RetrogeneDB ID: retro_cfam_987

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 20:32933172..32933424(-)
• Located in intron of: ENSCAFG00000007873

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCAFG00000032005
• Aliases: None
• Description: None

Sequence

>retro_cfam_987
ATGAATTGGCAAGTAAGGCCAACATTCAGGCCTAGAGCAAGATGAGATGATGAAAAATCTTTGCAGCTGATTTGGCCTGT
GGTTCCCAGTGCTGAGCAACAAGGAAAGGAGCCACCAATTGAGCGTCAGGATATTATATCTGATTAAGAGAGAAGAGATG
AAGGAGTACCTGTAGCTCAAGGGTCTGCCCTGGAACCTAATCAGGAGGAACTGACTCTTCCCGAGACTGGGAAAGAGCAT
GGAGACAGTCCT

Alignment

ORF - retro_cfam_987 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.71 %
• Parental protein coverage: 77.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNWQVRSTFRPRARRDDEKYLKPFGPVVAQQPSAEQQGEEPPTERQDVIPDQEKRDEGAPVAQGPALEPN
          MNWQVR.TFRPRAR.DDEK.L....PVV...PSAEQQG.EPP.ERQD.I.D.E.RDEG.PVAQG.ALEPN
Retrocopy MNWQVRPTFRPRAR*DDEKSLQLIWPVV---PSAEQQGKEPPIERQDIISD*ERRDEGVPVAQGSALEPN

Parental  QEELTLPKTEREHGDGP
          QEELTLP.T..EHGD.P
Retrocopy QEELTLPETGKEHGDSP

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
SRP012049_cerebellum	0.00 RPM	0.04 RPM
SRP017611_brain	0.00 RPM	0.32 RPM
SRP017611_kidney	0.00 RPM	0.86 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_987 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_987 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_987 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000032005	1 retrocopy	retro_cfam_987 ,
Homo sapiens	ENSG00000204279	1 retrocopy	retro_hsap_1010,
Gorilla gorilla	ENSGGOG00000028520	1 retrocopy	retro_ggor_802,
Microcebus murinus	ENSMICG00000007757	2 retrocopies	retro_mmur_168, retro_mmur_396,