RetrogeneDB ID: retro_ggor_1873

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:107742269..107742644(+)
• Located in intron of: ENSGGOG00000034901

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000147403
• Ensembl ID: ENSGGOG00000000131
• Aliases: None
• Description: None

Sequence

>retro_ggor_1873
CTTAGAGACAGCCCTTTCCAATGTACATTCATGTCTCTGACCTCCTGCTGTCCCCCATCTAGGCTTCTGAGAGCTATTAT
GCAAGGTGTCTTTGGAAAGCCCCCAGGGCACAGTGACCAGGGTTCACAGTGGCCAAGTCATCATGTCCATCCACACAAAT
CTGCAAAATAAGGAGCATGCAACTAAGGCCCCATGCAGTGCCAAGTTCAAGGTCCCTGGCTGCCCAAAGACCCACATCTC
AAAGTGGGGCTTTACCAAATTTAATGTGGATAAATCTGAAGACACGGCGGCTGAGAAGTGGCTCATCCCAGATGGTTGTG
AGGTCAAAAACCTCCACAAATGTGGCCCCCGGACAAGTGGTGAGCACTACATTCG

Alignment

ORF - retro_ggor_1873 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.81 %
• Parental protein coverage: 54.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VRLHPFHVIRINKMLSCAGADRLQTGMRGAFGKP-QGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKF
          .R..PF..........C.....L...M.G.FGKP.QGTV.RVH.GQVIMSI.T.LQNKEH...A...AKF
Retrocopy LRDSPFQCTFMSLTSCCPPSRLLRAIMQGVFGKP>QGTVTRVHSGQVIMSIHTNLQNKEHATKAPCSAKF

Parental  KFPGRQKIHISKKWGFTKFNADEFEDMVAEKRLIPDGCGVKYI-PNRGPLDKWRALHS
          K.PG..K.HIS.KWGFTKFN.D..ED..AEK.LIPDGC.VK...P...P.DKW.ALHS
Retrocopy KVPGCPKTHIS-KWGFTKFNVDKSEDTAAEKWLIPDGCEVKNL<PQMWPPDKW*ALHS

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	102.43 RPM
SRP007412_cerebellum	0.00 RPM	131.55 RPM
SRP007412_heart	0.00 RPM	169.48 RPM
SRP007412_kidney	0.04 RPM	291.42 RPM
SRP007412_liver	0.00 RPM	437.29 RPM
SRP007412_testis	0.00 RPM	123.39 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_1873 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1873 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 41 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000004369	2 retrocopies	retro_dord_14, retro_dord_715,
Echinops telfairi	ENSETEG00000001712	10 retrocopies	retro_etel_1073, retro_etel_1284, retro_etel_1517, retro_etel_1654, retro_etel_249, retro_etel_338, retro_etel_403, retro_etel_47, retro_etel_538, retro_etel_631,
Gorilla gorilla	ENSGGOG00000000131	4 retrocopies	retro_ggor_1873 , retro_ggor_2425, retro_ggor_253, retro_ggor_61,
Macropus eugenii	ENSMEUG00000013163	3 retrocopies	retro_meug_1839, retro_meug_5, retro_meug_547,
Macaca mulatta	ENSMMUG00000005494	5 retrocopies	retro_mmul_1506, retro_mmul_1654, retro_mmul_307, retro_mmul_335, retro_mmul_906,
Monodelphis domestica	ENSMODG00000008731	2 retrocopies	retro_mdom_177, retro_mdom_829,
Tupaia belangeri	ENSTBEG00000003734	1 retrocopy	retro_tbel_61,
Tarsius syrichta	ENSTSYG00000004067	7 retrocopies	retro_tsyr_11, retro_tsyr_1644, retro_tsyr_1739, retro_tsyr_1986, retro_tsyr_559, retro_tsyr_640, retro_tsyr_960,
Tursiops truncatus	ENSTTRG00000011407	7 retrocopies	retro_ttru_1085, retro_ttru_122, retro_ttru_1226, retro_ttru_1437, retro_ttru_820, retro_ttru_858, retro_ttru_867,