RetrogeneDB ID: retro_tsyr_505

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_130019:63..1451(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARHGAP17
• Ensembl ID: ENSTSYG00000012109
• Aliases: None
• Description: Rho GTPase activating protein 17 [Source:HGNC Symbol;Acc:18239]

Sequence

>retro_tsyr_505
CAAGTTCTGAGCGAAGACTTTCTTCAGGTGGAGAAGCGTCTGGAGCTGGAAAAGCAAGTGTCTCACAGCACGCACAAAAA
GCTCACCGCATGTCTGCAGGGTCAGCAAGGGGCAGAGGCTGACAAGCGCTCCAAAAAGTTGCCTTTGACAACACAGGCTC
AGTATCTGATGGAGGGGTCAGCTATCCTGGGAGATGACACACTTCTTGGGAAGATGCTGAAATTCTGTGGAGAGACAGAA
GACAAACTGGCCCAGGAGCTGATACATTTTGAATTGCAAGTAGAGAGAGATGTGATTGAGCCTCTGTTTTTGCTGTCTGA
GGTGGAAATCCCAAATATCCAAAAGCAGAGGAAACACTTAGCCAAGCTGGTGCTGGACATGAATTCATCACGAATCAGGT
GGCAGCAGACTTTCAAGTCTTCAGGTTTGTCCAGCATCTTACAGCCTGCGGGTGCCAAAGCTGATGCCCTCAGGGAAGAA
ATAGAGGAGGCTGCCAACAGAGTGCAGATTTGCAGGGACCAGCTCTCAGCTAACATGTACAGTTTTGTGGCCAAAGAAAT
TGACTATGCAAACTACTTTCAAACGCTAACAGAAGTGCAAGCTGAACACCACAGGAAGTCCCTGACACTATTGCAAGCTG
TGTTGCCTCAGATCAAAGCACAACAGGAGGCTTGGGTGGAGAAGCTTTCCTTCAGGAAGCCCCTAGAGGAGCATCTCACC
GTCAGCGACCGGGAGATTGCCTTCCCTATCGAGGCGTGTGTGACCATGTGCTTGAATGTGGGATGCAAGAGAAGGGACTC
TTCCGAGTAGCTCCCTCTGCCGCCAAGCTGAAGAAGCTGAAAGCTGCCCTGGACTGCTGCGTGGTAGATGTGCAGGAATA
CTCGGCAGACCCCCATGCGATTGCAGGAGCTTTGAAATCTCACCTCCGAGAGTTGCTGGACCCTCTTATGACCTTTGAAC
TCTATGACGAGTGGATTCAGGCTTCCAATATCCAGGAACAAGATAAGAAACTTCAGGCTCTGTGGAATGCTTGTGAAAAA
TTGCCTAAGGCCAATCACAACGACATCAGGTACTTGATCAAATTTTTGTCCAAGCTGTCAGAATATCAAGATGTAAACAA
GATGACTCCCAGTAACATGGCAATTGTTTTAGGACCCAACCTCCTTTGGCCACAGGCAGAAGGGAACATTACGGAGATGA
TGACCACGGTTTCACTGCAGATTGTTGGGATCATTGAACCCATCATCTAGCATGCAGACTGGTTCTTCCCTGGGGAGATA
GAGTTCAACATTACAGGCAATTATGGGAATCCAGTGCATGTGAACCATAATGCCAACTATAGTTCAATGCCCTCCCCAGA
CATGGATCCTGCTGACCGGCGCCAGCCT

Alignment

ORF - retro_tsyr_505 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.53 %
• Parental protein coverage: 53.36 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EVLSEDLLQIERRLDTVRSMCHHSHKRLMACFQGQHGTDAERRHKKLPLTALAQNMQEASAQL-EDSLLG
          .VLSED.LQ.E.RL.......H..HK.L.AC.QGQ.G..A..R.KKLPLT..AQ...E.SA.L..D.LLG
Retrocopy QVLSEDFLQVEKRLELEKQVSHSTHKKLTACLQGQQGAEADKRSKKLPLTTQAQYLMEGSAILGDDTLLG

Parental  KMLETCGDAENQLALELSQHEVFVEKEIVDPLYSIAEVEVPNIQKQRKQLAKLVLDWDSVRARWNQAHKS
          KML..CG..E..LA.EL...E..VE.....PL....EVE.PNIQKQRK.LAKLVLD..S.R.RW.Q..KS
Retrocopy KMLKFCGETEDKLAQELIHFELQVERDVIEPLFLLSEVEIPNIQKQRKHLAKLVLDMNSSRIRWQQTFKS

Parental  SGAN--FQGLPSKIDTLKEEMDEAGNKVEQCKDQLAADMYNFMAKEGEYGKFFVTLLEAQADYHRKALAV
          SG.....Q....K.D.L.EE..EA.N.V..C.DQL.A.MY.F.AKE..Y...F.TL.E.QA..HRK.L..
Retrocopy SGLSSILQPAGAKADALREEIEEAANRVQICRDQLSANMYSFVAKEIDYANYFQTLTEVQAEHHRKSLTL

Parental  LEKALPEMRAHQDKWAEKPAFGTPLEEHLKRSGREIALPIEACVML-LLETGMKEEGLFRIGAGASKLKK
          L...LP...A.Q..W.EK..F..PLEEHL..S.REIA.PIEACV....LE.GM.E.GLFR....A.KLKK
Retrocopy LQAVLPQIKAQQEAWVEKLSFRKPLEEHLTVSDREIAFPIEACVTM<VLECGMQEKGLFRVAPSAAKLKK

Parental  LKAALDCSTSHLDEFYSDPHAVAGALKSYLRELPEPLMTFNLYEEWTQVASVQDQDKKLQDLWRTCQKLP
          LKAALDC......E...DPHA.AGALKS.LREL..PLMTF.LY.EW.Q....Q.QDKKLQ.LW..C.KLP
Retrocopy LKAALDCCVVDVQEYSADPHAIAGALKSHLRELLDPLMTFELYDEWIQASNIQEQDKKLQALWNACEKLP

Parental  SQNFVNFRYLIKFLAKLAQTSDVNKMTPSNIAIVLGPNLLWAKNEGTLAEMAAATSVHVVAVIEPIIQHA
          ..N....RYLIKFL.KL....DVNKMTPSN.AIVLGPNLLW...EG...EM....S...V..IEPII.HA
Retrocopy KANHNDIRYLIKFLSKLSEYQDVNKMTPSNMAIVLGPNLLWPQAEGNITEMMTTVSLQIVGIIEPII*HA

Parental  DWFFPEEVEFNVSEAFVPLATPNSNHSSHTGNDSDSGTLERKRP
          DWFFP.E.EFN...........N.N.........D.....R..P
Retrocopy DWFFPGEIEFNITGNYGNPVHVNHNANYSSMPSPDMDPADRRQP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_505 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Ictidomys tridecemlineatus	ENSSTOG00000024236	1 retrocopy	retro_itri_1804,
Tarsius syrichta	ENSTSYG00000012109	1 retrocopy	retro_tsyr_505 ,