RetrogeneDB ID: retro_meug_1379

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold38523:1597..1879(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBP1
• Ensembl ID: ENSMEUG00000003195
• Aliases: None
• Description: retinol binding protein 1, cellular [Source:HGNC Symbol;Acc:9919]

Sequence

>retro_meug_1379
GAAATCATCCAGAATGGTGACCATATGATCATCCACACTCTGAGTACTTTCAGGAACTACATCATGGAATTTGACATAGG
GTGGGAATTTGAGGAGGATCTGTCCAGCATGGAAGACCACAAATGCCTGATCAAGATGAGCTGGGACAGTGACAATCTGC
AGTGTGTACAGAAAGGGGAGAAGGAACACTGAAGTTGGACACAGTAGATTGAAGGCAATGAGCTGCATCTGGAAATGAGG
GTGCAAGGTGTCATATGCAAGCAAGTCTTCAAGAAGGTGCAG

Alignment

ORF - retro_meug_1379 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.91 %
• Parental protein coverage: 69.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EIVQNGDHMIIRTLSTFRNYIMEFDIGQEFEEDLSGVDDRKCLTKVSWDGDKLQCVQKGEKEGRGWTHWI
          EI.QNGDHMII.TLSTFRNYIMEFDIG.EFEEDLS...D.KCL.K.SWD.D.LQCVQKGEKE...WT..I
Retrocopy EIIQNGDHMIIHTLSTFRNYIMEFDIGWEFEEDLSSMEDHKCLIKMSWDSDNLQCVQKGEKEH*SWTQ*I

Parental  EGNELHLEMRVQGVVCKQVFKKVQ
          EGNELHLEMRVQGV.CKQVFKKVQ
Retrocopy EGNELHLEMRVQGVICKQVFKKVQ

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_1379 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1379 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020028	1 retrocopy	retro_btau_1290,
Erinaceus europaeus	ENSEEUG00000005367	1 retrocopy	retro_eeur_42,
Macropus eugenii	ENSMEUG00000002136	1 retrocopy	retro_meug_1874,
Macropus eugenii	ENSMEUG00000003195	2 retrocopies	retro_meug_1379 , retro_meug_511,
Macropus eugenii	ENSMEUG00000012501	6 retrocopies	retro_meug_1037, retro_meug_148, retro_meug_1660, retro_meug_273, retro_meug_563, retro_meug_819,
Ictidomys tridecemlineatus	ENSSTOG00000005673	1 retrocopy	retro_itri_749,