RetrogeneDB ID: retro_meug_2019

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold80156:11537..12140(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000000774
• Aliases: None
• Description: None

Sequence

>retro_meug_2019
ACTTGTGTCCCAGCTTTAGGAGTTGTCTTTTGTATTGTTCAGTCACCTAGAGAAGAACAGTCCAGGACACAAAGACACCT
AGCAGAGTACAGTCTCACTGAAACTGACTACCCTTTGTTGACTTTTGATAATCTCCTAAACCATTTGGAAGATTGATTTG
TGATGTAGTAGACAGAATCTTGAAATATCTGCAGCAGTCTTATAATATGACTTCAACCTGACTTTTGTACCCCCCAAAAG
ACTTTCAAATGGATGAAGTACTCAGATGCCCTTGTATGGCTAAAGGAATTTGATATAAAGATGGAGGATGGGACCTACTA
TGTATTAGGAGAGAATATCCCAGAAGCTCCTGAGGGACTGATGACAGACACCATGAATGAACCAATCTTGCTATGTTGAT
TTCCCATAGAGATAAAGTACATCTACATCTACATGCAGTGATGTCCTGAGAATTCCTGGCTTACTGAACCTGTACGTGTG
TTGATGGCAAATTTTGGTGAGATTGTGGGAGGCTCCATGAATATCTGGGATAGTAAATAACTGCTAAAAGAATTTAAAAG
AGAGGGTGTTGATTCCACTCCCTACTAGTGGTACACTGATCAG

Alignment

ORF - retro_meug_2019 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.29 %
• Parental protein coverage: 68.97 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TCLPALGDVFCIAQSYRAEQSRTRRHLAEYTHIEAECPFLTFEDLLTRVED-LVCDVVDRILKS-PAASL
          TC.PALG.VFCI.QS.R.EQSRT.RHLAEY...E...P.LTF..LL...ED.L.CDVVDRILK...AA.L
Retrocopy TCVPALGVVFCIVQSPREEQSRTQRHLAEYSLTETDYPLLTFDNLLNHLED<LICDVVDRILKY<SAAVL

Parental  LYELNPTFTPPKR-PFKRMNYSDAIVWLKEHDVKKEDGTYYEFGEDIPEAPERLMTDTINEPILLCRFPA
          .Y..N.TF.PPKR..FK.M.YSDA.VWLKE.D.K.EDGTYY..GE.IPEAPE.LMTDT.NEPILLC.FP.
Retrocopy *YDFNLTFVPPKR<TFKWMKYSDALVWLKEFDIKMEDGTYYVLGENIPEAPEGLMTDTMNEPILLC*FPI

Parental  EIK--SFYMPRCPEDSRLTESVDVLMPNVGEIVGGSMRIWDGEELLKGYKREGIDPTPYYWYTDQ
          EIK....YM..CPE.S.LTE.V.VLM.N.GEIVGGSM.IWD...LLK..KREG.D.TPY.WYTDQ
Retrocopy EIKYIYIYMQ*CPENSWLTEPVRVLMANFGEIVGGSMNIWDSK*LLKEFKREGVDSTPY*WYTDQ

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_2019 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2019 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003837	2 retrocopies	retro_cjac_2194, retro_cjac_3091,
Cavia porcellus	ENSCPOG00000013227	3 retrocopies	retro_cpor_1441, retro_cpor_429, retro_cpor_736,
Loxodonta africana	ENSLAFG00000000559	1 retrocopy	retro_lafr_955,
Macropus eugenii	ENSMEUG00000000774	1 retrocopy	retro_meug_2019 ,
Otolemur garnettii	ENSOGAG00000016302	1 retrocopy	retro_ogar_1061,
Ictidomys tridecemlineatus	ENSSTOG00000002118	1 retrocopy	retro_itri_591,