RetrogeneDB ID: retro_tsyr_671

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_16577:1685..2033(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CKLF
• Ensembl ID: ENSTSYG00000014768
• Aliases: None
• Description: chemokine-like factor [Source:HGNC Symbol;Acc:13253]

Sequence

>retro_tsyr_671
ATCATCGCACAAGCCCCTGAACCGTATTTTGTTATCACGGGATTTGAAGTCACTGTTATTTTCTTTTGCTTAATGTTATA
TATGCTCAGACTTGATCGATTAATGTAGTGGCTATTTTGGCCTTTGCTTGATATTATCAACTCAGTGGTAACAACAGTAT
TTATGGTCATTGTATCAGTGTTAGCACTGATACCAGAAACCACAACATCAACAGTCCTTGGAGGGGCATTTGGACTCGTT
ACAGCACTGTGATGTCTTGCTGATGGCGCCCTTATTTACTGGAAACTTCTCTTCAATCCAAGTGGTCCTTTTCAGAAAAA
GTCTGTTCATGAGAAAAAAGAAGTTTTG

Alignment

ORF - retro_tsyr_671 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.07 %
• Parental protein coverage: 76.32 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IIAQAPEPYIVITGFEVTVIFFFIMLYILRLDRLMKCLFWPLLDIINSLVTTVFMVIVSVLALIPETTTL
          IIAQAPEPY.VITGFEVTVIFF..MLY.LRLDRLM..LFWPLLDIINS.VTTVFMVIVSVLALIPETTT.
Retrocopy IIAQAPEPYFVITGFEVTVIFFCLMLYMLRLDRLM*WLFWPLLDIINSVVTTVFMVIVSVLALIPETTTS

Parental  TVLGGAFGLITAVCCLADGVLIYRKLLFNPSGPYQKKPVHEKKEVL
          TVLGGAFGL.TA..CLADG.LIY.KLLFNPSGP.QKK.VHEKKEVL
Retrocopy TVLGGAFGLVTAL*CLADGALIYWKLLFNPSGPFQKKSVHEKKEVL

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_671 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Pteropus vampyrus	ENSPVAG00000000188	1 retrocopy	retro_pvam_1009,
Sarcophilus harrisii	ENSSHAG00000000837	1 retrocopy	retro_shar_269,
Tarsius syrichta	ENSTSYG00000014768	1 retrocopy	retro_tsyr_671 ,