RetrogeneDB ID: retro_meug_1124

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold29788:16927..17651(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000013859
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PAQR4
• Ensembl ID: ENSMEUG00000001349
• Aliases: None
• Description: progestin and adipoQ receptor family member IV [Source:HGNC Symbol;Acc:26386]

Sequence

>retro_meug_1124
TCCAGCCAGCCCCTGCTAGATTGGGCCAACTCTCCCTGTCACCTGCAGTTCAACCCATTTGTGCTGACGGGGTACCGGCC
CGCCAGCAGCGCCCTGGGCTGTGTGCACAGCCTCTTCTACCTACACAACGAGCTGGGCAACATCTACATCCACGGCATGG
CCCTCATGATCTTACTGGTGCTGCTGCCACTGACCATCCCTTGGAACCAGCTGGGCTGGGGCAGCTGGCTGGGTGGCACC
CACTGTTTGGCATGCCTGGCACCCACCGCCGGTTCTGTCCTTTACCACCTCTTCATGTGCCATCATGGAGGCAGCCGCAT
CTACACCCGCCTCCTGACCCTTGACTTGTGCGGAGTCTGGCTGGTCAACAGTCTCGGAGCCTTACCCCTGATTCACTGCA
CCCTGTGCTGCTGGCCGCGCTGTCGGCTGATGGCCCTCCTCACTTACGGCTTCCTGTCCAGCATAGCGGGCTGGCAGGCC
CTCACCGCCCACTCCACCATGGCTCGCCTCCGAGCCTTTAGCTGGCAGGCCACCGGCCGCCTGCTGGTGTTCGGGCTCCG
GGGACTGGGGCTAGGCACCGGCGCCCCGGGGTCCTTGACTTACTACCTGCGAATGGATGCCTTGGCGCTGCTGGGAGACT
GGTGAATGTGGCGCGGCTGCCCGGAGCGCTGGAAGCCCGGGGCTTTGATTACTGGTGTACTCTCACCAGATTATGCACTT
GCTG

Alignment

ORF - retro_meug_1124 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.98 %
• Parental protein coverage: 97.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SGPRLLDWASSPPHLQFNKFVLTGYRPASSGSGCLRSLFYLHNELGNIYTHGLALLGFLVLLPLTMPWGQ
          S...LLDWA.SP.HLQFN.FVLTGYRPASS..GC..SLFYLHNELGNIY.HG.AL...LVLLPLT.PW.Q
Retrocopy SSQPLLDWANSPCHLQFNPFVLTGYRPASSALGCVHSLFYLHNELGNIYIHGMALMILLVLLPLTIPWNQ

Parental  LGGGGWLGGTHCVACLAPPAGSVLYHLFMCHRGGSPVYARLLALDMCGVCLVNTLGALPIIHCTLVCRPW
          LG.G.WLGGTHC.ACLAP.AGSVLYHLFMCH.GGS..Y.RLL.LD.CGV.LVN.LGALP.IHCTL.C.P.
Retrocopy LGWGSWLGGTHCLACLAPTAGSVLYHLFMCHHGGSRIYTRLLTLDLCGVWLVNSLGALPLIHCTLCCWPR

Parental  LRPAALVGYTLISGLAGWRALTAPSTSARLRAFGWQAGARLLVFGARGMGLG-AAPGSLPCYLRMDALAL
          .R..AL..Y...S..AGW.ALTA.ST.ARLRAF.WQA..RLLVFG.RG.GLG..APGSL..YLRMDALAL
Retrocopy CRLMALLTYGFLSSIAGWQALTAHSTMARLRAFSWQATGRLLVFGLRGLGLGTGAPGSLTYYLRMDALAL

Parental  LGG-LVNVARL-PERWGPGR-FDYWGN-SHQIMHLL
          LG..LVNVARL.PERW.PG..FDYW...SHQIMHLL
Retrocopy LGD<LVNVARL>PERWKPGA<FDYWCT<SHQIMHLL

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_1124 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1124 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001349	1 retrocopy	retro_meug_1124 ,
Macropus eugenii	ENSMEUG00000014552	1 retrocopy	retro_meug_1798,
Macropus eugenii	ENSMEUG00000015439	1 retrocopy	retro_meug_516,
Monodelphis domestica	ENSMODG00000016528	1 retrocopy	retro_mdom_2021,
Sarcophilus harrisii	ENSSHAG00000017610	1 retrocopy	retro_shar_18,