RetrogeneDB ID: retro_ggor_1222

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:80761508..80762164(-)
• Located in intron of: ENSGGOG00000028021

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR12
• Ensembl ID: ENSGGOG00000026073
• Aliases: None
• Description: None

Sequence

>retro_ggor_1222
AGTGTAGATTCCACAGCTATTGACAGCTCAGGAACTAAATTTTGCAGTGGCTCCTGAGATAAGATGCTAAGGATCTGGTC
TATTGTCCCTACAGAAGAAGACGAAATGGAGGAATCCACAAACTGACCAAGAAAGAAACAGAAAACAGAGCAGTTGGGAC
TAACAAGGACTCCCATAGTGACCCTCTCTGGCCACAAGGAAGCAATCTCCTCAGTGCTGTGGTCAGATGCTGAAGAAATC
TGCAGTGTATCTTGGGACCATGAAATTAGTGTGTGGGATGTCGCGTTTGGCAATCTTAAGTCAACTTTACAGGAAATAAA
GTGTTTAATTGTATTTCCTATTCTCCACTTTGTAAATGTTTAGCATCTGGAAGCACAGATAGGCATATCAGACTGTGGGA
TCCCCAAACTAAAGATGGTTCTTTCGTGTTGCCGTCCCTAACCTCACATACAGGTTGGGAGACATGAGTAAAACGGTCTC
CTACCCATGAACCACAGCAGATTTCAGGATCCTTATATAACACTGTCAAGCTGTGGGATTCAAGAAGTTGTAAGGCTCCT
CTCTATGATGTGGCTGCTCATGAAGAGAAAGTTGTGAGAGCAGGCTAGACAGACACAGGACTCCTTCTGAGTGGAGGAGC
AGACAATAAACTATTC

Alignment

ORF - retro_ggor_1222 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.35 %
• Parental protein coverage: 52.01 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SVDSIAVDGSGTKFCSGSWDKMLKIWSTVPTDEEDEMEESTNRPRKKQKTEQMGLTRTPIVTLSGHMEAV
          SVDS.A.D.SGTKFCSGS.DKML.IWS.VPT.EEDEMEESTN.PRKKQKTEQ.GLTRTPIVTLSGH.EA.
Retrocopy SVDSTAIDSSGTKFCSGS*DKMLRIWSIVPT-EEDEMEESTN*PRKKQKTEQLGLTRTPIVTLSGHKEAI

Parental  SSVLWSDAEEICSASWDHTIRVWDVESGSLKSTL-TGNKVFNCISYSPLCKRLASGSTDRHIRLWDPRTK
          SSVLWSDAEEICS.SWDH.I.VWDV..G.LKSTL.TGNKVFNCISYSPLCK.LASGSTDRHIRLWDP.TK
Retrocopy SSVLWSDAEEICSVSWDHEISVWDVAFGNLKSTL<TGNKVFNCISYSPLCKCLASGSTDRHIRLWDPQTK

Parental  DGSLVSLSLTSHTGWVTSVKWSPTHEQQLISGSLDNIVKLWDIRSCKAPLYDLAAHEDKVLSVDWTDTGL
          DGS.V..SLTSHTGW.T.VK.SPTHE.Q.ISGSL.N.VKLWD.RSCKAPLYD.AAHE.KV.....TDTGL
Retrocopy DGSFVLPSLTSHTGWET*VKRSPTHEPQQISGSLYNTVKLWDSRSCKAPLYDVAAHEEKVVRAG*TDTGL

Parental  LLSGGADNKLY
          LLSGGADNKL.
Retrocopy LLSGGADNKLF

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	0.14 RPM	14.29 RPM
SRP007412_cerebellum	0.16 RPM	8.23 RPM
SRP007412_heart	0.03 RPM	3.19 RPM
SRP007412_kidney	0.08 RPM	18.28 RPM
SRP007412_liver	0.16 RPM	7.76 RPM
SRP007412_testis	0.21 RPM	49.52 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_1222 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1222 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1615
Pan troglodytes	retro_ptro_1083
Pongo abelii	retro_pabe_1327

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012519	1 retrocopy	retro_cfam_1759,
Choloepus hoffmanni	ENSCHOG00000013851	1 retrocopy	retro_chof_118,
Callithrix jacchus	ENSCJAG00000005171	1 retrocopy	retro_cjac_2690,
Cavia porcellus	ENSCPOG00000008824	1 retrocopy	retro_cpor_1107,
Homo sapiens	ENSG00000138442	1 retrocopy	retro_hsap_1615,
Gorilla gorilla	ENSGGOG00000026073	1 retrocopy	retro_ggor_1222 ,
Loxodonta africana	ENSLAFG00000011955	1 retrocopy	retro_lafr_1102,
Mus musculus	ENSMUSG00000026019	3 retrocopies	retro_mmus_1394, retro_mmus_2649, retro_mmus_2897,
Nomascus leucogenys	ENSNLEG00000007018	1 retrocopy	retro_nleu_2743,
Pongo abelii	ENSPPYG00000013089	1 retrocopy	retro_pabe_1327,
Pan troglodytes	ENSPTRG00000012823	1 retrocopy	retro_ptro_1083,
Tursiops truncatus	ENSTTRG00000001231	1 retrocopy	retro_ttru_1380,