RetrogeneDB ID: retro_meug_1134

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold30134:28365..29040(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYPLA2
• Ensembl ID: ENSMEUG00000004768
• Aliases: None
• Description: lysophospholipase II [Source:HGNC Symbol;Acc:6738]

Sequence

>retro_meug_1134
TGCTGTAACAACATGTCGGCGCCGCTCCTCGCCATAGTGCCTGCAGCCAGGAGGGCCAGCGCCGCGGGTGCTTTTCTTCA
TGGATTAGGAGATAGCGGGCATGGATGGGCAGAAGCTTTTGCAGGCATCAGAAGTTCACACATCACATGTATTTGTCCAC
TCGCACCAGTTAGGCCTGTTACCCTAAGCATGAGCATGGCTACGCCTTCTTGGGTTGATGGCATTGGACTCTCTCCTGAC
TCACTAGAGGATGAGCATGAAATGAAACAAGCTGCAGAAAATATTAAGGCTTTAACAGAAGAAGAAGTGAAGCTTGGAAT
TCCATCTCCTAGGACTGTTTTGGGAGAATTTTCTCAGGGAGGAGCTTTGTCTTTGTATACTGCTCTTACATCACAGCAGA
AATTGGCTGGGCTTATAGCCCTCAGCTGTTGGCTTCCACTTCGATCTCCATTTCCACAGGATCCCATCAGTGGTGTTCAT
AAAGATATTTCTATTCTCCAGTGTCATGGAGACTGTGGCCCTTTGGTTCCCCTTATGTTTGGCTCTCTCACTGTTGAAAA
GCTAAGAACCTTGGTAAATCCATCTAATGTAAGCTTCCATACCTGTGAAGGCATGATGCACAGTTCATGTAGCCAGGAAA
TCTTGGATGTCAAGCACTTGCTTGATAAGCTCCTA

Alignment

ORF - retro_meug_1134 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.77 %
• Parental protein coverage: 98.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CGNNMSVPLLSDAATVSGAERETAAVIFLHGLGDSGHSWADALSSIRLPYVKYICPHAPRIPVTLNMKMV
          C.NNMS.PLL...A.V..A.R..AA..FLHGLGDSGH.WA.A...IR......ICP.AP..PVTL.M.M.
Retrocopy CCNNMSAPLL---AIVPAARRASAAGAFLHGLGDSGHGWAEAFAGIRSSHITCICPLAPVRPVTLSMSMA

Parental  MPSWFDLMGLSPDAPEDEAGIKKAAESIKALIEHEVKNGIPANRIILGGFSQGGALSLYTALTCPHPLAG
          .PSW.D..GLSPD..EDE...K.AAE.IKAL.E.EVK.GIP..R..LG.FSQGGALSLYTALT....LAG
Retrocopy TPSWVDGIGLSPDSLEDEHEMKQAAENIKALTEEEVKLGIPSPRTVLGEFSQGGALSLYTALTSQQKLAG

Parental  IVALSCWLPLHRAFPQ-AANGTARDMAILQCHGELDPMVPVRFGALTSEKLKSVVPPAKVQFKTYPGVMH
          ..ALSCWLPL...FPQ....G...D..ILQCHG...P.VP..FG.LT.EKL...V.P..V.F.T..G.MH
Retrocopy LIALSCWLPLRSPFPQDPISGVHKDISILQCHGDCGPLVPLMFGSLTVEKLRTLVNPSNVSFHTCEGMMH

Parental  SSCPQEMAAVKEFIEKLL
          SSC.QE...VK....KLL
Retrocopy SSCSQEILDVKHLLDKLL

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_1134 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1134 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011625	1 retrocopy	retro_btau_1605,
Callithrix jacchus	ENSCJAG00000020914	1 retrocopy	retro_cjac_2585,
Dasypus novemcinctus	ENSDNOG00000011285	2 retrocopies	retro_dnov_1186, retro_dnov_134,
Homo sapiens	ENSG00000011009	3 retrocopies	retro_hsap_2023, retro_hsap_3577, retro_hsap_4180,
Gorilla gorilla	ENSGGOG00000004330	3 retrocopies	retro_ggor_2114, retro_ggor_2413, retro_ggor_2626,
Macropus eugenii	ENSMEUG00000004768	2 retrocopies	retro_meug_1134 , retro_meug_1526,
Microcebus murinus	ENSMICG00000005841	1 retrocopy	retro_mmur_1166,
Nomascus leucogenys	ENSNLEG00000008646	1 retrocopy	retro_nleu_2958,
Otolemur garnettii	ENSOGAG00000032260	1 retrocopy	retro_ogar_2866,
Pongo abelii	ENSPPYG00000001733	1 retrocopy	retro_pabe_142,
Tursiops truncatus	ENSTTRG00000016127	1 retrocopy	retro_ttru_1522,