RetrogeneDB ID: retro_meug_1144

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold30404:3466..3878(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPC24
• Ensembl ID: ENSMEUG00000016219
• Aliases: None
• Description: SPC24, NDC80 kinetochore complex component [Source:HGNC Symbol;Acc:26913]

Sequence

>retro_meug_1144
GAAGATGTGGTCCAGAAATTAATTGATGAGAAAGAAATAGCACAACGTGTTGAAATCAAGTTACAGAAATTTGAATCTGA
GCTTCAGAAGACCAGCTAGAACGATGCAAGTCTAAAGACTGATCTCTATCTGTTGATGAAAGAGCTGAAAGAACTCAAAA
AAAATGGAGCAAGACCTCACAAGGACAGAAGGAGAAGTGGATGAAGATTCAACAGTTGCAATCCCTTCAGCTGTATATGT
GTCTCAACTTTATCTAGTCAGTAAAATTGAGTGGGATTGTGAATGTGGACCAATTGTGATTAAAGACATTCATCATGGTC
CCAATGTTGCCCAGCCTATTCATTTTGACAATACCCAGCACTCTAGGAAGTTTATCAGTGACGATCTCTGGAACATGGTG
GACATCAAATGG

Alignment

ORF - retro_meug_1144 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.38 %
• Parental protein coverage: 97.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EEVAQKLIDEKETAQRVETKLQKLESELQKTNEKDASLKADLQYLMKQLEELKEM-EQDLTRREREVDED
          E.V.QKLIDEKE.AQRVE.KLQK.ESELQKT...DASLK.DL..LMK.L.EL....EQDLTR.E.EVDED
Retrocopy EDVVQKLIDEKEIAQRVEIKLQKFESELQKTS*NDASLKTDLYLLMKELKELXXX>EQDLTRTEGEVDED

Parental  TTVVIPSAVYVSQLYHRVSKIEWSYECEPTMIKGIHHGPSIAQPIHFDITQHSKKFISDYLWNLVDTQW
          .TV.IPSAVYVSQLY..VSKIEW..EC.P..IK.IHHGP..AQPIHFD.TQHS.KFISD.LWN.VD..W
Retrocopy STVAIPSAVYVSQLY-LVSKIEWDCECGPIVIKDIHHGPNVAQPIHFDNTQHSRKFISDDLWNMVDIKW

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_1144 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1144 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000016219	1 retrocopy	retro_meug_1144 ,