RetrogeneDB ID: retro_meug_1993

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold77523:11206..11425(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AP2S1
• Ensembl ID: ENSMEUG00000001062
• Aliases: None
• Description: adaptor-related protein complex 2, sigma 1 subunit [Source:HGNC Symbol;Acc:565]

Sequence

>retro_meug_1993
ATATTTGTAACTGTCAGTGACAACTTGATCTACCCAGATACCATCTGCATCTTCCTGGAGGTCTTCAAGGAATATTTCCA
CATTGTCTGTGAATTAAACCTCATCTCTAACTTATGAAAGGTTTACACAGTGGTGGATGAGATGTTCCTGGCTGGGAAGA
TCCAAGAGACAAGCCAGATGAAGGTGCTGAAACAGCTTTTAATGCTGCTGTCCCTAGAG

Alignment

ORF - retro_meug_1993 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.92 %
• Parental protein coverage: 81.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLLML
          I.V.V.DN.L.Y...I..F.EV..EYFH.VCEL.L..N..KVYTVVDEMFLAG.I.ETSQ.KVLKQLLML
Retrocopy IFVTVSDN-LIYPDTICIFLEVFKEYFHIVCELNLISNL*KVYTVVDEMFLAGKIQETSQMKVLKQLLML

Parental  QSLE
          .SLE
Retrocopy LSLE

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_1993 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1993 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 7 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008394	1 retrocopy	retro_amel_409,
Macropus eugenii	ENSMEUG00000001062	2 retrocopies	retro_meug_1156, retro_meug_1993 ,
Macropus eugenii	ENSMEUG00000016245	3 retrocopies	retro_meug_1011, retro_meug_154, retro_meug_2051,
Macropus eugenii	ENSMEUG00000016580	11 retrocopies	retro_meug_1074, retro_meug_1342, retro_meug_1488, retro_meug_168, retro_meug_1864, retro_meug_289, retro_meug_318, retro_meug_361, retro_meug_816, retro_meug_909, retro_meug_938,
Mus musculus	ENSMUSG00000008036	1 retrocopy	retro_mmus_2739,
Rattus norvegicus	ENSRNOG00000015865	2 retrocopies	retro_rnor_1030, retro_rnor_1516,
Tursiops truncatus	ENSTTRG00000012548	1 retrocopy	retro_ttru_924,