RetrogeneDB ID: retro_meug_469

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold119510:3783..4259(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GBAS
• Ensembl ID: ENSMEUG00000005152
• Aliases: None
• Description: glioblastoma amplified sequence [Source:HGNC Symbol;Acc:4179]

Sequence

>retro_meug_469
CACCTCTGGAGGTATGAGGGAGTCTATCCAGCCCTCAGTGAGATCATGAGTAAGCTCAGGAATAAGGAATTTGCAGCCTT
TCATAGGGAAAGAGGCAACACGTTGTTTTCTCAAAAGAACCAGCTGCTGTTGGAGTTCAGTTTCTGGAATGAACCTGTCC
CCAGACCAGGGCCTAATCTATATGAGCTCAAGTCTTACCAACTTAGACTAGGAATGGTGATTGATTGGGGCAGTTATGTG
GCTCATGGAATTCATTGTGGGCAGGACAATAAATAAGCAGTTGGGGTTTTTTTCTCCCAGATTAGGCAGTTATATATGGT
ACATCATCTTTGGATTTACAAAGATCTGAAGTCCAGGAAAGATACCCAGAATGTAGTGTGGGATAAACTTGGCTGGAAGA
GTTGGTATATTATATAGTACCCCTAATTCAGGAAATGGAGTCTAGAATCATACCACAAAAGATTTCATCCCTCAAG

Alignment

ORF - retro_meug_469 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.07 %
• Parental protein coverage: 63.14 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HLWRYEGGYPALNEVMNKLRENKEFVAFRKERGNMLLSRKNQLLLEFSFWNEPVPRSGPNIYELRSYQLR
          HLWRYEG.YPAL.E.M.KLR.NKEF.AF..ERGN.L.S.KNQLLLEFSFWNEPVPR.GPN.YEL.SYQLR
Retrocopy HLWRYEGVYPALSEIMSKLR-NKEFAAFHRERGNTLFSQKNQLLLEFSFWNEPVPRPGPNLYELKSYQLR

Parental  PGTMIEWGNYWARAIRFRQDNNEAVGGFFSQIGQLYMVHHLWAYKDLQSREDTRNAAWHKHGW-EELVYY
          .G..I.WG.Y.A..I...QDN..AVG.FFSQI.QLYMVHHLW.YKDL.SR.DT.N..W.K.GW.EELVYY
Retrocopy LGMVIDWGSYVAHGIHCGQDNK*AVGVFFSQIRQLYMVHHLWIYKDLKSRKDTQNVVWDKLGW<EELVYY

Parental  TVPLIQEMESRIMIPLKISPLK
          .VPLIQEMESRI.IP.KIS.LK
Retrocopy IVPLIQEMESRI-IPQKISSLK

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_469 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_469 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031598	1 retrocopy	retro_btau_361,
Macropus eugenii	ENSMEUG00000005152	2 retrocopies	retro_meug_1273, retro_meug_469 ,
Myotis lucifugus	ENSMLUG00000015038	1 retrocopy	retro_mluc_762,
Oryctolagus cuniculus	ENSOCUG00000001768	1 retrocopy	retro_ocun_1396,
Sarcophilus harrisii	ENSSHAG00000009627	1 retrocopy	retro_shar_473,
Tursiops truncatus	ENSTTRG00000015145	1 retrocopy	retro_ttru_1885,