RetrogeneDB ID: retro_meug_1617

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold49005:12751..13153(+)
• 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_1617
CCAGCCCAGATTAAGCAGCTCATTTGCAAGGGCCAAGAAGCCAAGGAGTTTGCTTTCTGTCCCTACAGTAACTTATCAGT
GAGAGCAGCTCTCTTGACTCTGTATGGGAAGTTTTTTTTAGGATGCAACACAGAAAATGCCTCCTACCCAGTAGGCACCT
GTGCAGAATGCATCGCCATTCAAAAGGCCATCTTGGAAGCACACAAACAGTTCCAGGCCATTGCTATTACCAATAATTTG
AAGGATGACTTTAGTGCATCATGTGGAGCCTGCAGACAAGTGATGAGAGAGTTTGGAAAACATTGGCAAGTCTATATGAC
AAAAGCAGATGGTATGTATGAAGTCAAGATAGTCCATGAACTACTGCCTGGATCTTTTGGACCAGATGACCTAAAGAAGA
AC

Alignment

ORF - retro_meug_1617 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.37 %
• Parental protein coverage: 91.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKNQQQLICKGQEAKEFAYCPYSNFPVGAALLTLDGKIFSGCNVENAAYPVGTCAERTAIQKAISEGHKQ
          P....QLICKGQEAKEFA.CPYSN..V.AALLTL.GK...GCN.ENA.YPVGTCAE..AIQKAI.E.HKQ
Retrocopy PAQIKQLICKGQEAKEFAFCPYSNLSVRAALLTLYGKXXXGCNTENASYPVGTCAECIAIQKAILEAHKQ

Parental  FRAIAITSNTENNFIIPFGACRQVMREFGKHWYVYMTKADGTYEVKMVHELLPASFGPDDLQKN
          F.AIAIT.N....F....GACRQVMREFGKHW.VYMTKADG.YEVK.VHELLP.SFGPDDL.KN
Retrocopy FQAIAITNNLKDDFSASCGACRQVMREFGKHWQVYMTKADGMYEVKIVHELLPGSFGPDDLKKN

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_1617 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1617 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,