RetrogeneDB ID: retro_meug_2095

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold8990:19940..20902(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMPDH1
• Ensembl ID: ENSMEUG00000016082
• Aliases: None
• Description: IMP (inosine 5'-monophosphate) dehydrogenase 1 [Source:HGNC Symbol;Acc:6052]

Sequence

>retro_meug_2095
ATGGAAGACTATCTCATCAGCTGCAGCACTTGTTATATTCCACATGATGGGCTCATGGTGCAGCAACTTTCAACTGTGGG
GATGGGCTCACATACAATGACTTCCTCATCCTCCCAGGCTATATTGACTTCACAGCAGACCAACTAGACCTAAGTTCAGC
ACTTACCAAAAAGATAACCTTCAAGACCCACCTTGCATCATTCCCAATGGACACAGTCACCAAGGCTGAGATGGTCACAA
CCATGGTGCTGACAGGAGGTATTGGTTTTATCCATCATAACTGCACCCCAGAATTCAAGGCCCATAAAGTGTTTAAAGTA
AAGAAATATGAGCAAGACTTCATCACTGACCCTGTGGTGCTGAGCCCCCAAAGATGGAGTCAGAGATGTGTTTGAAGCCA
AGGCAAGGCATGGCTTCTTTGGAATCCTAATCACGGACAATGGCAAGGTGGGTAGCCACCTGGTTGGTATCATCTCCTCT
CATGACATTGACTTTCTCAAGGAGGAAGAACATGACCATTTCCTAGGAGAGATCATGACCAGGTGGGAGGATCTAGTGGT
GGCTCCTGCAGGACTCACACTAAAGGAAGCCAATGAAATCTTGCAATGGAGCAAGAAAGGGAAGCTGCCCATTGTGAATG
AGGGTAATGAGCTAGGAGCCATCATTACCTGCAAGAACCTGAAGAAGAATTGGGACTATCCCTTGGCAGCCAAGGATACC
AAGAAGCAACCTTTGTATGGGGCAGCCATCAGTACCCATGAGAATGGCAAATATAGGCTTGACTTGCTGGCCTAGGCTGG
TGTCAATGTGGTCATGCTGGACTCTTCCCAAGGAAACTCATCTTCCAAATTAACATGATCAAGTACATCAAGGAGAAATA
CAATAATCTTCAGGTTATTGGTGGCAATGTAGTGACAGCTGCACAAGCAAAACACCTCATTGTTGTTGGAGTGGACACCC
TG

Alignment

ORF - retro_meug_2095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.52 %
• Parental protein coverage: 62.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MADYLISGGTGYVPEDGLTAQQL-FAIADGLTYNDFLILPGFIDFTADEVDLTSALTRKITLKTPLISSP
          M.DYLIS..T.Y.P.DGL..QQL.F...DGLTYNDFLILPG.IDFTAD..DL.SALT.KIT.KT.L.S.P
Retrocopy MEDYLISCSTCYIPHDGLMVQQL<FNCGDGLTYNDFLILPGYIDFTADQLDLSSALTKKITFKTHLASFP

Parental  MDTVTEADMAIAMALMGGIGFIHHNCTPEFQANEVRKVKKFEQGFITDPVVLSPSHT-VGDVLEAKMRHG
          MDTVT.A.M...M.L.GGIGFIHHNCTPEF.A..V.KVKK.EQ.FITDPVVLSP....V.DV.EAK.RHG
Retrocopy MDTVTKAEMVTTMVLTGGIGFIHHNCTPEFKAHKVFKVKKYEQDFITDPVVLSPQRW>VRDVFEAKARHG

Parental  FSGIPITETGTMGSKLVGIVTSRDIDFLAEKDHATYLSEVMTSRNDLVVAPAGVTLKEANEILQRSKKGK
          F.GI.IT..G..GS.LVGI..S.DIDFL.E..H...L.E.MT...DLVVAPAG.TLKEANEILQ.SKKGK
Retrocopy FFGILITDNGKVGSHLVGIISSHDIDFLKEEEHDHFLGEIMTRWEDLVVAPAGLTLKEANEILQWSKKGK

Parental  LPIVNDSDELVAIIARTDLKKNRDYPLASKDAHKQLLCGAAVGTREDDKYRLDLLTQAGADVIVLDSSQG
          LPIVN...EL.AII....LKKN.DYPLA.KD..KQ.L.GAA..T.E..KYRLDLL..AG..V..LDSSQG
Retrocopy LPIVNEGNELGAIITCKNLKKNWDYPLAAKDTKKQPLYGAAISTHENGKYRLDLLA*AGVNVVMLDSSQG

Parental  NS-VYQIAMVHYIKQKYPQLQVIGGNVVTAAQAKNLIDAGVDGL
          NS...QI.M..YIK.KY..LQVIGGNVVTAAQAK.LI..GVD.L
Retrocopy NS<IFQINMIKYIKEKYNNLQVIGGNVVTAAQAKHLIVVGVDTL

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_2095 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2095 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 9 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017770	1 retrocopy	retro_cjac_2045,
Homo sapiens	ENSG00000106348	7 retrocopies	retro_hsap_2360, retro_hsap_2368, retro_hsap_2608, retro_hsap_3797, retro_hsap_4005, retro_hsap_4247, retro_hsap_4808,
Gorilla gorilla	ENSGGOG00000003963	6 retrocopies	retro_ggor_1790, retro_ggor_1798, retro_ggor_1827, retro_ggor_2551, retro_ggor_2688, retro_ggor_2993,
Macropus eugenii	ENSMEUG00000007895	3 retrocopies	retro_meug_1474, retro_meug_858, retro_meug_998,
Macropus eugenii	ENSMEUG00000016082	2 retrocopies	retro_meug_2095 , retro_meug_542,
Macaca mulatta	ENSMMUG00000014509	2 retrocopies	retro_mmul_1551, retro_mmul_317,
Nomascus leucogenys	ENSNLEG00000012341	1 retrocopy	retro_nleu_2508,
Pongo abelii	ENSPPYG00000017976	7 retrocopies	retro_pabe_2133, retro_pabe_2138, retro_pabe_2346, retro_pabe_3102, retro_pabe_3292, retro_pabe_3392, retro_pabe_3736,
Pan troglodytes	ENSPTRG00000019660	7 retrocopies	retro_ptro_1087, retro_ptro_1724, retro_ptro_1758, retro_ptro_2575, retro_ptro_2719, retro_ptro_2886, retro_ptro_3198,