RetrogeneDB ID: retro_oana_77

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig44255:4114..4528(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000012228
• Aliases: None
• Description: None

Sequence

>retro_oana_77
TTAACGTTTATTTGTATATTGCAGATGGTACGAATGATCGTTTTATCTGATTGCCTCAAGACCATCGTAAATGCCGAAAA
ACGCGGCCGCAGACAGGTCCTTATACGCCCATCTTCCAAAGTTATTGTAAAATTCCTGCAATGCATGCAAAAACAAGGCT
ACATTGGGAACTTTGATATTATTGACGACCATCGCAGTGGAAAGATTGTAATAGAACTTTTGGGAAGAATCAACAAATGT
GGCGTTGTATCGCCAAGATATGACATTGCGTTAGATGACATTGAAAGGTGGAGTTCCAATATACTACCCAGTAGACAGTT
TGGTCATTTGGTTCTAACCACGGCATATGGTATCATGGACCACGAAGAAGCTCGCAGAAAACACACCGGAGGCAAAATTC
TAGGCTTTTTCTTT

Alignment

ORF - retro_oana_77 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.46 %
• Parental protein coverage: 51.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LTYL-IATMVRMNVLADALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGYIGEFEIIDDHRAGKIV
          LT...I..MVRM.VL.D.LK.I.NAEKRG.RQVLIRP.SKVIV.FL..M.K.GYIG.F.IIDDHR.GKIV
Retrocopy LTFICILQMVRMIVLSDCLKTIVNAEKRGRRQVLIRPSSKVIVKFLQCMQKQGYIGNFDIIDDHRSGKIV

Parental  VNLTGRLNKCGVISPRFDVQLKDLEKWQNNLLPSRQFGFIVLTTSAGIMDHEEARRKHTGGKILGFFF
          ..L.GR.NKCGV.SPR.D..L.D.E.W..N.LPSRQFG..VLTT..GIMDHEEARRKHTGGKILGFFF
Retrocopy IELLGRINKCGVVSPRYDIALDDIERWSSNILPSRQFGHLVLTTAYGIMDHEEARRKHTGGKILGFFF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	505.94 RPM
SRP007412_cerebellum	0.00 RPM	375.78 RPM
SRP007412_heart	0.09 RPM	351.66 RPM
SRP007412_kidney	0.00 RPM	445.03 RPM
SRP007412_liver	0.00 RPM	238.22 RPM
SRP007412_testis	0.00 RPM	612.22 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_77 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_77 was not experimentally validated.

Homology

Retrocopy orthology:

Ornithorhynchus anatinus 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 7 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018174	20 retrocopies	retro_cfam_114, retro_cfam_1204, retro_cfam_1232, retro_cfam_1261, retro_cfam_127, retro_cfam_1301, retro_cfam_1348, retro_cfam_1364, retro_cfam_1525, retro_cfam_1582, retro_cfam_1605, retro_cfam_1642, retro_cfam_1745, retro_cfam_1966, retro_cfam_21, retro_cfam_427, retro_cfam_464, retro_cfam_699, retro_cfam_831, retro_cfam_888,
Callithrix jacchus	ENSCJAG00000020068	2 retrocopies	retro_cjac_782, retro_cjac_857,
Homo sapiens	ENSG00000170540	3 retrocopies	retro_hsap_1393, retro_hsap_559, retro_hsap_902,
Macropus eugenii	ENSMEUG00000007896	1 retrocopy	retro_meug_1842,
Monodelphis domestica	ENSMODG00000005944	1 retrocopy	retro_mdom_794,
Ornithorhynchus anatinus	ENSOANG00000012228	2 retrocopies	retro_oana_100, retro_oana_77 ,
Sarcophilus harrisii	ENSSHAG00000017346	1 retrocopy	retro_shar_691,