RetrogeneDB ID: retro_meug_785

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold18778:5744..6569(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATL3
• Ensembl ID: ENSMEUG00000016040
• Aliases: None
• Description: atlastin GTPase 3 [Source:HGNC Symbol;Acc:24526]

Sequence

>retro_meug_785
GTCCTCTTGCAAGACCACATCAGGGACCTTGACATGGTGTTAGTAGCTGGAGCCTTCCACAAGGGAGAGGTTTTCTTTCT
GGACTTCTTGCTTCACTACTTATATAACCAGAAGGAAAGTTGCCATCCACATTGGTTGGGTGATAAAGATGAACCGCTAA
CAGGATTTTCATGGCAAGGGGGTTCTGACCCTGAAGTCACTGAAATTTAGATCTGTAGTGAAATTTTCACTGTGGAGAAG
TTTGATGGGGAACAGACTGCAGGTGTTTTGATGGATACTTAAGGTGCGTTTGACAGTCATTCAATGGGGAAGGACTATGG
CACTATATTTGCCCTCAGTACCATGTATAGCTCCATCCGGATTTATATTTTGTCACAGAACACTCAGGAGGACAATCTAC
AGTTGTTGCACCTGTTCATAGAATATGGTCATCTGGCAATGGGTGAATTTTTCCAGAAGCCCATCCAGATGCTGATGTTT
TTGGTTTGAGACTGGAGCTTTCCTTACAAGTTTAACTGTGGACTTGAGGGAGGAATGGCATTTCTGGAGAAGCACTTGCA
GGTGACAGAGCAGCAGCATGAGGAAATTCAGAATGTCCGAACTGATATTCGCTGATGTTTCACAAATGTCACCTGCTTTC
TTCTACCACATCCAGGGCTCCAAGTGGCCATGAGCCAGACCTTTGATGAAAATTGAGAGATGTCACTCCTGAAATCAAAG
AACAGTTACAGGCACTGATAGCATTTGTGGTAGATGAGAGCAAGTTAATGGAAAAAGACTCAACGGCTCCAAAGTCACCT
GTCGGGTCTGCTGGAGTGTTTTAAG

Alignment

ORF - retro_meug_785 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.82 %
• Parental protein coverage: 55.6 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VLLQDRVRDLDVVVVSVAGAFRKGKSFFLDFLLRYLYNQKEGNRLHWLGDEDEPLTGFSWRGGSDPETTG
          VLLQD..RDLD.V.V..AGAF.KG..FFLDFLL.YLYNQKE....HWLGD.DEPLTGFSW.GGSDPE.T.
Retrocopy VLLQDHIRDLDMVLV--AGAFHKGEVFFLDFLLHYLYNQKESCHPHWLGDKDEPLTGFSWQGGSDPEVTE

Parental  IQIWSEVFIVEKPGGKKVAVILMDTQGAFDSQSTVRDCATIFALSTMTSSIQIYNLSQNIQEDDLQQLQL
          I.I.SE.F.VEK..G...A..LMDT.GAFDS.S...D..TIFALSTM.SSI.IY.LSQN.QED.LQ.L.L
Retrocopy I*ICSEIFTVEKFDGEQTAGVLMDT*GAFDSHSMGKDYGTIFALSTMYSSIRIYILSQNTQEDNLQLLHL

Parental  FTEYGRLAMDEISLKPFQMLMFLIRDWSFPYEYSYGVQGGMAFLEKRLQVKKQQHEEIQNVRNHIRSCFT
          F.EYG.LAM.E...KP.QMLMFL..DWSFPY....G..GGMAFLEK.LQV..QQHEEIQNVR..IR.CFT
Retrocopy FIEYGHLAMGEFFQKPIQMLMFLV*DWSFPYKFNCGLEGGMAFLEKHLQVTEQQHEEIQNVRTDIR*CFT

Parental  NVTCFLLPHPGLQVATSSTFDG-KLRDIAPEFKEQLQILIPFVLDASRLMEKE-INGSKVSCR-GLLEYF
          NVTCFLLPHPGLQVA.S.TFD..KLRD..PE.KEQLQ.LI.FV.D.S.LMEK...NGSKV.CR.GLLE.F
Retrocopy NVTCFLLPHPGLQVAMSQTFDE<KLRDVTPEIKEQLQALIAFVVDESKLMEKD<LNGSKVTCR<GLLECF

Parental  K
          K
Retrocopy K

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_785 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_785 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000016040	1 retrocopy	retro_meug_785 ,
Nomascus leucogenys	ENSNLEG00000004565	1 retrocopy	retro_nleu_127,