GD.PG..NVK..E
Retrocopy VLIFDCQGFMMREFLERLRKPFGYFIVPKYEFVVKFNALKLDHRD*VIFIVVII<LTGDLPGMPNVKANE

Parental  DIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHV
          DI..N.L.ALELQLKL.H.E.SQL.A..LQKMTDL.QIVTEHV
Retrocopy DI*CNFLNALELQLKLKHLEVSQLLASFLQKMTDLSQIVTEHV

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_456 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_456 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000007824	1 retrocopy	retro_meug_456 ,