RetrogeneDB ID: retro_tsyr_1001

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_27223:1095..1759(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM184C
• Ensembl ID: ENSTSYG00000005633
• Aliases: None
• Description: transmembrane protein 184C [Source:HGNC Symbol;Acc:25587]

Sequence

>retro_tsyr_1001
CTTACAAATTATCTAACTAACCGGTATCCAAATCTGGTATTAATCCTTGAAGCCAAAGATCAGCAGAAACATTTCCCTCC
TTTATGTTGCTGTCCACCATGGGCTATGGGAGAAGTATTGCTGTTTAGGTGCAAACTAGGAGTATTGCAGTATACAGTTG
TCAGACCATTCACCACCATCGTTGCTTAATCTGTGAGCTGGTTGGTGTCTATGATGAAGGAAACTTTAGCTTTTCAAATG
CTTGGACTTACTTGGTTATAATAAACAATATGTCACAGTTGTTTGCCATGTATTGTCTCCTGCTGTTTTATAAAGTTCTA
AAGGAAGAACTGAGTCCAATCCAACCTGTTGGCAAATTTCTGTGTGTCAAGCTGGTGGGTTTTGTTTCCTTTTGGCAAGC
AGTAGTTATTGCTTTGTTGGTAAAAGTTGGCGTTATTTCTGAAAAGTATACATGGGAATGGCAAACTGTTGAAGCTGTGG
CCACAGGACTCCAGGACTTTATAATCTGTATTGAGATGTTTCTTGCTGCTATTGCTCATCACTACACTTTCTCATATAAA
CTATACACTCAAGAAGTAGAAGAGGGCTCATGTTTGAGTCCTTTCTTGCCATGTACAATGTTTCAGATATTAGAGATGAT
ATTTCTGAACAAGTAAGGCATGTT

Alignment

ORF - retro_tsyr_1001 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.09 %
• Parental protein coverage: 53.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LTNYLTNRYPNLVLILEAKDQQKHFPPLCCCPPWAMGEVLLFRCKTGVLQYTVVRPFTTIVA-LICELVG
          LTNYLTNRYPNLVLILEAKDQQKHFPPLCCCPPWAMGEVLLFRCK.GVLQYTVVRPFTTIVA.LICELVG
Retrocopy LTNYLTNRYPNLVLILEAKDQQKHFPPLCCCPPWAMGEVLLFRCKLGVLQYTVVRPFTTIVA<LICELVG

Parental  VYDEGNFSFSNAWTYLVIINNMSQLFAMYCLLLFYKVLKEELSPIQPVGKFLCVKLVVFVSFWQAVVIAL
          VYDEGNFSFSNAWTYLVIINNMSQLFAMYCLLLFYKVLKEELSPIQPVGKFLCVKLV.FVSFWQAVVIAL
Retrocopy VYDEGNFSFSNAWTYLVIINNMSQLFAMYCLLLFYKVLKEELSPIQPVGKFLCVKLVGFVSFWQAVVIAL

Parental  LVKVGVISEKHTWEWQTVEAVATGLQDFIICIEMFLAAIAHHYTFSYKPYVQEAEEGSC-FDSFLAMWDV
          LVKVGVISEK.TWEWQTVEAVATGLQDFIICIEMFLAAIAHHYTFSYK.Y.QE.EEGSC.F.SFLAM..V
Retrocopy LVKVGVISEKYTWEWQTVEAVATGLQDFIICIEMFLAAIAHHYTFSYKLYTQEVEEGSC<FESFLAMYNV

Parental  SDIRDDISEQVRHV
          SDIRDDISEQVRHV
Retrocopy SDIRDDISEQVRHV

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_1001 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002418	1 retrocopy	retro_cjac_2276,
Felis catus	ENSFCAG00000015410	2 retrocopies	retro_fcat_1929, retro_fcat_755,
Homo sapiens	ENSG00000164168	1 retrocopy	retro_hsap_4870,
Macaca mulatta	ENSMMUG00000004977	1 retrocopy	retro_mmul_2611,
Otolemur garnettii	ENSOGAG00000015819	1 retrocopy	retro_ogar_3118,
Tarsius syrichta	ENSTSYG00000005633	1 retrocopy	retro_tsyr_1001 ,