RetrogeneDB ID: retro_ggor_1785

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:69029789..69030144(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000001660
• Aliases: None
• Description: None

Sequence

>retro_ggor_1785
AAGCACTGGAAGCACCCAGGAGGCCGTGGTAAGGCTGGTGGCATGCATCACACAGGATCAACTTTGACAAATATCACCCA
GGTTACTTTGGGAAAGTTGGCATGAGGCATTACCACTTAAAGAGAAACCAGAGCTTCTGCCCTGCTGTCAATCTTGACAA
ATTGTGGACTTTGGTCAGGGAGCAGACATGGGTGAAGGTTGCTAAAAACAAGACTGGAGCTGCTCCCATTGTTGATGTGG
TATGACCTGGCAATTAAAAAGTTCTGGAAAAGGGAAAGCTCCCAAAGCAGCTGTTATTGTGAAGGCCAAATTCTTCAGCA
GAAGAGCCAAGGAGATGATTAAGGGTGTCAGAGGT

Alignment

ORF - retro_ggor_1785 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.82 %
• Parental protein coverage: 79.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KHRKHPGGRGNAGGLHH-HRINFDKYHPGYFGKVGMKHYHLKRNQSFCPTVNLDKLWTLVSEQTRVNAAK
          KH.KHPGGRG.AGG.HH.HRINFDKYHPGYFGKVGM.HYHLKRNQSFCP.VNLDKLWTLV.EQT.V..AK
Retrocopy KHWKHPGGRGKAGGMHH<HRINFDKYHPGYFGKVGMRHYHLKRNQSFCPAVNLDKLWTLVREQTWVKVAK

Parental  NKTGAAPIIDVVRSGYYKVLGKGKLPKQ-PVIVKAKFFSRRAEEKIKSVGG
          NKTGAAPI.DVV..G..KVL.KGKLPKQ..VIVKAKFFSRRA.E.IK.V.G
Retrocopy NKTGAAPIVDVV*PGN*KVLEKGKLPKQ<AVIVKAKFFSRRAKEMIKGVRG

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_prefrontal_cortex	0.00 RPM	47.67 RPM
SRP007412_cerebellum	0.00 RPM	69.07 RPM
SRP007412_heart	0.00 RPM	57.97 RPM
SRP007412_kidney	0.00 RPM	138.33 RPM
SRP007412_liver	0.00 RPM	161.57 RPM
SRP007412_testis	0.00 RPM	81.64 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1785 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1785 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2352

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 69 retrocopies.

Species	Parental gene accession	Retrocopies number
Ficedula albicollis	ENSFALG00000000924	1 retrocopy	retro_falb_20,
Homo sapiens	ENSG00000166441	7 retrocopies	retro_hsap_1263, retro_hsap_1908, retro_hsap_2352, retro_hsap_239, retro_hsap_3335, retro_hsap_3586, retro_hsap_3682,
Gorilla gorilla	ENSGGOG00000001660	2 retrocopies	retro_ggor_155, retro_ggor_1785 ,
Myotis lucifugus	ENSMLUG00000016616	7 retrocopies	retro_mluc_113, retro_mluc_1253, retro_mluc_164, retro_mluc_2123, retro_mluc_2202, retro_mluc_47, retro_mluc_572,
Macaca mulatta	ENSMMUG00000021828	2 retrocopies	retro_mmul_207, retro_mmul_268,
Monodelphis domestica	ENSMODG00000007480	1 retrocopy	retro_mdom_575,
Mus musculus	ENSMUSG00000046364	1 retrocopy	retro_mmus_40,
Pan troglodytes	ENSPTRG00000003333	1 retrocopy	retro_ptro_33,
Rattus norvegicus	ENSRNOG00000014214	10 retrocopies	retro_rnor_132, retro_rnor_193, retro_rnor_1996, retro_rnor_2466, retro_rnor_253, retro_rnor_261, retro_rnor_334, retro_rnor_370, retro_rnor_565, retro_rnor_606,
Tupaia belangeri	ENSTBEG00000000046	20 retrocopies	retro_tbel_1093, retro_tbel_1101, retro_tbel_1148, retro_tbel_1152, retro_tbel_1223, retro_tbel_1338, retro_tbel_1639, retro_tbel_2017, retro_tbel_2606, retro_tbel_2777, retro_tbel_298, retro_tbel_3111, retro_tbel_3496, retro_tbel_3881, retro_tbel_4566, retro_tbel_460, retro_tbel_544, retro_tbel_643, retro_tbel_925, retro_tbel_937,
Taeniopygia guttata	ENSTGUG00000008355	1 retrocopy	retro_tgut_18,
Tarsius syrichta	ENSTSYG00000013207	16 retrocopies	retro_tsyr_1103, retro_tsyr_155, retro_tsyr_1591, retro_tsyr_1607, retro_tsyr_1623, retro_tsyr_170, retro_tsyr_1725, retro_tsyr_187, retro_tsyr_204, retro_tsyr_283, retro_tsyr_498, retro_tsyr_50, retro_tsyr_550, retro_tsyr_608, retro_tsyr_612, retro_tsyr_716,