RetrogeneDB ID: retro_tsyr_1994

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_76190:2883..3421(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000003368
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ABHD17C
• Ensembl ID: ENSTSYG00000009403
• Aliases: None
• Description: abhydrolase domain containing 17C [Source:HGNC Symbol;Acc:26925]

Sequence

>retro_tsyr_1994
AGCCTGCACCTGAGCGAGCGCGCTGACGGGCAGTACTCGCAGCGCGAGCTGGACGCCATCGAGGTCTTCTTCTCGCGCAA
CGCCCGGAACAAGCGGCTGGGCTGCATGTTCTTGCGCTGCACGCCCTCCAGCCGCTACACGCTGCTCTTCTCGCGTGGCA
ACCCGTGGACCTGGGCCAGATGTGCAGCTTCCACATCGGCCTTGGCTCCTGCATCACCTGCAACATCTTCTCCTAGACTA
CTCGGGCTACGGCGTCAGCTGGGGCAAGCCCTCCGAGAAGAACCTCTACGCCGACATCGATGCTGCGTGGCAGGCGCCGG
GCACCCGATACGGCGTAAGTCCTGAGAACATCCTCCTCTACGGGCAGAGCACGGGGACTGTCCCTACAGTGGACTTGGCC
TCACGCTATGAGTGTGCAGCGGTAATTCTCCATTCCCCTCTGATGTCTGGTTTGCGCGTGGCTTTTCCAGATACCAGGAA
AACATACTGCTTTGATGCTTTTCCCAGCATTGACAAGATATCTAAGTCACCCTCTCCT

Alignment

ORF - retro_tsyr_1994 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.91 %
• Parental protein coverage: 67.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SLHLSERADWQYSQRELDAVEVFFSRTARDNRLGCMFVRCAPSSRYTLLFSHGNA-VDLGQMCSFYIGLG
          SLHLSERAD.QYSQRELDA.EVFFSR.AR..RLGCMF.RC.PSSRYTLLFS.GN..VDLGQMCSF.IGLG
Retrocopy SLHLSERADGQYSQRELDAIEVFFSRNARNKRLGCMFLRCTPSSRYTLLFSRGNP<VDLGQMCSFHIGLG

Parental  SRINCNIFS-YDYSGYGVSSGKPSEKNLYADIDAAWQALRTRYGVSPENIILYGQSIGTVPTVDLASRYE
          S.I.CNIFS..DYSGYGVS.GKPSEKNLYADIDAAWQA..TRYGVSPENI.LYGQS.GTVPTVDLASRYE
Retrocopy SCITCNIFS<LDYSGYGVSWGKPSEKNLYADIDAAWQAPGTRYGVSPENILLYGQSTGTVPTVDLASRYE

Parental  CAAVILHSPLMSGLRVAFPDTRKTYCFDAFPSIDKISKVTSP
          CAAVILHSPLMSGLRVAFPDTRKTYCFDAFPSIDKISK..SP
Retrocopy CAAVILHSPLMSGLRVAFPDTRKTYCFDAFPSIDKISKSPSP

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_1994 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000012683	2 retrocopies	retro_rnor_1713, retro_rnor_1714,
Tarsius syrichta	ENSTSYG00000009403	3 retrocopies	retro_tsyr_1518, retro_tsyr_1994 , retro_tsyr_2110,
Tursiops truncatus	ENSTTRG00000005787	1 retrocopy	retro_ttru_1580,