RetrogeneDB ID: retro_ptro_2448

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 6:80573172..80577414(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARHGAP21
• Ensembl ID: ENSPTRG00000002365
• Aliases: None
• Description: Rho GTPase activating protein 21 [Source:HGNC Symbol;Acc:23725]

Sequence

>retro_ptro_2448
CTTAGTGTTATGCCAAAATATGAAGACATTCTCCAAGTGGCATATTCTCAAGATGCCTACCTGAAAGGCAACGAAGCTTA
TAGTGGCAATGCCCGCAATATACCTGAACCTCCACCAATCTGCTATCCCTGGCTGTCATCTGCCCCATCAGCCATGGCAC
AGCCAGTTGAAATATCTCCTCCTGACTCATCATTGAGCAAACAGCAAACCAGTACACCAGTACTGACACAACCTGGTAGG
GTCTATAGAATGGAAATACAAGTGCCTCCATCACCAACAGATGTTGCAAAATCAAACACAGCAGTGTGTGTTTGCAATGA
AAGTGTAAGGACTGTCATTGTGCCTTCTGAGAAGGTTGTAGATTTGTTATCCAATAGAAACAACCATACACGTCCTTCAC
ATAGAACTGAAGAAGTGAGGTATGGCGTGAATGAGCAGACCTCTTTAAAAACAGTGTCCAGAACCACATCACCACCATTA
TCAATTCCCACCACTCATCTAATTCATCAGCCTGCAGGCTCCAGATCATTGGAACCTTCTGGAATTTTACTTAAATCTGG
AAATTACAGTGGACATTCTGATGGAATCTCAAGCAGCAGATCTCAAGCTGTGGAGGCTTCCTCTGTATCTGTTAATCACT
ATTCGCCAAATTCCCATCAGCACATAGACTGGAAAAACTATAAAACTTACAAAGAGTATATTGATAACAGATGATTGCAC
ATAGGTTGTCAGACAATACAAGAAAGATTAGATAGTTTAAGAGCAGCATCTCAAAGCACGATGGATTATAACCAGGTCGT
CCCCAACCGCACTACTTTGCAGGGACAACATCGAAGCACCTCTCATGATCGAGTGCCCCAGTCTGTCCAGATACGGCAAC
GCAGTGTGTCCCAAGAAAGACTGGAAGATTCTGTGCTAATGAAGTATTGTCCAAGAAGTGCATCTCAAGGAGCACTGACG
TCTCCATCTGTTAGTTTTAGTAATCATAGAACTCGTTCATGGGATTATATTGAGGAACAGGATGAAACCTTAGAAAATGT
CAATTCTGGAACTCCAATACCTGATTCCAATGGAGAGATAAAACAGACTTACAAGTGGAGTGGGTTTACTGAACAGGATG
ATAGACGAGGTATTTATGAAAGACCTAGGCAGCAAGAAATTCATAAATCTTTTCGAGGTTCCAATTTTGCTGTGGCTCCA
AGCTTTGTTAATTCTGATAACAGGCGAATGAGTGGTAGAGGAGTGGGATCTGTGTCGCAGTTTAAAAAAATTCCACCAGA
TCTAAAAACACTGCAGTCAAACAGAAATTTTCAGACTACTTGTGGAATGTCACTGCCTCAGTGTATTTCACAAGACAGGT
CACCTCTTGTGAAAGTCCGAAGTAATTCTCTGAAAGCTCCTTCCACGCATGTCACAAAACCATCATTTAGCCAGAAATCA
TTTGTTTCTATCAAAGACCAAAGACCAGTAAATCACTTGCATCAGAACAGTCTGTTGAATCAGCAGACATGGGTAAGGAC
TGACAGTGCCCCCAATCAGCAAGTGGAGACTGGGAAATCCCCCTCTTTATCTGGAGCCTCTGCCAAACCTGCCCCTCAGT
CGAGTGAAAACGCTGGTACTTCAGATTTAGAACTACCTGTCAGTCAAAGGAATCAAGACTTAAGTTTACAAGAGGCTGAA
ATTGAGCAATCAGATACTTTAGATAATAAAGAAGCTGTCATCCTAAGGGAAAAACCTCCATCTGGACGCCAGACACCGCA
GCCTTTAAGGCATCAGTCTTACATCTTGGCAGTAAACGACCAGGAGACCTGGTCAGACACTACCTGCTGGCTGCCCAATG
ATGCACGTCGAGAGGTCCACATAAAAAGAATGGAGGAAAGAAAAGCCTCGAGTACCAGTCCGCCTGGCGATTCTTTGACT
TCCATACCATTTATAGATGAACCAACTAGCCCTAGCATTGATCATGATATTGCACATATCCTTGCTTCTGCTGTTCTATC
AGCCTCTACCTTTCAGGTCCCCTCCATAGCAACAGTTCCTCCTAGCCTCACAACTTCAGCTCCATTAATTCGCCGTCAGC
TCTCACATGACCACGAATCTGTTGGCCCTCCTAGCCTGGATGCTCAGCCCAACTCAAAGACAGAAAGATCAAAATCATAT
GATGAGGGTCTGGATGATTACAGAGAAGATGCAAAATTGTCCTTTAAGCACGTATCTAGTCTGAAGGGAATCAAGATCGC
AGACAGCCAAAAGTCATCAGAAGACTCTGGGTCCAGAAAAGATTCTTCCTCAGAGGTCTTCAGTGATGCTGCCAAGGAAG
GGTGGCTCCATTTCCGACCCCTTGTCACCGATAAGGGCAAGCGAGTTGGTGGAAGTATTCAGCCATGGAAACAGATGTAT
GTTGTCCTTCGGGGTCATTCACTTTACCTGTACAAAGATAAAAGAGAGCAGACGACTCCGTCTGAGGAAGAGCAGCCCAT
CAGTGTTAATGCTTGCTTGATAGACATCTTTTACAGTGAGACCAAGAGGAAAAATGTGTTTCGACTCACCATGTCTGACT
GTGAATGCCTGTTTCAGGCTGAAGACATAGATGATATGTTAGCTTGGATCAAGACGATCCGGGAGAGCAGCAACCTAAAC
GAAGAGGACACTGGAGTCACTAACAGGGATCTAATTAGTCGAGCAATAAAAGAATACAACAATCTGATGAGCAAAGCAGA
ACAGTTGCCAAAAACACCTCGCCAGAGTCTCAGCATCAGGCAAACTTCGCTTGGTGCTAAATCAGAGCCAAAGACTCAAA
GCCCACACTCTCTGAAGGAAGAATCGGAAAGGAAACTTCTCAGTAAAGATGATACCAGTCCCCCAAAAGACAAAGGCACA
TGGAGAAAAGGCATTCCAAGTATCATGAGAAAGACATTTGAGAAAAAGCCAACTGCTACAGGAACTTTCGGCATCCGACT
AGATGACTGCCCACCAGCTCATACTAATCGGTATATTCCATTAATAGTTGACATATGTTGCAAATTAGTTGAAGAAAGAG
GTCTTGAATATACAGGTATTTACAGAGCTCCTGGAAATAATGCAGCCATCTCAAGTATGCAAGAAGAACTCAACAAGGGA
ATGGCTGATATTGATATACAAGATGATAAATGGTGAGATTTGAATGTGATAAGCAGTTTACTAAAATCCTTCTTCAGAAA
ACTCCCTGAGCCTCTCTTCACAAATGATAAATATGCTGATTTTATTGAAGCCAATCGTAAAGAAGATCCTCTAGATCGTC
TGAAAACATTAAAAAGACTAATTCACGATTTGCCTGAACATCATTATGAAACACTTAAGTTCCTTTCAGCTCATCTGAAG
ACAGTGGCAGAAAATTCAGAAAAAAATAAGATGGAACCAAGAAACCTAGCAATAGTGTTTGGTCCCACCCTTGTTCGAAC
ATCAGAAGACAACATCACCCACATGGTCACCCACATGCCTGACCAGTACAAGATCGTAGAAACGTTCATCTAGCACCATG
ACTGGTTTTTCACAGAAGAAGGTGCTGAAGAGCCTCTTACAACAGTGCAGGAGGAAAGCACAGTAGACTCTCAGCCAGTG
CCAAACATAGATCATTTACTCACCAACATTGGAAGGACAGGAGTCTCCCCAGGAGATGTATCAGATTCAGCTACTAGTGA
CTCAACAAAATCTAAGGGTTCTTGGGGATCTGGAAAGGGTCAGTATAGCAGGGAACTGCTTGTGTCCTCCATCTTTGCAG
CTGCTAGTCACAAGAGGAAGAAGCCAAAAGAAAAAGCACAGCCTAGCAGCTCAGAAGATGAACTGGACAATGTATTTTTT
AAGAAAGAAAATGTGGAACAGTGTCACAGTGATACTAAAGAGGAGTCCAAAAAAGAAAGTGAGACACTGGGCAGAAAACA
GAAGATCATCATTGCCAAAGAAAACAGCACTAGGAAAGACCCCAGCAGGACAAAAGATGAAAAGATATCACTAGGAAAAG
AGAGCACGCCTTCTGAAGAACCCTCACCACCACACAACTCAAAACACAACAAGTCACCAACTCTCAGCTGTCGCTTTGCC
ATCCTGAAAGAGAGCCCCAGGTCACTTCTGGCACAGAAGTCCTCCCACCTTGAAGAGACAGGCTCTGACTCTGGCACTTT
GCTCAGCACGTCTTCCCAGGCCTCCCTGGCAAGGTTTTCCATGAAGAAATCAACCAGTCCAGAAACGAAACAGCGAGTTT
TT

Alignment

ORF - retro_ptro_2448 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.04 %
• Parental protein coverage: 72.22 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LQVLQFTKDVTALAYSQDAYLKGNEAYSGNARNIPEPPPICYPWLPSAPSAMAQPVEISPPDSSLSKQQT
          L.V.....D....AYSQDAYLKGNEAYSGNARNIPEPPPICYPWL.SAPSAMAQPVEISPPDSSLSKQQT
Retrocopy LSVMPKYEDILQVAYSQDAYLKGNEAYSGNARNIPEPPPICYPWLSSAPSAMAQPVEISPPDSSLSKQQT

Parental  STPVLTQPGRAYRMEIQVPPSPTDVAKSNTAVCVCNESVRTVIVPSEKVVDLLSNRNNHTGPSHRTEEVR
          STPVLTQPGR.YRMEIQVPPSPTDVAKSNTAVCVCNESVRTVIVPSEKVVDLLSNRNNHT.PSHRTEEVR
Retrocopy STPVLTQPGRVYRMEIQVPPSPTDVAKSNTAVCVCNESVRTVIVPSEKVVDLLSNRNNHTRPSHRTEEVR

Parental  YGVNEQTSLKTVSRTTSPPLSIPTTHLIHQPAGSRSLEPSGILLKSGNYSGHSDGISSSRSQAVEAPSVS
          YGVNEQTSLKTVSRTTSPPLSIPTTHLIHQPAGSRSLEPSGILLKSGNYSGHSDGISSSRSQAVEA.SVS
Retrocopy YGVNEQTSLKTVSRTTSPPLSIPTTHLIHQPAGSRSLEPSGILLKSGNYSGHSDGISSSRSQAVEASSVS

Parental  VNHYSPNSHQHIDWKNYKTYKEYIDNRRLHIGCRTIQERLDSLRAASQSTTDYNQVVPNRTTLQGRRRST
          VNHYSPNSHQHIDWKNYKTYKEYIDNR.LHIGC.TIQERLDSLRAASQST.DYNQVVPNRTTLQG..RST
Retrocopy VNHYSPNSHQHIDWKNYKTYKEYIDNR*LHIGCQTIQERLDSLRAASQSTMDYNQVVPNRTTLQGQHRST

Parental  SHDRVPQSVQIRQRSVSQERLEDSVLMKYCPRSASQGALTSPSVSFSNHRTRSWDYIEGQDETLENVNSG
          SHDRVPQSVQIRQRSVSQERLEDSVLMKYCPRSASQGALTSPSVSFSNHRTRSWDYIE.QDETLENVNSG
Retrocopy SHDRVPQSVQIRQRSVSQERLEDSVLMKYCPRSASQGALTSPSVSFSNHRTRSWDYIEEQDETLENVNSG

Parental  TPIPDSNGEKKQTYKWSGFTEQDDRRGIYERPRQQEIHKSFRGSNFTVAPSVVNSDNRQMSGRGVGSVSQ
          TPIPDSNGE.KQTYKWSGFTEQDDRRGIYERPRQQEIHKSFRGSNF.VAPS.VNSDNR.MSGRGVGSVSQ
Retrocopy TPIPDSNGEIKQTYKWSGFTEQDDRRGIYERPRQQEIHKSFRGSNFAVAPSFVNSDNRRMSGRGVGSVSQ

Parental  FKKIPPDLKTLQSNRNFQTTCGMSVPRGISQDRSPLVKVRSNSLKAPSTHVTKPSFSQKSFVSIKDQRPV
          FKKIPPDLKTLQSNRNFQTTCGMS.P..ISQDRSPLVKVRSNSLKAPSTHVTKPSFSQKSFVSIKDQRPV
Retrocopy FKKIPPDLKTLQSNRNFQTTCGMSLPQCISQDRSPLVKVRSNSLKAPSTHVTKPSFSQKSFVSIKDQRPV

Parental  NHLHQNSLLNQQTWVRTDSAPDQQVETGKSPSLSGASAKPAPQSSENTGSSDLELPVSQRNQDLSLQEAE
          NHLHQNSLLNQQTWVRTDSAP.QQVETGKSPSLSGASAKPAPQSSEN.G.SDLELPVSQRNQDLSLQEAE
Retrocopy NHLHQNSLLNQQTWVRTDSAPNQQVETGKSPSLSGASAKPAPQSSENAGTSDLELPVSQRNQDLSLQEAE

Parental  IEQSDTLDNKEAVILREKPPSGRQTPQPLRHQSYILAVNDQETGSDTTCWLPNDARREVHIKRMEERKAS
          IEQSDTLDNKEAVILREKPPSGRQTPQPLRHQSYILAVNDQET.SDTTCWLPNDARREVHIKRMEERKAS
Retrocopy IEQSDTLDNKEAVILREKPPSGRQTPQPLRHQSYILAVNDQETWSDTTCWLPNDARREVHIKRMEERKAS

Parental  STSPPGDSLASIPFIDEPTSPSIDHDIAHIPASAVISASTSQVPSIATVPPSLTTSAPLIRRQLSHDHES
          STSPPGDSL.SIPFIDEPTSPSIDHDIAHI.ASAV.SAST.QVPSIATVPPSLTTSAPLIRRQLSHDHES
Retrocopy STSPPGDSLTSIPFIDEPTSPSIDHDIAHILASAVLSASTFQVPSIATVPPSLTTSAPLIRRQLSHDHES

Parental  VGPPSLDAQPNSKTERSKSYDEGLDDYREDAKLSFKHVSSLKGIKIADSQKSSEDSGSRKDSSSEVFSDA
          VGPPSLDAQPNSKTERSKSYDEGLDDYREDAKLSFKHVSSLKGIKIADSQKSSEDSGSRKDSSSEVFSDA
Retrocopy VGPPSLDAQPNSKTERSKSYDEGLDDYREDAKLSFKHVSSLKGIKIADSQKSSEDSGSRKDSSSEVFSDA

Parental  AKEGWLHFRPLVTDKGKRVGGSIRPWKQMYVVLRGHSLYLYKDKREQTTPSEEEQPISVNACLIDISYSE
          AKEGWLHFRPLVTDKGKRVGGSI.PWKQMYVVLRGHSLYLYKDKREQTTPSEEEQPISVNACLIDI.YSE
Retrocopy AKEGWLHFRPLVTDKGKRVGGSIQPWKQMYVVLRGHSLYLYKDKREQTTPSEEEQPISVNACLIDIFYSE

Parental  TKRKNVFRLTTSDCECLFQAEDRDDMLAWIKTIQESSNLNEEDTGVTNRDLISRRIKEYNNLMSKAEQLP
          TKRKNVFRLT.SDCECLFQAED.DDMLAWIKTI.ESSNLNEEDTGVTNRDLISR.IKEYNNLMSKAEQLP
Retrocopy TKRKNVFRLTMSDCECLFQAEDIDDMLAWIKTIRESSNLNEEDTGVTNRDLISRAIKEYNNLMSKAEQLP

Parental  KTPRQSLSIRQTLLGAKSEPKTQSPHSPKEESERKLLSKDDTSPPKDKGTWRKGIPSIMRKTFEKKPTAT
          KTPRQSLSIRQT.LGAKSEPKTQSPHS.KEESERKLLSKDDTSPPKDKGTWRKGIPSIMRKTFEKKPTAT
Retrocopy KTPRQSLSIRQTSLGAKSEPKTQSPHSLKEESERKLLSKDDTSPPKDKGTWRKGIPSIMRKTFEKKPTAT

Parental  GTFGVRLDDCPPAHTNRYIPLIVDICCKLVEERGLEYTGIYRVPGNNAAISSMQEELNKGMADIDIQDDK
          GTFG.RLDDCPPAHTNRYIPLIVDICCKLVEERGLEYTGIYR.PGNNAAISSMQEELNKGMADIDIQDDK
Retrocopy GTFGIRLDDCPPAHTNRYIPLIVDICCKLVEERGLEYTGIYRAPGNNAAISSMQEELNKGMADIDIQDDK

Parental  WRDLNVISSLLKSFFRKLPEPLFTNDKYADFIEANRKEDPLDRLKTLKRLIHDLPEHHYETLKFLSAHLK
          W.DLNVISSLLKSFFRKLPEPLFTNDKYADFIEANRKEDPLDRLKTLKRLIHDLPEHHYETLKFLSAHLK
Retrocopy W*DLNVISSLLKSFFRKLPEPLFTNDKYADFIEANRKEDPLDRLKTLKRLIHDLPEHHYETLKFLSAHLK

Parental  TVAENSEKNKMEPRNLAIVFGPTLVRTSEDNMTHMVTHMPDQYKIVETLIQHHDWFFTEEGAEEPLTTVQ
          TVAENSEKNKMEPRNLAIVFGPTLVRTSEDN.THMVTHMPDQYKIVET.I.HHDWFFTEEGAEEPLTTVQ
Retrocopy TVAENSEKNKMEPRNLAIVFGPTLVRTSEDNITHMVTHMPDQYKIVETFI*HHDWFFTEEGAEEPLTTVQ

Parental  EESTVDSQPVPNIDHLLTNIGRTGVSPGDVSDSATSDSTKSKGSWGSGKDQYSRELLVSSIFAAASRKRK
          EESTVDSQPVPNIDHLLTNIGRTGVSPGDVSDSATSDSTKSKGSWGSGK.QYSRELLVSSIFAAAS.KRK
Retrocopy EESTVDSQPVPNIDHLLTNIGRTGVSPGDVSDSATSDSTKSKGSWGSGKGQYSRELLVSSIFAAASHKRK

Parental  KPKEKAQPSSSEDELDNVFFKKENVEQCHNDTKEESKKESETLGRKQKIIIAKENSTRKDPSTTKDEKIS
          KPKEKAQPSSSEDELDNVFFKKENVEQCH.DTKEESKKESETLGRKQKIIIAKENSTRKDPS.TKDEKIS
Retrocopy KPKEKAQPSSSEDELDNVFFKKENVEQCHSDTKEESKKESETLGRKQKIIIAKENSTRKDPSRTKDEKIS

Parental  LGKESTPSEEPSPPHNSKHNKSPTLSCRFAILKESPRSLLAQKSSHLEETGSDSGTLLSTSSQASLARFS
          LGKESTPSEEPSPPHNSKHNKSPTLSCRFAILKESPRSLLAQKSSHLEETGSDSGTLLSTSSQASLARFS
Retrocopy LGKESTPSEEPSPPHNSKHNKSPTLSCRFAILKESPRSLLAQKSSHLEETGSDSGTLLSTSSQASLARFS

Parental  MKKSTSPETKHSEF
          MKKSTSPETK...F
Retrocopy MKKSTSPETKQRVF

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	1.81 RPM	273.30 RPM
SRP007412_cerebellum	0.54 RPM	310.88 RPM
SRP007412_heart	0.20 RPM	49.55 RPM
SRP007412_kidney	0.26 RPM	59.42 RPM
SRP007412_liver	0.13 RPM	39.51 RPM
SRP007412_testis	1.26 RPM	58.80 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_2448 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_2448 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_2448 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Pan troglodytes	ENSPTRG00000002365	1 retrocopy	retro_ptro_2448 ,
Pan troglodytes	ENSPTRG00000004204	4 retrocopies	retro_ptro_1641, retro_ptro_1692, retro_ptro_3083, retro_ptro_892,