RetrogeneDB ID: retro_meug_1690

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold53125:602..1740(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EEF1A2
• Ensembl ID: ENSMEUG00000005018
• Aliases: None
• Description: eukaryotic translation elongation factor 1 alpha 2 [Source:HGNC Symbol;Acc:3192]

Sequence

>retro_meug_1690
GGCAAGGAAAGGATTCGCATTAACATTGTTGTCACTGGACACATAGACTCTGGCAAGTCCAGCACTACTGGCCACCTCAT
CTACAGATGTGGCAGAATTGATAAGAGAACCATTTTGATGTTCGAGAAGAAGGTTTCTGAGATGGGAAAGGGCTCCTTCA
AATATACTTGAATCTTGGATAAGTTGAAGGCTAAACATGAGTGTGGTATCACTATTGATATCTCCCTGTGAAAATTTGAG
ACCAGCTAATACTATGTGAACATTACTGATGCTCTCGGACACAGAGACTCTATCAAGAACATGATTACAGGAGCATCTCA
AGTGGATTGTGCCATACCTATTGTTGTTGCTGATGTTAGTGAATTTGAAGCTGGTATCTCAAAAAATGCACAGACCTGTG
AGCAAGCCCTTCTGGCCTACACACTAGGTGTAAAACAACTGATTTTTGGTGTAAACAAAATGGATTTCACCAAGCCCCAC
TATAGCCAGAAGAGATATGAGGAAATTGACAAGGAAGTCAGTACCTATATTAAGAAAATTGGCTACAACCCTGACACAGT
AGCTTTTGTGCCAATTTCACATTGAAATGGTGAAAACATGTTGAAGCCAAACTCTTATATGCCTTGATTCAAGGGATCGA
AAGTCACTCATAAGGATGGCAATACTAATAGAACTACACTGCTTGAAGCTTTGTATTGCATCCTGCCACCAACTCGTCCA
GCTGACAAGCCCTTAGTCTACCCCTCCAAGATGTCTACAAGATTGATAGTATTGGTACTGTACCTGTTGGCGAGTGGAAT
CTGATGTTCTAAAACCAGGCATGGTGGTTACCTTTGCCCTAGTCAAAGTTACAATTGAAGTAAATTCTGTTGAAATGCAC
CAGGAAGCTTAGAGTGAGGCTCTGTCAGAGGATAACATTGATTTCAATGTCAAGGATGCATCTGTCAAAGAAGTCCACTG
TGGTAATGTGGCTGGTGATAGCAAGAATGACCCACCTATGGAAGCAGCTGGCTTGACTGCATAGACTGTTATCCTGAACC
ATCCGGGCCAAGTCTATGCACCTGTTCTGGATTGACACACTGCACACATTGTTTGTAAGTTTGCTGAACTGAAGGACAAG
ATTGATCATTGTTCTGGT

Alignment

ORF - retro_meug_1690 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.13 %
• Parental protein coverage: 82.72 %
• Number of stop codons detected: 8
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GKEKTHINIVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGI
          GKE...INIVV.GH.DSGKS.TTGHLIY.CG.IDKRTI..FEK...EMGKGSFKY...LDKLKA..E.GI
Retrocopy GKERIRINIVVTGHIDSGKSSTTGHLIYRCGRIDKRTILMFEKKVSEMGKGSFKYT*ILDKLKAKHECGI

Parental  TIDISLWKFETTKYYITIIDAPGHRDFIKNMITGTSQADCAVLIVAAGVGEFEAGISKNGQTREHALLAY
          TIDISL.KFET..YY..I.DA.GHRD.IKNMITG.SQ.DCA..IV.A.V.EFEAGISKN.QT.E.ALLAY
Retrocopy TIDISL*KFETS*YYVNITDALGHRDSIKNMITGASQVDCAIPIVVADVSEFEAGISKNAQTCEQALLAY

Parental  TLGVKQLIVGINKMDSTEPPYSEKRYDEIVKEVSAYIKKIGYNPATVPFVPISGWHGDNMLEPSPNMPWF
          TLGVKQLI.G.NKMD.T.P.YS.KRY.EI.KEVS.YIKKIGYNP.TV.FVPIS...G.NML.P...MP.F
Retrocopy TLGVKQLIFGVNKMDFTKPHYSQKRYEEIDKEVSTYIKKIGYNPDTVAFVPISH*NGENMLKPNSYMP*F

Parental  KGWKVERKEGNASGVSLLEALDTILPPTRPTDKP-LRLPLQDVYKIGGIGTVPVG-RVETGILRPGMVVT
          KG.KV..K.GN.....LLEAL..ILPPTRP.DKP.L.LPLQDVYKI..IGTVPVG.RVE...L.PGMVVT
Retrocopy KGSKVTHKDGNTNRTTLLEALYCILPPTRPADKP<LSLPLQDVYKIDSIGTVPVG<RVESDVLKPGMVVT

Parental  FAPVNITTEVKSVEMHHEALSEALPGDNVGFNVKNVSVKDIRRGNVCGDSKSDPPQEAAQFTSQVIILNH
          FA.V..T.EV.SVEMH.EA.SEAL..DN..FNVK..SVK....GNV.GDSK.DPP.EAA..T....ILNH
Retrocopy FALVKVTIEVNSVEMHQEA*SEALSEDNIDFNVKDASVKEVHCGNVAGDSKNDPPMEAAGLTA*TVILNH

Parental  PGQISAGYSPVIDCHTAHIACKFAELKEKIDRRSG
          PGQ....Y.PV.D.HTAHI.CKFAELK.KID..SG
Retrocopy PGQV---YAPVLD*HTAHIVCKFAELKDKIDHCSG

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_1690 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1690 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 13 parental genes, and 45 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013249	1 retrocopy	retro_cfam_1007,
Equus caballus	ENSECAG00000022260	1 retrocopy	retro_ecab_802,
Latimeria chalumnae	ENSLACG00000002952	1 retrocopy	retro_lcha_39,
Loxodonta africana	ENSLAFG00000028081	1 retrocopy	retro_lafr_651,
Macropus eugenii	ENSMEUG00000005018	23 retrocopies	retro_meug_1067, retro_meug_110, retro_meug_1160, retro_meug_1240, retro_meug_1334, retro_meug_135, retro_meug_1421, retro_meug_1451, retro_meug_1465, retro_meug_1501, retro_meug_1662, retro_meug_1690 , retro_meug_1710, retro_meug_1829, retro_meug_2023, retro_meug_2044, retro_meug_2050, retro_meug_316, retro_meug_601, retro_meug_755, retro_meug_792, retro_meug_850, retro_meug_920,
Myotis lucifugus	ENSMLUG00000016760	1 retrocopy	retro_mluc_1250,
Mustela putorius furo	ENSMPUG00000008289	3 retrocopies	retro_mputfur_1030, retro_mputfur_609, retro_mputfur_761,
Nomascus leucogenys	ENSNLEG00000010060	2 retrocopies	retro_nleu_11, retro_nleu_1489,
Ornithorhynchus anatinus	ENSOANG00000004908	1 retrocopy	retro_oana_73,
Otolemur garnettii	ENSOGAG00000004630	8 retrocopies	retro_ogar_1067, retro_ogar_2034, retro_ogar_2329, retro_ogar_2497, retro_ogar_2583, retro_ogar_3191, retro_ogar_3270, retro_ogar_643,
Ictidomys tridecemlineatus	ENSSTOG00000028862	1 retrocopy	retro_itri_1028,
Tursiops truncatus	ENSTTRG00000001835	1 retrocopy	retro_ttru_993,
Drosophila melanogaster	FBgn0000557	1 retrocopy	retro_dmel_9,