RetrogeneDB ID: retro_ptro_1726

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 2B:194684004..194686776(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF532
• Ensembl ID: ENSPTRG00000039047
• Aliases: None
• Description: zinc finger protein 532 [Source:HGNC Symbol;Acc:30940]

Sequence

>retro_ptro_1726
GGGGAGAAAGACGGCCACAACCCCACTGGCAATGGCTTACATAATGGGTTTCTCACAGCATCCTCCCTTGACAGTTACAG
TAAAGATGGAGCAAAGTCCTTGAAAGGAGATGTGCCTGCCTCTGAGGTGACGCTGAAAGACTCGACATTCAGCCAGTTTA
GCCCGATCTCCAGTGCTGAAGAGTTTGATGACGACGAGAAGATCGAGGTGGATGACCCCCCTGACAAGGAGGACGTGCGA
TCAAGCTTCAGGTCGAATGTGTTGACGGGGTCGGCTCCCCAGCAGGACTACGATAAGCTGAAGGCACTCGGAGGGGAAAA
CTCCAGCAAAACTGGACTCTCTACGTCAGGCAATGTGGAGAAAAACAAAGTTGTTAAGAGAGAAACAGAAGCCAATTCTA
TAAACCTGAGTGTTTATGAACCTTTTAAAGTCAGAAAAGCAGAGGATAAATTGAAGGAAAGCTCTGACAAGGTGCTGGAA
AACAGAGTCCTAGATGGGAAGCCGAGCTCCGAGAAGAATGACACCAGCCTCCCCACCGTTGCGCCATCAAAGACAAAGTC
GTCCTCCAAGCTCTCGTCCTGCATCGCTGCCATCGCGGCTCTCAGCGCTAAAAAGGCGGCTTCAGACTCCTGCAAAGAAC
CAGTGGCCAATTCGAGGGAATCCTCCCCGTTACCAAAAGAAGTAAATGACAGTCCGAGAGCCGCTGACAAGTCTCCTGAA
TCCCAGAATCTCATCGACGGGACCAAAAAACCATCCCTAAAGCAACCGGATAGTCCCAGAAGCATCTCAAGTGAGAATAG
CAGCAAAGGATCCCCGTCCTCTCCCGCAGGGTCCACACCAGCAATCCCCAAAGTCCGCATAAAAACCATTAAGACATCTT
CTGGGGAAATCAAGAGAACAGTGACCAGGGTATTGCCAGAAGTGGATCTTGACTCTGGAAAGAAACCTTCCGAGCAGACA
GCGTCCGTGATGGCCTCTGTGACATCCCTTCTGTCGTCTCCAGCATCAGCCGCCGTCCTTTCCTGTCCCCCCAGGGCGCC
TCTCCAGTCTGCGGTCGTGACCAATGCAGTTTCCCCTGCAGAGCTCACCCCCAAACAGGTCACAATCAAGCCTGTGGCTA
CTGCTTTCCTCCCGGTGTCTGCTGTGAAGACGGCAGGATCCCAAGTCATTAATTTGAAGCTCGCTAACAACACCACGGTG
AAAGCCACGGTCATATCTGCTGCCTCTGTCCAGAGTGCCAGCAGCGCCATCATTAAAGCTGCCAACGCCATCCAGCAGCA
AACTGTCGTGGTGCCGGCATCCAGCCTGGCCAATGCCAAACTCGTGCCAAAGACTGTGCACCTTGCCAACCTTAACCTTT
TGCCTCAGGGTGCCCAGGCCACCTCTGAACTCCGCCAAGTGCTAACCAAACCTCAGCAACAAATAAAGCAGGCAATAATC
AATGCAGCAGCCTCGCAACCCCCCAAAAAGGTGTCTCGAGTCCAGGTGGTGTCGTCCTTGCAGAGTTCTGTGGTGGAAGC
TTTCAACAAGGTGCTGAGCAGTGTCAATCCAGTCCCTGTTTACATCCCAAACCTCAGTCCTCCCGCCAATGCAGGGATCA
CGTTACCGACGCGTGGGTACAAGTGCTTGGAGTGTGGGGACTCCTTTGCACTTGAAAAGAGTCTGACCCAGCACTACGAC
AGACGGAGCGTGCGCATCGAAGTAACGTGCAACCATTGTACAAAGAACCTCGTTTTTTACAACAAATGCAGCCTCCTTTC
CCATGCCCGTGGGCATAAGGAGAAAGGGGTGGTAATGCAATGCTCCCACTTAATTTTAAAGCCAGTCCCAGCAGATCAAA
TGATAGTTTCTCCGTCAAGCAATACTTCCACTTCAACTTCCACTCTACAGAGCCCTGTGGGAGCTGGCACACACACTGTC
ACAAAAATTCAGTCTGGCATAACTGGGACAGTCATATCGGCTCCTTCAAGCACTCCCATCACCCCAGCCATGCCCCTAGA
TGAAGACCCCTCCAAACTGTGTAGACATAGTCTAAAATGTTTGGAGTGTAATGAAGTCTTCCAGGACGAGACATCACTGG
CTACACATTTCCAGCAGGCTGCAGATACGAGTGGACAAAAGACTTGCACTATCTGCCAGATGCTGCTTCCTAACCAGTGC
AGTTATGCATCACACCAGAGAATCCATCAGCACAAATCTCCCTACACCTGCCCTGAGTGTGGGGCCATCTGCAGGTCGGT
GCACTTCCAGACCCACGTCACCAAGAACTGTCTGCACTACACGAGGAGAGTTGGTTTTCGATGTGTGCATTGCAATGTTG
TGTACTCTGATGTGGCTGCTCTGAAGTCTCACATTCAAGGTTCTCACTGTGAAGTCTTCTACAAGTGTCTTATTTGTCCA
ATGGCGTTTAAGTCTGCCCCAAGCACACATTCCCACGCCTACACACAGCATCCTGGCATCAAGATAGGAGAACCAAAAAT
AATATATAAGTGTTCCATGTGCGACACTGTGTTCACCCTGCAAACCTTGCTGTATCGCCACTTTGACCAACACATGGAAA
ACCAGAAGGTGTCTGTTTTCAAGTGTCCAGACTGTTCTCTTTTATATGCACAGAAGCAACTTATGATGGACCATATCAAG
TCTATGCATGGAACATTGAAAAGTATTGAAGGGCCTCCAAACTTGGGTATAAACTTGCCTTTGAGCATTAAGCCTGCAAC
TCAAAATTCAGCAAATCAGAACAAAGAGGACACCAAATCCATGAATGGAAAG

Alignment

ORF - retro_ptro_1726 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.24 %
• Parental protein coverage: 75.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRKDGYNPAGNGLHNEFLTASSLDSYSKDGAKSLKGDVPASEVTSKDSTFSQFSPISSAEECGDDEKIKV
          G.KDG.NP.GNGLHN.FLTASSLDSYSKDGAKSLKGDVPASEVT.KDSTFSQFSPISSAEE..DDEKI.V
Retrocopy GEKDGHNPTGNGLHNGFLTASSLDSYSKDGAKSLKGDVPASEVTLKDSTFSQFSPISSAEEFDDDEKIEV

Parental  DDP-DKEDVQSSFRSNVLTGSAPQQDYDKLKAFGGENSSKTGLSPSGNMEKNKVVKREAEANSINLSVYE
          DDP.DKEDV.SSFRSNVLTGSAPQQDYDKLKA.GGENSSKTGLS.SGN.EKNKVVKRE.EANSINLSVYE
Retrocopy DDPPDKEDVRSSFRSNVLTGSAPQQDYDKLKALGGENSSKTGLSTSGNVEKNKVVKRETEANSINLSVYE

Parental  PFKVRKAEDKLKENSDNVLENRVLDGKLSSEKNDTCLPGTAPSKTKSSSKLSSCSSAIMALSAKKAASDS
          PFKVRKAEDKLKE.SD.VLENRVLDGK.SSEKNDT.LP..APSKTKSSSKLSSC..AI.ALSAKKAASDS
Retrocopy PFKVRKAEDKLKESSDKVLENRVLDGKPSSEKNDTSLPTVAPSKTKSSSKLSSCIAAIAALSAKKAASDS

Parental  CKEPVAKAGGSSLSLLKEVNDSPRATNKSPESQNLINGTKKPSLKQPDNPRSISSENSSKSSPSSPAGSA
          CKEPVA....SS..L.KEVNDSPRA..KSPESQNLI.GTKKPSLKQPD.PRSISSENSSK.SPSSPAGS.
Retrocopy CKEPVANSRESS-PLPKEVNDSPRAADKSPESQNLIDGTKKPSLKQPDSPRSISSENSSKGSPSSPAGST

Parental  PAIFKVRIKTIKMSSGEIKRTVTRVLPEVDLDSGKKSSEQTASVMASVTFLLSSPASAAILSSLLRAPLQ
          PAI.KVRIKTIK.SSGEIKRTVTRVLPEVDLDSGKK.SEQTASVMASVT.LLSSPASAA.LS...RAPLQ
Retrocopy PAIPKVRIKTIKTSSGEIKRTVTRVLPEVDLDSGKKPSEQTASVMASVTSLLSSPASAAVLSCPPRAPLQ

Parental  STVMTNAVSPAELTPKQVTIKPVATAFLPVSAVKTAGSRVINLKLANNTTVKATVISAASVQSASSAIIK
          S.V.TNAVSPAELTPKQVTIKPVATAFLPVSAVKTAGS.VINLKLANNTTVKATVISAASVQSASSAIIK
Retrocopy SAVVTNAVSPAELTPKQVTIKPVATAFLPVSAVKTAGSQVINLKLANNTTVKATVISAASVQSASSAIIK

Parental  AANAIQQQTVVVPAPSRANAKLVPKTVHLANINLLPQGAQATSELHQVLTKAQQQIKQAIINAAASQPPK
          AANAIQQQTVVVPA.S.ANAKLVPKTVHLAN.NLLPQGAQATSEL.QVLTK.QQQIKQAIINAAASQPPK
Retrocopy AANAIQQQTVVVPASSLANAKLVPKTVHLANLNLLPQGAQATSELRQVLTKPQQQIKQAIINAAASQPPK

Parental  KLSRVQVVSSLQSSVVEAFNKVLSSVNPVPVYIPNLSPPTNAGITLPTRGYKCLECGDSFAVEKSLTQHY
          K.SRVQVVSSLQSSVVEAFNKVLSSVNPVPVYIPNLSPP.NAGITLPTRGYKCLECGDSFA.EKSLTQHY
Retrocopy KVSRVQVVSSLQSSVVEAFNKVLSSVNPVPVYIPNLSPPANAGITLPTRGYKCLECGDSFALEKSLTQHY

Parental  DRQSMRIEVTCNHGTKNLIFYNKCSLLSHARGHKEKGVVIQCSHLILKPVPAGQMIVSPSSNTSTSTSTL
          DR.S.RIEVTCNH.TKNL.FYNKCSLLSHARGHKEKGVV.QCSHLILKPVPA.QMIVSPSSNTSTSTSTL
Retrocopy DRRSVRIEVTCNHCTKNLVFYNKCSLLSHARGHKEKGVVMQCSHLILKPVPADQMIVSPSSNTSTSTSTL

Parental  QSPVGAGTHTVTKIQSGITGTVISAPLSIPITPAMPLDEDPSKVCRHSLKCLECNEV-QYETSMATHFQQ
          QSPVGAGTHTVTKIQSGITGTVISAP.S.PITPAMPLDEDPSK.CRHSLKCLECNEV.Q.ETS.ATHFQQ
Retrocopy QSPVGAGTHTVTKIQSGITGTVISAPSSTPITPAMPLDEDPSKLCRHSLKCLECNEVFQDETSLATHFQQ

Parental  AADTSGQKTCTICQMLLPNQCSYASHQRIHQHKSLYTCPECGAICRSVHFQTHVTKNCLHYMRRGGFRCV
          AADTSGQKTCTICQMLLPNQCSYASHQRIHQHKS.YTCPECGAICRSVHFQTHVTKNCLHY.RR.GFRCV
Retrocopy AADTSGQKTCTICQMLLPNQCSYASHQRIHQHKSPYTCPECGAICRSVHFQTHVTKNCLHYTRRVGFRCV

Parental  HCNVVYSDVAALQSHIQGSHCEVFYKCPICPMACKSAPSTHSHTYTQHPGIKIGEPEIIYKCSMCDTVFT
          HCNVVYSDVAAL.SHIQGSHCEVFYKC.ICPMA.KSAPSTHSH.YTQHPGIKIGEP.IIYKCSMCDTVFT
Retrocopy HCNVVYSDVAALKSHIQGSHCEVFYKCLICPMAFKSAPSTHSHAYTQHPGIKIGEPKIIYKCSMCDTVFT

Parental  LQTLLYRHFDQHIENQKLSVFKCPDCYPLYAQKQLMMDHIKSTHGTLKSIEGPPNLGINLPLSIKPATQN
          LQTLLYRHFDQH.ENQK.SVFKCPDC..LYAQKQLMMDHIKS.HGTLKSIEGPPNLGINLPLSIKPATQN
Retrocopy LQTLLYRHFDQHMENQKVSVFKCPDCSLLYAQKQLMMDHIKSMHGTLKSIEGPPNLGINLPLSIKPATQN

Parental  SANQNKEDTKSLNGK
          SANQNKEDTKS.NGK
Retrocopy SANQNKEDTKSMNGK

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	17.16 RPM	0.32 RPM
SRP007412_cerebellum	53.38 RPM	0.14 RPM
SRP007412_heart	11.75 RPM	0.20 RPM
SRP007412_kidney	9.34 RPM	0.37 RPM
SRP007412_liver	3.57 RPM	0.10 RPM
SRP007412_testis	8.96 RPM	0.42 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_1726 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_1726 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_1726 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Pan troglodytes	ENSPTRG00000039047	1 retrocopy	retro_ptro_1726 ,
Vicugna pacos	ENSVPAG00000008243	2 retrocopies	retro_vpac_454, retro_vpac_635,