RetrogeneDB ID: retro_ggor_766

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:6667043..6668798(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PKP2
• Ensembl ID: ENSGGOG00000002106
• Aliases: None
• Description: None

Sequence

>retro_ggor_766
GTCTACAACCTACACTTGGTTGAAAATGATTTTGTTGGAGGCCGTTCCCCTGTTCCTAAAACCTATTGCATGCTAAAGGC
TGGCACAACTGCCACTTATGAAGGTCGCTGGGGAAGAGGAACAGCACAGTACAGCTCCCAGAAGTCCGTGGAAGAAAGGT
ATTTGAGGCATCCTCTGAGGAGACTGGAGATTTCTCCTGACAGCAGCCCGGAGAGGGCTCACTACACGCACAGCGATTGC
CAGCACAGCCAGAGAAGCCAGGCTGGGCACACCCTGCACCACCAAGAAAGCAGGCGGGCCGCCTTCCTGGTGCCACCGAG
ATATGATCGTTCTGAGATGGTGGGGGTCCGCCGTACTGGCACCACAAGCAGGCAGCGCCACTTTGACACTTACCACAGGC
AGTACCAGCATGGCTCTGTTAGTGACACCGTTTTTGACAGCATCCCTGCCAACCCGGCCCTGCTCACGTACCCCAGGCCA
GGGACCAGCCGCAGCATGGGCAACCTCTTGGAGAAAGAGAACTACCTGAGGGCAGGGCTCACCGTCGGCCAGGTCAGGCC
GCTGGTGCCCCTGCGGCCCCTCACTCAGAACAGGGCTTCCAGGTCCTCCTGGCACCGGAGCTCCTTCCACAGCACCCGCA
CACCGAGGAAAGCTGGGCCCAGTGTTGCCGTGGATTCCAGCGGGAGGAGAGCGCATTTGACCGTCGGCCAGGCGGCGGCA
GGGGGAAGTGGGAATCTGCTCACCGAGAGAAGCACTGACTCCCAGCTGGGGAATGCAGACATGGAGATGACTCTGGAGCG
AGCGGGGAGTATGCTCGATGCAGACCAGATGCCGCCGTCCAGGATTTCTGCCGCAGCCACTTTCATACAGCAAGAGTGCT
TCCAGAAATCTGAAGCTGGGAAGAGGGTTAACCAGTTTTGTGGCATCCCCAAGCTTCTGCAGCTCCTAAAAGTTCAGAAT
GAAGATGTTCAGCGAGCTGTGTGAGGGGCCTTGAGAAACTTACTATTTGAAGACAGTGACAACAAATTGGAGGTGGCTGA
ACTAAATGGGGTAACTCGGCTGCTCCAGGTGCTGAAGCAAACCAGAGTCTTGGAGACTAAAAAACAACTAACAGGTTTGC
TGTGGAATTTGTCATCTAATGACAAACTCAAGAATCTCATGATAACAGAAGCATTGCTTATGCTGACCGAGAATATAATC
ATCTCCTTTTCTGGATGGCCTGAAGGAGACTACCCAAAAGCAAATGGTTTGCTCCATTTTGATACAGTCTACAACGCCAC
TGGATGTCTAAGAAACATGAGTTCTGCTGGCCCTGATGGGAGAAAAGCAATGAGAAGATGTGACCGACTCATTGACTCAC
TGGTCCATTATGTCAGAGGAACCATTGCGGATTACCAGCCAGATGACAAGGCCACGGAGAATTGTGTGCACATTCTTCAT
AACCTCTCCTACCAGCTGGAGGTAGAGCTCCCAGAGAAATATTCACAGAATATCTATATTCAAAACCCAAATATCCAGAC
TAACAACAAAAGTATTGGATGTTTTGGCAGTCGAAGCAGGAAACTAAAAGAGCAATACCAGGACATGCCGATGCCAGAGG
AAAAGAGCAACCCCAAGGGCGTGGAGTGGCTGTGACACTCCATCGTGATAAGGATGTATCTGTCCTTGATCGCCAAGAGT
GTCCGAAACTACACACAGGAAGCCTCATTAGGCGCTCTCCAGAACCTCACAGCTGGAAGTGGACCAATGCCGAGC

Alignment

ORF - retro_ggor_766 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.18 %
• Parental protein coverage: 69.92 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VYNLHLVENDFVGGRSPVPKTYDMLKAGTTATYEGRWGRGTAQYSSQKSVEERSLRHPLRRLEISPDSSP
          VYNLHLVENDFVGGRSPVPKTY.MLKAGTTATYEGRWGRGTAQYSSQKSVEER.LRHPLRRLEISPDSSP
Retrocopy VYNLHLVENDFVGGRSPVPKTYCMLKAGTTATYEGRWGRGTAQYSSQKSVEERYLRHPLRRLEISPDSSP

Parental  ERAHYTHSDYQYSQRSQAGHTLRHQESRRAALLVPPRYARSEIVGVSRAGTTSRQRHFDTYHRQYQHGSV
          ERAHYTHSD.Q.SQRSQAGHTL.HQESRRAA.LVPPRY.RSE.VGV.R.GTTSRQRHFDTYHRQYQHGSV
Retrocopy ERAHYTHSDCQHSQRSQAGHTLHHQESRRAAFLVPPRYDRSEMVGVRRTGTTSRQRHFDTYHRQYQHGSV

Parental  SDTVFDSIPANPALLTYPRPGTSRSMGNLLEKENYLTAGLTVGQVRPLVPLQPVTQNRASRSSWHQSSFH
          SDTVFDSIPANPALLTYPRPGTSRSMGNLLEKENYL.AGLTVGQVRPLVPL.P.TQNRASRSSWH.SSFH
Retrocopy SDTVFDSIPANPALLTYPRPGTSRSMGNLLEKENYLRAGLTVGQVRPLVPLRPLTQNRASRSSWHRSSFH

Parental  STRTLREAGPSVAMDSSGRRAHLTVGQAAAGGSGNLLTERSTFTDSQLGNADMEMTLERAVSMLEADHMP
          STRT.R.AGPSVA.DSSGRRAHLTVGQAAAGGSGNLLTERS..TDSQLGNADMEMTLERA.SML.AD.MP
Retrocopy STRTPRKAGPSVAVDSSGRRAHLTVGQAAAGGSGNLLTERS--TDSQLGNADMEMTLERAGSMLDADQMP

Parental  PSRISAAATFIQHECFQKSEARKRVNQLRGIPKLLQLLKVQNEDVQRAVCGALRNLVFEDNDNKLEVAEL
          PSRISAAATFIQ.ECFQKSEA.KRVNQ..GIPKLLQLLKVQNEDVQRAV.GALRNL.FED.DNKLEVAEL
Retrocopy PSRISAAATFIQQECFQKSEAGKRVNQFCGIPKLLQLLKVQNEDVQRAV*GALRNLLFEDSDNKLEVAEL

Parental  NGVPRLLQVLKQTRDLETKKQITGLLWNLSSNDKLKNLMITEALLMLTENIIIPFSGWPEGDYPKANGLL
          NGV.RLLQVLKQTR.LETKKQ.TGLLWNLSSNDKLKNLMITEALLMLTENIII.FSGWPEGDYPKANGLL
Retrocopy NGVTRLLQVLKQTRVLETKKQLTGLLWNLSSNDKLKNLMITEALLMLTENIIISFSGWPEGDYPKANGLL

Parental  DFDIFYNVTGCLRNMSSAGPDGRKAMRRCDGLIDSLVHYVRGTIADYQPDDKATENCVCILHNLSYQLEA
          .FD..YN.TGCLRNMSSAGPDGRKAMRRCD.LIDSLVHYVRGTIADYQPDDKATENCV.ILHNLSYQLE.
Retrocopy HFDTVYNATGCLRNMSSAGPDGRKAMRRCDRLIDSLVHYVRGTIADYQPDDKATENCVHILHNLSYQLEV

Parental  ELPEKYSQNIYIQNRNIQTDNNKSIGCFGSRSRKVKEQYQDVPMPEEKSNPKGVEWLWHSIVIRMYLSLI
          ELPEKYSQNIYIQN.NIQT.NNKSIGCFGSRSRK.KEQYQD.PMPEEKSNPKGVEWL.HSIVIRMYLSLI
Retrocopy ELPEKYSQNIYIQNPNIQT-NNKSIGCFGSRSRKLKEQYQDMPMPEEKSNPKGVEWL*HSIVIRMYLSLI

Parental  AKSVRNYTQEASLGALQNLTAGSGPMPT
          AKSVRNYTQEASLGALQNLTAGSGPMP.
Retrocopy AKSVRNYTQEASLGALQNLTAGSGPMPS

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	5.75 RPM
SRP007412_cerebellum	0.04 RPM	3.78 RPM
SRP007412_heart	0.06 RPM	42.84 RPM
SRP007412_kidney	0.00 RPM	3.39 RPM
SRP007412_liver	0.00 RPM	7.99 RPM
SRP007412_testis	0.00 RPM	19.99 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_766 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_766 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_950
Pan troglodytes	retro_ptro_657

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000057294	1 retrocopy	retro_hsap_950,
Gorilla gorilla	ENSGGOG00000002106	1 retrocopy	retro_ggor_766 ,
Nomascus leucogenys	ENSNLEG00000016650	1 retrocopy	retro_nleu_786,
Pan troglodytes	ENSPTRG00000004820	1 retrocopy	retro_ptro_657,