RetrogeneDB ID: retro_cfam_2152

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: X:41032169..41032497(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZBTB8OS
• Ensembl ID: ENSCAFG00000010550
• Aliases: None
• Description: zinc finger and BTB domain containing 8 opposite strand [Source:HGNC Symbol;Acc:24094]

Sequence

>retro_cfam_2152
GCAATAGTCCTGTTTGGTTGCATGATTCACACAGAGACCCTCAAGCTCTTACAAATGGTAGAGATAGAGACCCCAGAGGA
TGACTTGTAATCTCTGTTTCACTTTTTAGATAAAGGACTCTATAAATTCAGCACTGATTTGTTCTTCATACCCTGGGATG
TCAAAGTCCTCAATATTTTGGCCACCTTTTTTTTCCTTCAAATTTCTAGGGTGGGGAGAAGAGTTTTCATTGTCCAAACA
CCTGCAGAGCAACAAAGTCAAGGCAAAAACCTATTCAGGAATGCAGATCTGTGAGTAGAAGCCAGAAGTTTTTGTGATCA
TTGACATT

Alignment

ORF - retro_cfam_2152 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.61 %
• Parental protein coverage: 62.01 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AMAMFGYMTDTGTVEPLQTVEVETQGDDLQSLLFHFLDEWLYKFSADEFFIPREVKVLQIDQRNFKL-RS
          A...FG.M..T.T...LQ.VE.ET..DDL.SL.FHFLD..LYKFS.D.FFIP..VKVL.I......L...
Retrocopy AIVLFGCMIHTETLKLLQMVEIETPEDDL*SL-FHFLDKGLYKFSTDLFFIPWDVKVLNILATXXXL>KF

Parental  IGWGEEFSLSKHPQGTEVKAITYSAMQVYDEEKPEVFVIIDI
          .GWGEEFSLSKH.Q...VKA.TYS.MQ...E.KPEVFVIIDI
Retrocopy LGWGEEFSLSKHLQSNKVKAKTYSGMQIC-E*KPEVFVIIDI

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	1.09 RPM	4.83 RPM
SRP017611_brain	1.59 RPM	4.53 RPM
SRP017611_kidney	0.99 RPM	20.08 RPM
SRP017611_liver	0.29 RPM	4.57 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_2152 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_2152 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_2152 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 16 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010550	1 retrocopy	retro_cfam_2152 ,
Choloepus hoffmanni	ENSCHOG00000004061	2 retrocopies	retro_chof_1005, retro_chof_1158,
Cavia porcellus	ENSCPOG00000015349	2 retrocopies	retro_cpor_356, retro_cpor_903,
Dasypus novemcinctus	ENSDNOG00000001861	2 retrocopies	retro_dnov_1056, retro_dnov_2193,
Equus caballus	ENSECAG00000020982	1 retrocopy	retro_ecab_610,
Felis catus	ENSFCAG00000000700	1 retrocopy	retro_fcat_703,
Homo sapiens	ENSG00000176261	2 retrocopies	retro_hsap_2396, retro_hsap_2992,
Gorilla gorilla	ENSGGOG00000007519	2 retrocopies	retro_ggor_2072, retro_ggor_231,
Myotis lucifugus	ENSMLUG00000000745	5 retrocopies	retro_mluc_1961, retro_mluc_2533, retro_mluc_2570, retro_mluc_2617, retro_mluc_2622,
Macaca mulatta	ENSMMUG00000009939	1 retrocopy	retro_mmul_1915,
Monodelphis domestica	ENSMODG00000017419	2 retrocopies	retro_mdom_400, retro_mdom_901,
Mus musculus	ENSMUSG00000057572	1 retrocopy	retro_mmus_2631,
Oryctolagus cuniculus	ENSOCUG00000000940	1 retrocopy	retro_ocun_492,
Otolemur garnettii	ENSOGAG00000011630	1 retrocopy	retro_ogar_3231,
Pongo abelii	ENSPPYG00000001589	2 retrocopies	retro_pabe_13, retro_pabe_2478,
Tursiops truncatus	ENSTTRG00000014968	1 retrocopy	retro_ttru_1200,