RetrogeneDB ID: retro_meug_43

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold50979:7818..9126(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000010183
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: AP2M1
• Ensembl ID: ENSMEUG00000002558
• Aliases: None
• Description: adaptor-related protein complex 2, mu 1 subunit [Source:HGNC Symbol;Acc:564]

Sequence

>retro_meug_43
ATGATCGGAGGGCTTTTTATCTACAACCACAAGGGGGAGGTGCTCATCTCCCGGGTCTACCGAGATGACATCGGGCGGAA
TGCCGTGGACGCCTTCCGCGTCAACGTGATTCATGCCCCGCAGCAGGTGCGCTCCCCCGTCACCAACATTGCCCGTACCA
GCTTCTTCCACGTCAAACGCTCCAACATCTGGCTGGCAGCCGTCACCAAGCAAAATGTCAACGCCGCCATGGTCTTTGAG
TTTCTCTATAAGATGTGTGATGTCATGGCTGCCTACTTTGGCAAGATCAGCGAGGAGAACATCAAGAACAACTTTGTGCT
CATCTACGAGCTACTGGATGAAATCCTGGACTTTGGCTACCCACAGAACTCGGAGACAGGAGCTCTGAAAACGTTCATCA
CCCAGCAGGGCATTAAGAGCCAGCATCAGACAAAGGAAGAACAGTCTCAGATCACCAGCCAGGTGACTGGGCAGATTGGT
TGGCGGCGGGAGGGCATCAAATATCGTCGGAATGAGCTCTTCCTGGACGTGCTTGAGAGCGTCAACCTGCTCATGTCTCC
TCAAGGGCAGGTGCTCAGTGCTCACGTGTCAGGCCGGGTTGTGATGAAGAGCTATCTGAGTGGTATGCCCGAGGGCAAGT
TTGGGATGAATGACAAGATTGTCATCGAGAAGCAGGGCAAGGGCACGGCTGATGAGACGGGCAAGAGTGGGAAGCAGTCT
ATTGTCATAGATGACTGCACCTTCCACCAGTGTGTAAGGCTCAGTAAGTTTGACTCTGAACGAAGCATCAGTTTCATCCC
CCCTGATGGAGAATTTGAGCTTATGAGGTACCCGACCACCAAGGACATCATCCTACCCTTCCGGGTGATACCCCTGGTGC
GGGAGGTGGGACGGACCAAACTGGAGGTTAAAGTTGTCATTAAGTCCAACTTCAAGCCTTCTTTGCTGGCCCAGAAAATT
GAGGTCCGGATCCCAACACCGCCGAACACAAGTGGGGTTGAAGTGATCTGCATGAAGGGAAAAGCCAAGTACAAGGCCAG
TGAGAACGCCATCGTATGGAAGATCAAGCGCATGGCAGGAATGAAGGAATCACAGATCAGTGCGGAGATTGAGCTGCTAC
CGACCAACGACAAGAAGAAGTGGGCCCGGCCTCCCATCTCCATGAACTTTGAGGTACCATTTGCACCCTCTGGCTTGAAG
GTGCGATACTTAAAGGTGTTTGAACCCAAGCTGAACTACAGCGACCACGATGTCATCAAATGGGTGCGCTACATCGGCCG
CAGTGGCATCTATGAAACCCGCTGCTAG

Alignment

ORF - retro_meug_43 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTK
          MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHA.QQVRSPVTNIARTSFFHVKRSNIWLAAVTK
Retrocopy MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHAPQQVRSPVTNIARTSFFHVKRSNIWLAAVTK

Parental  QNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKS
          QNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKS
Retrocopy QNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKS

Parental  QHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMP
          QHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMP
Retrocopy QHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMP

Parental  ECKFGMNDKIVIEKQGKGTADETGKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTT
          E.KFGMNDKIVIEKQGKGTADETGKSGKQSI.IDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRY.TT
Retrocopy EGKFGMNDKIVIEKQGKGTADETGKSGKQSIVIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYPTT

Parental  KDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENA
          KDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTP.NTSGV.VICMKGKAKYKASENA
Retrocopy KDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPPNTSGVEVICMKGKAKYKASENA

Parental  IVWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIK
          IVWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIK
Retrocopy IVWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIK

Parental  WVRYIGRSGIYETRC
          WVRYIGRSGIYETRC
Retrocopy WVRYIGRSGIYETRC

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_43 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_43 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 14 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020106	1 retrocopy	retro_btau_1156,
Canis familiaris	ENSCAFG00000012257	2 retrocopies	retro_cfam_1923, retro_cfam_2028,
Callithrix jacchus	ENSCJAG00000012998	1 retrocopy	retro_cjac_3340,
Erinaceus europaeus	ENSEEUG00000006073	1 retrocopy	retro_eeur_47,
Echinops telfairi	ENSETEG00000004759	1 retrocopy	retro_etel_2124,
Macropus eugenii	ENSMEUG00000002558	1 retrocopy	retro_meug_43 ,
Macropus eugenii	ENSMEUG00000003643	1 retrocopy	retro_meug_1894,
Macropus eugenii	ENSMEUG00000013497	1 retrocopy	retro_meug_2142,
Mus musculus	ENSMUSG00000022841	2 retrocopies	retro_mmus_1873, retro_mmus_1914,
Oryctolagus cuniculus	ENSOCUG00000004556	1 retrocopy	retro_ocun_98,
Otolemur garnettii	ENSOGAG00000012286	1 retrocopy	retro_ogar_1110,
Rattus norvegicus	ENSRNOG00000001709	1 retrocopy	retro_rnor_2342,
Tarsius syrichta	ENSTSYG00000006101	1 retrocopy	retro_tsyr_1873,
Tursiops truncatus	ENSTTRG00000008493	1 retrocopy	retro_ttru_522,