RetrogeneDB ID: retro_tsyr_2029

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_80746:5462..6116(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDAH1
• Ensembl ID: ENSTSYG00000013756
• Aliases: None
• Description: dimethylarginine dimethylaminohydrolase 1 [Source:HGNC Symbol;Acc:2715]

Sequence

>retro_tsyr_2029
GCCGACGAGAGCCTCCCGGGCTGCGTGTTCGTGGAGGACGTGGCCGTGGTGTGCGAGGAGACGGCCCTGATCACCCGACC
GGGGCGCCCAGCCGGAGGAAGGCGGTTGACAGGATGAAAGAAGCATTAGAAAAACTTCAGCTCCATATAGTAGACATGAA
AGATGAAAATGCAACCTTAGATGGTGGAGATGTCTTATTCACAGGCAGAGAATTGTTTGTGGGCCTTTCCAAACGGACAG
ATCAACGAGGTGTGAAATCTTGGCTGATACTTTTAAGGACTATGCGGTCTCCACAGTCCCTGCGGCCGACGCTTTGCATT
TGAAGAGCTTCCGCAGTATGGCTGGGCCTAGCCTGATCGCAACTGGGTCTAGTGAACCTGCCCAGAAGGCCTCAAGATCA
TGCAACGGATGAGTGACTACCGCTGTGACAAACTCACCGTACCTGATGACACAGCAGCAAACTGTAAACACCTAAACATC
CCCAGCAAAGGTCACGTCTTGCTGCACCAAACCCCAGAAGAGTATCCAGAAAGTGCAAAGGTTTATGAGAAACTGAAGGG
CCATATGCTGATCCCTGTGAGCAGTTCTGAGCCGGAAAAGGTGGACGGGCTGCTCACCTGCTGCTCAGTTTTAATTAACA
AGAAGATAGACTCC

Alignment

ORF - retro_tsyr_2029 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.14 %
• Parental protein coverage: 77.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ADESLPGCVFVEHVAVVC-EETALTT-RGAPSRRKAVDMMKEALEKLQLNIVEMKDENATLDGGDVLFTG
          ADESLPGCVFVE.VAVVC.E....T...GAPSRRKAVD.MKEALEKLQL.IV.MKDENATLDGGDVLFTG
Retrocopy ADESLPGCVFVEDVAVVCEETALITR<TGAPSRRKAVDRMKEALEKLQLHIVDMKDENATLDGGDVLFTG

Parental  REFFVGLSKRTNQRGA-EILADTFKDYAVSTVPVADSLHLKSFCSMAGPNLIAIGSSEPAQKA-LKIMQQ
          RE.FVGLSKRT.QRG..EILADTFKDYAVSTVP.AD.LHLKSF.SMAGP.LIA.GSSEPAQKA.LKIMQ.
Retrocopy RELFVGLSKRTDQRGV<EILADTFKDYAVSTVPAADALHLKSFRSMAGPSLIATGSSEPAQKA<LKIMQR

Parental  MSDHRYDKLTVPDDTAANCIYLNIPSKGHVLLHRTLEEYPESAKVYEKLKDHMLIPVSNSELEKVDGLLT
          MSD.R.DKLTVPDDTAANC..LNIPSKGHVLLH.T.EEYPESAKVYEKLK.HMLIPVS.SE.EKVDGLLT
Retrocopy MSDYRCDKLTVPDDTAANCKHLNIPSKGHVLLHQTPEEYPESAKVYEKLKGHMLIPVSSSEPEKVDGLLT

Parental  CCSVFINKKIDS
          CCSV.INKKIDS
Retrocopy CCSVLINKKIDS

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_2029 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000013765	1 retrocopy	retro_shar_547,
Tarsius syrichta	ENSTSYG00000013756	2 retrocopies	retro_tsyr_1523, retro_tsyr_2029 ,