RetrogeneDB ID: retro_tsyr_889

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_230684:3..483(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000001291
• Aliases: None
• Status: KNOWN_PSEUDOGENE

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_889
CGTTCTGTGCACACCCCAGAAAATAGCAATGCCGTCGTGTGCCTGGACCTTGCAGCTTCCTGCAGAAAGTGTCTTTTGGA
CAGGGCTTATTTATTTAAACTTCTTGGTTTGAACAAGAAGACATATCAGAGCTGTTTTAAATCTTTTGAGTTTTTTGATG
GACCTGCATTCAAATATTGGAATAAGACAACTAGCTGTACAGTTTAGCTGTACTGAAGCAGTGAACATGATTTCGAAGAT
ACTGCAGAGTATGAATTCAGTCTTTCCCAGACACCGCGCAGAGATTTTGGCTTAGCCAGACCGCTTTTCACCACTACTAC
ATTGTTTTCATCATGCAAGATTTTAAAGCTGAAAGCGGATAAAAACAAAATGGCAGCCACAGCCAGTGTAAAAAAAGCCA
CATTTGATCAACTGTGTAAACAATTCGAGAAGATTGGACTGCAGGTTGACAGAGAACTTGAAGATTTAGCTATACCACCA

Alignment

ORF - retro_tsyr_889 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.93 %
• Parental protein coverage: 64.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RSVHTTETSNAVVCLDLAASCRKCLLDRAYLIKLSGLNKKMYQSCFKSFEC-LLGLNSNIGIRDLAVQFT
          RSVHT.E.SNAVVCLDLAASCRKCLLDRAYL.KL.GLNKK.YQSCFKSFE..L..L.SNIGIR.LAVQF.
Retrocopy RSVHTPENSNAVVCLDLAASCRKCLLDRAYLFKLLGLNKKTYQSCFKSFEF>LMDLHSNIGIRQLAVQFS

Parental  CTEAVNMASKMLQS-YESSLPQTQQVDLDLSRPLFTTAALLSACKILKLKVDKKKMVATSGVKKAIFDRL
          CTEAVNM.SK.LQS.YE.SL.QT...D..L.RPLFTT..L.S.CKILKLK.DK.KM.AT..VKKA.FD.L
Retrocopy CTEAVNMISKILQS<YEFSLSQTPRRDFGLARPLFTTTTLFSSCKILKLKADKNKMAATASVKKATFDQL

Parental  CKQLEKIGQQVDREPGDLAPPP
          CKQ.EKIG.QVDRE..DLA.PP
Retrocopy CKQFEKIGLQVDRELEDLAIPP

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_889 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 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,