RetrogeneDB ID: retro_meug_1223

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold331974:87..681(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000015663
• Aliases: None
• Description: None

Sequence

>retro_meug_1223
ATAGCATCCCATAAAGAAAGTACCAACTCTGGTTCCACCAGTTTGATTCCTACAACTGGCACATCCTCGGGCAAAGGAAA
AGGCAAAGGGAGCCTGGGAGAGTCTACTGTAAAGTAAGTGCAGATAGAAAGCCTGGCTGTTTTGAAAATAATTAAACATT
ACTAAGATGAAGGTTAGGGGAATGAAGTTGTCCAGGGAGTACTTCTGGGTCTGGTGGTGGAAGACAGACTTGAAATCACC
AATTGTTTTCCCTTTCCCCAACATGCAGAGGATGATGCCGATTTTCATGCAGTCCAATATCAAATGGAAATGATGCACAG
TCTTCTTTGCATAAATATTGGTCATCTTCATGTTGGTTGGTACCAGTCTATATACTATGGCTCTTTTGTCACCCGTGCTT
TCCTGGATTCTGAATTCAGTTACCAACATGCAATTGAAGAGCCTGTAGTTCTCATTTATGATCCCATCAAAACTGCTCAA
GGGTCTCTATCATTGAAGGCATACAGGCTGACTCCTAAACTGATGGAAGTTTGTAAAGAGAAAGATTTTTCTCCTGAAGC
ATTGAAAAAGGCAAATATCACCTTTGAGCATGTT

Alignment

ORF - retro_meug_1223 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.83 %
• Parental protein coverage: 55.97 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASRKEGTGSGSASSTSTTGASSGKGKGKGSSGDLAVKQVQIDGV-VLKIIKHYQEEGQGNEVVQGVLLG
          .AS.KE.T.SGS.S...TTG.SSGKGKGKGS.G...VK.VQI....VLKIIKHY..EG.GNEVVQGVLLG
Retrocopy IASHKESTNSGSTSLIPTTGTSSGKGKGKGSLGESTVK*VQIESLAVLKIIKHY*DEG*GNEVVQGVLLG

Parental  LVVEDRLEITNCFPFPQHTEDDADFDEVQYQMEMMRSLRHVNIDHLHVGWYQSTYYGSFVTRALLDSQFS
          LVVEDRLEITNCFPFPQH.EDDADF..VQYQMEMM.SL...NI.HLHVGWYQS.YYGSFVTRA.LDS.FS
Retrocopy LVVEDRLEITNCFPFPQHAEDDADFHAVQYQMEMMHSLLCINIGHLHVGWYQSIYYGSFVTRAFLDSEFS

Parental  YQHAIEESVVLIYDPIKTAQGSLSLKAYRLTPKLMEVCKEKDFSPEALKKANITFEHM
          YQHAIEE.VVLIYDPIKTAQGSLSLKAYRLTPKLMEVCKEKDFSPEALKKANITFEH.
Retrocopy YQHAIEEPVVLIYDPIKTAQGSLSLKAYRLTPKLMEVCKEKDFSPEALKKANITFEHV

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_1223 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1223 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000816	1 retrocopy	retro_cfam_2073,
Callithrix jacchus	ENSCJAG00000005910	1 retrocopy	retro_cjac_3023,
Echinops telfairi	ENSETEG00000000324	1 retrocopy	retro_etel_24,
Macropus eugenii	ENSMEUG00000015663	4 retrocopies	retro_meug_1223 , retro_meug_1244, retro_meug_1790, retro_meug_376,
Monodelphis domestica	ENSMODG00000004154	1 retrocopy	retro_mdom_1243,
Mus musculus	ENSMUSG00000022312	1 retrocopy	retro_mmus_1668,
Oryctolagus cuniculus	ENSOCUG00000007534	1 retrocopy	retro_ocun_608,
Otolemur garnettii	ENSOGAG00000008905	1 retrocopy	retro_ogar_2043,
Sorex araneus	ENSSARG00000009067	1 retrocopy	retro_sara_69,
Sarcophilus harrisii	ENSSHAG00000014977	1 retrocopy	retro_shar_561,
Ictidomys tridecemlineatus	ENSSTOG00000001403	1 retrocopy	retro_itri_420,