RetrogeneDB ID: retro_tsyr_1294

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_3844:40410..41093(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORC6
• Ensembl ID: ENSTSYG00000005205
• Aliases: None
• Description: origin recognition complex, subunit 6 [Source:HGNC Symbol;Acc:17151]

Sequence

>retro_tsyr_1294
GAGGAGTACTTGTGACTGTCCCAGGTGAAGTGTGTTGGCCTGACTGCACACACCACAGAAACTAACAATGCTGTCATGTG
CCTGGACCTTTCAGCTTCCTGCATGAAGTGCCCCTTGGACAGGTTTATTTAATTAAACTTTCTGGTTTGAACAAGATGTA
TCAAAGCTATATTAAATCTTCTGAGTGTTTACTGGGCCTGAATTTGAATATTGGAATAAGAGACCTAGCTGTACAGTTTA
GTTGTACAGAAGCAGTGAACGTGGCTTCAAAGATACTACAGAGCTATGAGTCCAGTCTTCCCCAGACACAGCAGATAGAC
CTTGACTTATCCAGGCAGCTTTTTACCACTCCTGCACTGCTTTCAGCGTGCAAGATTCCAAAACTGAAAATGGATAAAAA
CAAAATGGTAGTAGCTACATCTGGTGTAAAAATAGCCATATTTGATTGACTGTGTAAACAATTGGAGAAGATTGGACAGC
AGGTTGGCAGAGAACCTAGAGATTTAGCTACACTACCACGGAAGAAAAAGAAGATAATAGTTGAATGTCCAGCAAAGGAT
ATAGAGAAGGGAATAGAGATCCCACATAAACCACAGGAAGACGAAGATGTGACACAGAATTATGAAGAATGGAAAAGACA
AATTTTGGAAAATGTTGCCAATGCTCAAAAGACTGCAGCTGAA

Alignment

ORF - retro_tsyr_1294 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.0 %
• Parental protein coverage: 91.53 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EESLRLSQVKCVGRSVHTTETSNAVVCLDLAASCRKCLLDR-AYLIKLSGLNKKMYQSCFKSFECLLGLN
          EE.L.LSQVKCVG...HTTET.NAV.CLDL.ASC.KC.LDR..YLIKLSGLNK.MYQS..KS.ECLLGLN
Retrocopy EEYL*LSQVKCVGLTAHTTETNNAVMCLDLSASCMKCPLDR<VYLIKLSGLNK-MYQSYIKSSECLLGLN

Parental  SNIGIRDLAVQFTCTEAVNMASKMLQSYESSLPQTQQVDLDLSRPLFTTAALLSACKILKLKVDKKKM-V
          .NIGIRDLAVQF.CTEAVN.ASK.LQSYESSLPQTQQ.DLDLSR.LFTT.ALLSACKI.KLK.DK.KM.V
Retrocopy LNIGIRDLAVQFSCTEAVNVASKILQSYESSLPQTQQIDLDLSRQLFTTPALLSACKIPKLKMDKNKMVV

Parental  ATSGVKKAIFDRLCKQLEKIGQQVDREPGDLAPPPWKKKKIVVECPAMEIEKGV-IPHKPQEDEDVTQDY
          ATSGVK.AIFD.LCKQLEKIGQQV.REP.DLA..P.KKKKI.VECPA..IEKG..IPHKPQEDEDVTQ.Y
Retrocopy ATSGVKIAIFD*LCKQLEKIGQQVGREPRDLATLPRKKKKIIVECPAKDIEKGIEIPHKPQEDEDVTQNY

Parental  EKWKKQILENALNAQKTTPE
          E.WK.QILEN..NAQKT..E
Retrocopy EEWKRQILENVANAQKTAAE

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_1294 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002944	1 retrocopy	retro_chof_2302,
Dasypus novemcinctus	ENSDNOG00000010859	1 retrocopy	retro_dnov_838,
Erinaceus europaeus	ENSEEUG00000012122	1 retrocopy	retro_eeur_489,
Otolemur garnettii	ENSOGAG00000000688	1 retrocopy	retro_ogar_1426,
Sarcophilus harrisii	ENSSHAG00000004207	2 retrocopies	retro_shar_211, retro_shar_759,
Tupaia belangeri	ENSTBEG00000000278	1 retrocopy	retro_tbel_3089,
Tarsius syrichta	ENSTSYG00000005205	2 retrocopies	retro_tsyr_1294 , retro_tsyr_889,
Tursiops truncatus	ENSTTRG00000013294	1 retrocopy	retro_ttru_1528,