RetrogeneDB ID: retro_meug_2184

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold98899:697..1452(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000008416
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: HSD17B10
• Ensembl ID: ENSMEUG00000008565
• Aliases: None
• Description: hydroxysteroid (17-beta) dehydrogenase 10 [Source:HGNC Symbol;Acc:4800]

Sequence

>retro_meug_2184
GGCATGGTTGGAGTGGTCACAGGCGGGCGTCGGGCCTGGGCCAGGCCACGGTCAGAAGACTGGTCAAGCAAGGGGCCCGG
GCTGTCATCGTGGACTTACCGAAGTCATCCGGCGAAGCCCTGGCAAAGGAACTGGGGGCTTCCTGTGCCTTCGCCCCCAC
CGATGTAACCTCTGAAGCAGATGTACAAGGGGCCCTGACCTTGGCCAGGGAGAAATTTGGCCAGGTGGACATTGCTGTCA
ATTGTGCTGGCGTTGCAGTGGCCTCCAAGACTTACAACTTCAAAAACAGTCAAGCACACTTCCTGGAGGCCTTCCAGAAA
GTGATCCAGGTAAACCTAATTGGTACCTTCAACATGACCTGCCTTGCTGCTGGGGAGATGGGGAAGAATGAGCCAGGTGA
GGGTGGCCACCGGGGCATTATCATCAACACAGCCAGTGTGGCTGCCTTTGAGGGCCAAGTTGGCCAAATTGCATATTCTG
CATCCAAGGGAGCCATTGTGGGGATGACTCTGCCTGCAGCCCAGGACCTGGCTCCCAGGGGGATCCGGGTGGTCACAATT
GCTCCAGGCCTGTTCGAGACACCCCTCCTGTTGGGACTCCCTGTTAAGGTCCGCTCTTTCCTGACCCGTCAAGTGCCCTT
CCCCAGCTGCCTGGGAGATCCGGCAGAATATGCCCACCTTGTGCAGGCTGTGGTAGAAAATCCCGTGCTCAATGGTGAGG
TGATCTGTCTGGATGGAGGTATCCATATGCAGCCC

Alignment

ORF - retro_meug_2184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.72 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GMVGVVTGG-ASGLGQATIRRLIKQGARAVIMDLPQSSGEALAKELGASCAFAPTDVTSEADVQGALTLA
          GMVGVVTGG.ASGLGQAT.RRL.KQGARAVI.DLP.SSGEALAKELGASCAFAPTDVTSEADVQGALTLA
Retrocopy GMVGVVTGG<ASGLGQATVRRLVKQGARAVIVDLPKSSGEALAKELGASCAFAPTDVTSEADVQGALTLA

Parental  KEKFGRVDIAVNCAGIAVASKTYNFKNSQAHSLEAFQK---VNLIGTFNVIRLAAGEMGKNEPDEGGHRG
          .EKFG.VDIAVNCAG.AVASKTYNFKNSQAH.LEAFQK...VNLIGTFN...LAAGEMGKNEP.EGGHRG
Retrocopy REKFGQVDIAVNCAGVAVASKTYNFKNSQAHFLEAFQKVIQVNLIGTFNMTCLAAGEMGKNEPGEGGHRG

Parental  IIINTASVAAFEGQVGQIAYSASKGGIVGMTLPAARDLAPMGIRVVTIAPGLFETPLLLGLPDKVRSFLA
          IIINTASVAAFEGQVGQIAYSASKG.IVGMTLPAA.DLAP.GIRVVTIAPGLFETPLLLGLP.KVRSFL.
Retrocopy IIINTASVAAFEGQVGQIAYSASKGAIVGMTLPAAQDLAPRGIRVVTIAPGLFETPLLLGLPVKVRSFLT

Parental  RQVPFPSRLGDPTEYAHLVQAVVENPLLNGEVIRLDGGIRMQP
          RQVPFPS.LGDP.EYAHLVQAVVENP.LNGEVI.LDGGI.MQP
Retrocopy RQVPFPSCLGDPAEYAHLVQAVVENPVLNGEVICLDGGIHMQP

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_2184 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2184 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 13 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005036	1 retrocopy	retro_amel_371,
Canis familiaris	ENSCAFG00000016277	1 retrocopy	retro_cfam_545,
Choloepus hoffmanni	ENSCHOG00000000939	1 retrocopy	retro_chof_582,
Cavia porcellus	ENSCPOG00000009594	1 retrocopy	retro_cpor_535,
Dipodomys ordii	ENSDORG00000004051	1 retrocopy	retro_dord_532,
Erinaceus europaeus	ENSEEUG00000005080	1 retrocopy	retro_eeur_379,
Felis catus	ENSFCAG00000013899	1 retrocopy	retro_fcat_1827,
Macropus eugenii	ENSMEUG00000008565	1 retrocopy	retro_meug_2184 ,
Macropus eugenii	ENSMEUG00000008660	1 retrocopy	retro_meug_1665,
Myotis lucifugus	ENSMLUG00000000175	1 retrocopy	retro_mluc_4,
Otolemur garnettii	ENSOGAG00000002951	1 retrocopy	retro_ogar_1823,
Tarsius syrichta	ENSTSYG00000005340	3 retrocopies	retro_tsyr_1000, retro_tsyr_1542, retro_tsyr_2078,
Xenopus tropicalis	ENSXETG00000007721	1 retrocopy	retro_xtro_39,