RetrogeneDB ID: retro_cfam_794

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 18:17137703..17138057(+)
• Located in intron of: ENSCAFG00000004262

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V1G1
• Ensembl ID: ENSCAFG00000000513
• Aliases: ATP6V1G2, ATP6G, ATP6V1G1
• Description: Canis lupus familiaris ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2 (ATP6V1G2), mRNA. [Source:RefSeq mRNA;Acc:NM_001014376]

Sequence

>retro_cfam_794
ATGGCCAGTCAGTCCCAGGGTATCCAGCAGCTCCTGCAAGCTGAGAAACGGGCGGCTGAGAAGGTGGCAGATGCCAGAAA
GAGGAAAGCCCGGCATCTGAAGCAGGCAAAGGAGAAGGCACAGATGGAGGTGGAGCTGTACCGCAGAGAACGAGAGCAGG
AGTTCCAGAGCAAGCAACAGGCGGCCACGGGCTCCCAGGGGAACCTGTCGGCTGAGGTGGAACAGGCTACCAGACGCCAG
ATGCAGGGCATGCAGAGCTCCCAGCAGAGAAACCGTGAACGCGTCCTGGCCCAGCTTCTTGGCATGGTCTGCGACGTCAG
GCCCCAGGTCCATCCCAACTACCGGATTGCTGTC

Alignment

ORF - retro_cfam_794 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.61 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASQSQGIQQLLQAEKRAAEKVADARKRKARRLKQAKEEAQMEVELYRREREQEFQSKQQAAMGSQGNLS
          MASQSQGIQQLLQAEKRAAEKVADARKRKAR.LKQAKE.AQMEVELYRREREQEFQSKQQAA.GSQGNLS
Retrocopy MASQSQGIQQLLQAEKRAAEKVADARKRKARHLKQAKEKAQMEVELYRREREQEFQSKQQAATGSQGNLS

Parental  AEVEQATRRQVQGMQSSQQRNRERVLAQLLGMVCDVRPQVHPNYRIAV
          AEVEQATRRQ.QGMQSSQQRNRERVLAQLLGMVCDVRPQVHPNYRIAV
Retrocopy AEVEQATRRQMQGMQSSQQRNRERVLAQLLGMVCDVRPQVHPNYRIAV

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	0.17 RPM	16.04 RPM
SRP017611_brain	0.79 RPM	37.79 RPM
SRP017611_kidney	0.07 RPM	1.32 RPM
SRP017611_liver	0.00 RPM	0.29 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_794 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_794 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_794 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000513	1 retrocopy	retro_cfam_794 ,
Choloepus hoffmanni	ENSCHOG00000000207	1 retrocopy	retro_chof_2408,
Macropus eugenii	ENSMEUG00000008277	1 retrocopy	retro_meug_2002,
Tarsius syrichta	ENSTSYG00000007314	1 retrocopy	retro_tsyr_871,