RetrogeneDB ID: retro_meug_527

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold131377:1375..1715(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDA
• Ensembl ID: ENSMEUG00000016075
• Aliases: None
• Description: cytidine deaminase [Source:HGNC Symbol;Acc:1712]

Sequence

>retro_meug_527
AAGGAGCTCATTTGCAAGGGCCAAGAAGCCAAGGAGTTTTCCTACTGTCCCTACAGTAAATTCCCAGTGGGGGCAGCTCA
CCTGACTCTGGATGGGAAGATTTTTTTCAGGATGCAACCTAGAAAATGCGTCCTACCCAGTGGGCACCTGTGCAGAACAC
ACCACCATGCAGAAGACCATCTCGGAATGACACAAACAATTCTGGGCCCTTGCTATTACCAGCAATTTGAAGGATGATTT
TATTGTACCATGTGGAGCCTGCAGACAAGTGATGAGAGAGTTTGGAAAACATTGGTGTGTGTACATGACAAAAGCAGATG
GTACATATGAAGTCAAGATG

Alignment

ORF - retro_meug_527 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.7 %
• Parental protein coverage: 76.87 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QQLICKGQEAKEFAYCPYSNFPVGAALLTLDGKIF-SGCNVENAAYPVGTCAERTAIQKAISEGHKQFRA
          ..LICKGQEAKEF.YCPYS.FPVGAA.LTLDGKIF.SGCN.ENA.YPVGTCAE.T..QK.ISE.HKQF.A
Retrocopy KELICKGQEAKEFSYCPYSKFPVGAAHLTLDGKIF>SGCNLENASYPVGTCAEHTTMQKTISE*HKQFWA

Parental  IAITSNTENNFIIPFGACRQVMREFGKHWYVYMTKADGTYEVKM
          .AITSN....FI.P.GACRQVMREFGKHW.VYMTKADGTYEVKM
Retrocopy LAITSNLKDDFIVPCGACRQVMREFGKHWCVYMTKADGTYEVKM

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_527 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_527 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 3 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000011900	1 retrocopy	retro_dord_61,
Macropus eugenii	ENSMEUG00000016075	6 retrocopies	retro_meug_102, retro_meug_1601, retro_meug_1617, retro_meug_2041, retro_meug_527 , retro_meug_603,
Ochotona princeps	ENSOPRG00000007364	2 retrocopies	retro_opri_282, retro_opri_603,