RetrogeneDB ID: retro_ggor_912

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:2975527..2977245(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GRK6
• Ensembl ID: ENSGGOG00000009669
• Aliases: None
• Description: None

Sequence

>retro_ggor_912
ATGGAGCTCGAGAACATCGTAGCGGACACGGTGCTCCTCAAGGCCAGGGACGGTGGCGGTGGAAATCGCAAAGGCAAAAG
CAAGAAATGGCGGCAGATGCTCCAGTTCCCCCACATCAGCCAGTGCGAAGAGCTGCGGCTCAGTCTCGAACGTGACTATC
ACAGCCTGTGCGAGCGGCAGCCCATCGGGCTCCTGCTGTTCTGAGAGTTCTGTGCCACCAGGCCGGAGCTGAGCCGTTGC
ATCGCCTTCCAGGATGGGATGGCCGAGTATGAAGTGACCCCGGATGAGAAGCGGAAGGCATGTGGGCGGCGGCTAATGCA
GAATTTTCTGAGCCACGGGGTTCCTGACCTCATCCCTGAGGTCCCCCGGCAGCTGGTGACGAACTGCACCCAGCGGCTGG
AGCAGGGGCCCTGCAAAGAACTCTCCCAGGAACTCACCCGGGTGACCCACGAGCACCTGAGCATGGCCCCTTTTGCCGAC
TACCTCAACAGCATCTACTTCAACCGTTTCCTGCAGTGGAAGTGGCTGGAAAGGCAGCCAGTGACCAAAAATACCTTGAG
GCAGTACCGAGTCCTGGGCAAAGGCGGCTCTGGGGAGGTGTGCGCCTGCCAGGTGCGGGCCACAGGCAAGATGTACGCCT
GCAAGAAGCTAGAGAAAAAGCGGATCAAGAAGCAGAAAGGGGAGGCCATGGCGCTGAGCGAGAAGCAGATTCTGGAGAAA
GTGAACAGTAGGTTTATAGTGAGCTTGGCCTACCCCTGTGAGACCAAGGAGGCGCTGTGCCTGGTGCTGACGCTGATGAA
CGGGGGCGACCTCAATTTCCACATCTGCCACATGGGCCGGGCTGGCTTCCCCGAAGCGCAGGCCGTCTTCTACGTCCCGA
GATCTGCTGCGGCCTGGAGGACCTGCACCGGGAGCGCATCGTGTACAGGGACCTGAAGCCAGGAACATCTTGCTGGATGA
CCACGGCCACATCCTCGTCTCCGACCTGGGACTGGCTGTGCACGTGCCCGAGGGCCAGACCATCAAAGGCCGTGTGGGCA
CCGTGAGCTGCATGGCTCCAGAGGTGGTGAAGAATGAACCGTACACTTTCAGCTCTGACTGGTGGGCGCTAGGCTGCCTC
CCGTAGGAGATGATTGCAGGCCAGTCGCCCTTCCAGCAGAGGAAGAAGAAGATCAAGCGGGAGGAGGTGGAGCGGCTGGT
GAAGGAGGTCCCCGAGGAGTATTCCGAGCGCTTTTCCCCGCAGGCCTGCTCACTCCGCTCACAGCTCCTCTGCAAGGACC
CCGCTGAACGCCTGGGGTGTCGTGGGGGCAGTGCCCGCGAAGTGAAGGAGCACCCCCTCTTGAAGAAGCTGAACTTCAAG
CGGGTGGGAGCCGGCATGCTGGAGCCGCCCTTCAAGCCTGACCCTCGGGCCATTTACTGCAAGGATGTTCTGGACATTGA
ACAGTTCTCTAGGATCAAGGGCGTGGAGCTGGAGCCTACCGACCAAGACTTCTACCAAAAGTTTGCCACAGGCAGCGTGC
CCATCCCCTGGCAGAACGGGATGGTGGAGACTGAGTGCTTCCAGGAGCTGAATGTCTTTGGGCTGGATGGCTCAGTTCCC
CCAGACCTGGACTGGAAGGGCCAGCCACCTGCAAGGGACTGCTGCAGAGACTCTTCAGTCGCCAAAGGATTGCTGTGGAA
ACTGCGGCGAGAGCGAAGAAGAGCTCCCTACCGGCCTC

Alignment

ORF - retro_ggor_912 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.1 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MELENIVANTVLLKAREGGGGNRKGKSKKWRQMLQFPHISQCEELRLSLERDYHSLCERQPIGRLLFREF
          MELENIVA.TVLLKAR.GGGGNRKGKSKKWRQMLQFPHISQCEELRLSLERDYHSLCERQPIG.LLF.EF
Retrocopy MELENIVADTVLLKARDGGGGNRKGKSKKWRQMLQFPHISQCEELRLSLERDYHSLCERQPIGLLLF*EF

Parental  CATRPELSRCVAFLDGVAEYEVTPDERRKACGRQLTQNFLSHTGPDLIPEVPRQLVTNCTQRLEQGPCKD
          CATRPELSRC.AF.DG.AEYEVTPDE.RKACGR.L.QNFLSH..PDLIPEVPRQLVTNCTQRLEQGPCK.
Retrocopy CATRPELSRCIAFQDGMAEYEVTPDEKRKACGRRLMQNFLSHGVPDLIPEVPRQLVTNCTQRLEQGPCKE

Parental  LFQELTRLTHEYLSVAPFADYLDSIYFNRFLQWKWLERQPVTKNTFRQYRVLGKGGFGEVCACQVRATGK
          L.QELTR.THE.LS.APFADYL.SIYFNRFLQWKWLERQPVTKNT.RQYRVLGKGG.GEVCACQVRATGK
Retrocopy LSQELTRVTHEHLSMAPFADYLNSIYFNRFLQWKWLERQPVTKNTLRQYRVLGKGGSGEVCACQVRATGK

Parental  MYACKKLEKKRIKKRKGEAMALNEKQILEKVNSRFVVSLAYAYETKDALCLVLTLMNGGDLKFHIYHMGQ
          MYACKKLEKKRIKK.KGEAMAL.EKQILEKVNSRF.VSLAY..ETK.ALCLVLTLMNGGDL.FHI.HMG.
Retrocopy MYACKKLEKKRIKKQKGEAMALSEKQILEKVNSRFIVSLAYPCETKEALCLVLTLMNGGDLNFHICHMGR

Parental  AGFPEARAVFYAA-EICCGLEDLHRERIVYRDLKP-ENILLDDHGHIRISDLGLAVHVPEGQTIKGRVGT
          AGFPEA.AVFY...EICCGLEDLHRERIVYRDLKP..NILLDDHGHI..SDLGLAVHVPEGQTIKGRVGT
Retrocopy AGFPEAQAVFYVP<EICCGLEDLHRERIVYRDLKP<RNILLDDHGHILVSDLGLAVHVPEGQTIKGRVGT

Parental  VGYMAPEVVKNERYTFSPDWWALGCLLYEMIAGQSPFQQRKKKIKREEVERLVKEVPEEYSERFSPQARS
          V..MAPEVVKNE.YTFS.DWWALGCL..EMIAGQSPFQQRKKKIKREEVERLVKEVPEEYSERFSPQA.S
Retrocopy VSCMAPEVVKNEPYTFSSDWWALGCLP*EMIAGQSPFQQRKKKIKREEVERLVKEVPEEYSERFSPQACS

Parental  LCSQLLCKDPAERLGCRGGSAREVKEHPLFKKLNFKRLGAGMLEPPFKPDPQAIYCKDVLDIEQFSTVKG
          L.SQLLCKDPAERLGCRGGSAREVKEHPL.KKLNFKR.GAGMLEPPFKPDP.AIYCKDVLDIEQFS..KG
Retrocopy LRSQLLCKDPAERLGCRGGSAREVKEHPLLKKLNFKRVGAGMLEPPFKPDPRAIYCKDVLDIEQFSRIKG

Parental  VELEPTDQDFYQKFATGSVPIPWQNEQMVETECFQELNVFGLDGSVPPDLDWKGQPPAPPKKGLL-QRLF
          VELEPTDQDFYQKFATGSVPIPWQN..MVETECFQELNVFGLDGSVPPDLDWKGQ...PP........L.
Retrocopy VELEPTDQDFYQKFATGSVPIPWQNG-MVETECFQELNVFGLDGSVPPDLDWKGQ---PPARDCC>ETLQ

Parental  SRQDCCGNCSDSEEELPTRL
          S..DCCGNC..SEEELPT.L
Retrocopy SPKDCCGNCGESEEELPTGL

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	0.48 RPM	23.88 RPM
SRP007412_cerebellum	0.08 RPM	18.04 RPM
SRP007412_heart	0.09 RPM	8.13 RPM
SRP007412_kidney	0.08 RPM	7.24 RPM
SRP007412_liver	0.11 RPM	8.78 RPM
SRP007412_testis	20.20 RPM	31.91 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_912 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_912 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1172
Pan troglodytes	retro_ptro_805

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006775	1 retrocopy	retro_cjac_3926,
Homo sapiens	ENSG00000198055	1 retrocopy	retro_hsap_1172,
Gorilla gorilla	ENSGGOG00000009669	1 retrocopy	retro_ggor_912 ,