RetrogeneDB ID: retro_ggor_444

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:145426720..145427982(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EWSR1
• Ensembl ID: ENSGGOG00000012212
• Aliases: None
• Description: None

Sequence

>retro_ggor_444
CCTCCCACTAGTTACCCACCCCAAACTTGATCCTACAGACAAGCTCCAAGTCAGTATAGCTAACAGAGCAGCAGCTACGG
GCAGCAGAGTTCATTCTGACAGGACCACCCCAGTAGCATGGGTGTTTATGGGCAGGAGTCTGGAGGATTTTCCGGACCAG
GAGAGAACCGGAGCATGAGTGACCCTGATAACTGGGGCAGGGGAAGAGGGGGATTTGATCGTGGAGGCATGAGCAGAGGT
GGGCGGGGAGGAGAATGCGGTGGAATGGGCAGCGCTGGAGAGCAAGGTGGCTTCAATAAGCCTGGTGGACCCATGGATGA
AGGACCAGATCTTGATCTAGGCCCACCTGTAGATCCAGATGAAGACTCTGACAACAGTGCAATTTATGTACAAGGATTAA
ATGACGATGTGACTCTAGATGATCTGGTAGACTTCTTTAAGCAGTGTGGGGTTGTTAAGATGAACAAGAGAACTGGGCAA
CCCATGATCCACACCTACCTGGACAAGGAAACAAGAAAGCCTAAAGGTGATGCCACAGTGTCCTGTGAAGACCCACCTAC
TGCCAAAGCTGCCGTGGAATGGTTTGATGGGAAAGATTTTCAAGGGAGCAAACTTAAAGTCTCTCTTGCTCAGAAGAGGC
CTCCAGTGAACAGTATGCGGGGTGGTATGCCACCCCGTGAGGGCAGAGGGATGCCACCACCACTCTGCGGAGGTCCAGGA
GGCCCAGGAAGTCCTGGGGGACCCATGGGTCACATGGGAGGCCATGGAGGAGATAGAGGAGGCCTCCCTCCAAGAGGACC
CCAGGGTTCCCGAGGGAACACCTCTGGAGGAGGAAACGTCCAGCACCAAGCTGGAGACTGGCAGTGTCCCAATCTGTGTT
GTGGAAACCAGAACTTCGCCTGGAGAACAGAGTGCAACAAGTGTAAGGCCCCAAAGCCTGAAGGCTTCCTCCCGCCACCC
TTCCCACGCCCAGGTGGTGATCATGGCAGAGGTGGCCCTGGTGGCATGTGGGGAGGACGAGGTGGCCTCATGGATCATGG
TGGTCCCAGTGGAATGTTCAGAGGTGGCTGTGGTAGAGACAGAGGTGGCTTCCGTGGTGGCTGGGCATGGACCGAGGTGG
CTTTGGTGGAGGAAGACAAGGTGGCCCTGGGGAGCCCCCTGGACCTTTGATGTAACCGATGGGAGGAAGAAGAGGAGGAC
GTGGAGGACCTGGAAAAACGGATAAAGGCGAGCACCGTCAGGAGTGCAGAGATCAGCCCTAC

Alignment

ORF - retro_ggor_444 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.57 %
• Parental protein coverage: 62.93 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PPTSYPPQTGSYSQAPSQYSQQSSSYGQQSSFRQDHPSSMGVYGQESGGFSGPGENRSMSGPDNRGRGRG
          PPTSYPPQT.SY.QAPSQYS.QSSSYGQQSSF.QDHPSSMGVYGQESGGFSGPGENRSMS.PDN.GRGRG
Retrocopy PPTSYPPQT*SYRQAPSQYS*QSSSYGQQSSF*QDHPSSMGVYGQESGGFSGPGENRSMSDPDNWGRGRG

Parental  GFDRGGMSRGGRGGGRGGMGSAGERGGFNKPGGPMDEGPDLDLGPPVDPDEDSDNSAIYVQGLNDSVTLD
          GFDRGGMSRGGRGG..GGMGSAGE.GGFNKPGGPMDEGPDLDLGPPVDPDEDSDNSAIYVQGLND.VTLD
Retrocopy GFDRGGMSRGGRGGECGGMGSAGEQGGFNKPGGPMDEGPDLDLGPPVDPDEDSDNSAIYVQGLNDDVTLD

Parental  DLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLA
          DL.DFFKQCGVVKMNKRTGQPMIH.YLDKET.KPKGDATVS.EDPPTAKAAVEWFDGKDFQGSKLKVSLA
Retrocopy DLVDFFKQCGVVKMNKRTGQPMIHTYLDKETRKPKGDATVSCEDPPTAKAAVEWFDGKDFQGSKLKVSLA

Parental  RKKPPMNSMRGGMPPREGRGMPPPLRGGPGGPGGPGGPMGRMGGRGGDRGGFPPRGPRGSRGNPSGGGNV
          .K.PP.NSMRGGMPPREGRGMPPPL.GGPGGPG.PGGPMG.MGG.GGDRGG.PPRGP.GSRGN.SGGGNV
Retrocopy QKRPPVNSMRGGMPPREGRGMPPPLCGGPGGPGSPGGPMGHMGGHGGDRGGLPPRGPQGSRGNTSGGGNV

Parental  QHRAGDWQCPNPGCGNQNFAWRTECNQCKAPKPEGFLPPPFPPPGGDRGRGGPGGMRGGRGGLMDRGGPG
          QH.AGDWQCPN..CGNQNFAWRTECN.CKAPKPEGFLPPPFP.PGGD.GRGGPGGM.GGRGGLMD.GGP.
Retrocopy QHQAGDWQCPNLCCGNQNFAWRTECNKCKAPKPEGFLPPPFPRPGGDHGRGGPGGMWGGRGGLMDHGGPS

Parental  GMFRGGRGGDRGGFRGG-RGMDRGGFGGGRRGGPGGPPGPLMEQMGGRRGGRGGPGKMDKGEHRQERRDR
          GMFRGG.G.DRGGFRGG..GMDRGGFGGGR.GGPG.PPGPLM..MGGRRGGRGGPGK.DKGEHRQE.RD.
Retrocopy GMFRGGCGRDRGGFRGG<LGMDRGGFGGGRQGGPGEPPGPLM*PMGGRRGGRGGPGKTDKGEHRQECRDQ

Parental  PY
          PY
Retrocopy PY

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	0.05 RPM	170.04 RPM
SRP007412_cerebellum	0.12 RPM	200.81 RPM
SRP007412_heart	0.09 RPM	63.79 RPM
SRP007412_kidney	0.00 RPM	127.49 RPM
SRP007412_liver	0.11 RPM	86.70 RPM
SRP007412_testis	0.31 RPM	302.72 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_444 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_444 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_463
Pan troglodytes	retro_ptro_350

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008298	2 retrocopies	retro_amel_191, retro_amel_959,
Canis familiaris	ENSCAFG00000012160	8 retrocopies	retro_cfam_1142, retro_cfam_1183, retro_cfam_1225, retro_cfam_133, retro_cfam_1397, retro_cfam_1736, retro_cfam_1889, retro_cfam_560,
Callithrix jacchus	ENSCJAG00000019987	4 retrocopies	retro_cjac_1716, retro_cjac_2022, retro_cjac_2813, retro_cjac_2911,
Homo sapiens	ENSG00000182944	1 retrocopy	retro_hsap_463,
Gorilla gorilla	ENSGGOG00000012212	1 retrocopy	retro_ggor_444 ,
Macropus eugenii	ENSMEUG00000008703	1 retrocopy	retro_meug_1424,
Myotis lucifugus	ENSMLUG00000012058	1 retrocopy	retro_mluc_328,
Monodelphis domestica	ENSMODG00000008679	1 retrocopy	retro_mdom_279,
Oryctolagus cuniculus	ENSOCUG00000004432	2 retrocopies	retro_ocun_1346, retro_ocun_242,
Pongo abelii	ENSPPYG00000011684	1 retrocopy	retro_pabe_1769,
Pan troglodytes	ENSPTRG00000014218	1 retrocopy	retro_ptro_350,
Ictidomys tridecemlineatus	ENSSTOG00000023177	1 retrocopy	retro_itri_1892,
Tursiops truncatus	ENSTTRG00000011881	1 retrocopy	retro_ttru_1366,