RetrogeneDB ID: retro_tsyr_662

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_1623:37861..38460(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC30A4
• Ensembl ID: ENSTSYG00000003785
• Aliases: None
• Description: solute carrier family 30 (zinc transporter), member 4 [Source:HGNC Symbol;Acc:11015]

Sequence

>retro_tsyr_662
GCCATGATACTCACCCTACTTGCTTTGTGGCTGTCATCAAAGTCACCAACGAAAAGATTCACTTTTGGAGTTCATCGATC
AATGGCTGTGTCAGCTATGATTAGAGTGCGGTTGGGGTATACGCTTCTGGGATGCCTCTGAGATGAAGCTGTGCAAAGAA
CCATCCATAGGAATTATGAAATACATGAAGATGCAATGCTCATCACTGCAGACATTGGCGTTGTAGTTAATAAAGGCTTT
CTATTGAACCAGTCTGGCCACCTTCATTCCCATTCCCACTCCCTGACTTCAAATTCTCCTTCCACAGGTTCTGGATGTGG
ACACAGGCATGGGCAGGATAGCCTGTCAGTGAGAACTGCATTTGTGCATGCTTTGGGGGATTTGGTACAGAGTGTCAGTG
TGCTGATAGCGGCAAACATCCCACGATTCAAGCCAGATACAAGATTGCTGATCCTGTCTGTCCATCTGTGTCTTCATTAC
TTGTGGCTTTCACAACATTTCATATCACGTGGGATACAGTGTTTATAATACGAGATGGTGCACCAAGTCATTTGAGTGCA
GACTAGATCAAAGAAGTTTGGATGGAAGTAGAAGATTTA

Alignment

ORF - retro_tsyr_662 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.38 %
• Parental protein coverage: 56.74 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AIILTLLALWLSSKSPTKRFTFGFHRLEVLSAMISVLLVYILMGFLLYEAVQRTIHMNYEINGDIMLITA
          A.ILTLLALWLSSKSPTKRFTFG.HR....SAMI.V.L.Y.L.G.L..EAVQRTIH.NYEI..D.MLITA
Retrocopy AMILTLLALWLSSKSPTKRFTFGVHRSMAVSAMIRVRLGYTLLGCL*DEAVQRTIHRNYEIHEDAMLITA

Parental  AVGVAVNVIMGFLLNQSGHHHSHSHSLPSNSPTTGSGCGHRHGQDSLAVRAAFVHALGDLVQSVGVLIAA
          ..GV.VN...GFLLNQSGH.HSHSHSL.SNSP.TGSGCGHRHGQDSL.VR.AFVHALGDLVQSV.VLIAA
Retrocopy DIGVVVN--KGFLLNQSGHLHSHSHSLTSNSPSTGSGCGHRHGQDSLSVRTAFVHALGDLVQSVSVLIAA

Parental  YIIRFKPE-YKIADPICTYVFSLLVAFTTFRIIWDTVVIILEGVPSHLNVDYIKEALMKIEDV
          .I.RFKP..YKIADP.C..V.SLLVAFTTF.I.WDTV.II..G.PSHL..D.IKE..M..ED.
Retrocopy NIPRFKPD<YKIADPVCPSVSSLLVAFTTFHITWDTVFIIRDGAPSHLSAD*IKEVWMEVEDL

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_662 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000003785	1 retrocopy	retro_tsyr_662 ,