RetrogeneDB ID: retro_meug_2149

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold95228:1562..2064(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NECAP2
• Ensembl ID: ENSMEUG00000006140
• Aliases: None
• Description: NECAP endocytosis associated 2 [Source:HGNC Symbol;Acc:25528]

Sequence

>retro_meug_2149
GAGGCAGCGTATGAGTCCTCCCTATTCTTGAAGCCCCAAATCAGAGTCTGTGCATCCCACTACATATTTCCAACCACAGA
CACAGGGCATCAGACTGCAACTGGATCAGCCTGATTGGACTGATTGTCTATAAATCACTTCCAAAGGAAAGACTGCCTAC
ATCAAACCTGAAGACAAAGTATCACCAGAGCTATTTGCTCAGGCACCAGTGGAACAATATCCTGGCATTGCTGTAGAGAC
AGTGACAGATTCTAGATGATACTTTGTGATCCAGATTCAAGATGGCACTGGACTTAGTGTTTCATTGGTATTGGCTTCAC
AGATCAGGGTGATGCCTTCTACTTCAGCTTTCAGTTTCTCTGTAAGATCACTTCAAATGGATATGGAAGGAATCTGAGGT
CATCAAAGAATCTCAGGAAATGTACATGCTCCCAAGCTGGATCTAAGCTTTAAGGGAGGACAAACTATTAAATTGAGTAC
TGGGAATATTATAACCAAAAAA

Alignment

ORF - retro_meug_2149 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.02 %
• Parental protein coverage: 63.02 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  DSEYESVLCVKPEVHVYR-IPPRATNRGYRAADW-QLDQPSWSGRLRITAKGQMAYIKLEDRTSGELFAQ
          ...YES.L..KP...V...IP....N...RA.D..QLDQP.W...L.IT.KG..AYIK.ED..S.ELFAQ
Retrocopy EAAYESSLFLKPQIRVCA<IPLHISNHRHRASDC<QLDQPDWTDCL*ITSKGKTAYIKPEDKVSPELFAQ

Parental  APVEQFPSIAVESVTDSSRYFVVRIEDGSGRRA-FIGIGFADRGDA--FDF-NVALQDHFKWVKQQCEFA
          APVEQ.P.IAVE.VTDS..YFV..I.DG.G....FIGIGF.D.GDA..F.F..V.L.DHFKW.....E..
Retrocopy APVEQYPGIAVETVTDSR*YFVIQIQDGTGLSV<FIGIGFTDQGDAFYFSF<SVSL*DHFKWIWKESEVI

Parental  KQAQNP-TPGPKLDLSFKEGQTIKLNIASVRKKE
          K..Q......PKLDLSFK.GQTIKL.......K.
Retrocopy KESQEM<VHAPKLDLSFKGGQTIKLSTGNIITKK

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_2149 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2149 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015895	1 retrocopy	retro_cfam_1864,
Callithrix jacchus	ENSCJAG00000008146	2 retrocopies	retro_cjac_1447, retro_cjac_2449,
Macropus eugenii	ENSMEUG00000006140	1 retrocopy	retro_meug_2149 ,