RetrogeneDB ID: retro_shar_547

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL849887.1:415564..416064(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDAH1
• Ensembl ID: ENSSHAG00000013765
• Aliases: None
• Description: dimethylarginine dimethylaminohydrolase 1 [Source:HGNC Symbol;Acc:2715]

Sequence

>retro_shar_547
GTGAGTCAAGGGAATGGAGCATTAGAAATCCTTTAGCTCAACATAGTAGAAATGACAGATGAACATGCAGCCTTGGTTGG
TGGAGATGTTTAATTCACAGGCAGGAAATTTTTTGTGCATCTCTTCAGAAGGATGAATCAATGTGGAACAGAAATCCTGG
CTGATGCTTTCAGGATTAAGCTATTTCCACAGTACCAGTGGCAGATGCTCTGTATCTGAAAAATTTCCATAGCGTGGATG
GACCCAACTTGATTGCTGTGGGCTTCAGGGAACCTACATAAAAGCTTTCAAGATCATTCAGCAGGTGATTGACCACTGTT
ACAACAAACTGACAATGCTTAATGACATGGTCACAATCTGTGTGTATTTAATTATTCTGAACAAAGGGCTTGTCTTGTTG
CATCAAAGCCTGGGAAGAATACCTAGAGAGTGTCAAGGTATATGAAAAACTGAGGGACCACAGATAGATACCTGCCAGGA
ACACAGAGCTGGAAAAAATT

Alignment

ORF - retro_shar_547 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.35 %
• Parental protein coverage: 77.31 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VDMMKGTLENLQLNIVEMTDENATLDGGDVLFTGREFFVGLSKRTNQRGAEILADTFK-DYAVSTVPVSD
          V....G.LE.L.LNIVEMTDE.A.L.GGDV.FTGR.FFV.L..R.NQ.G.EILAD.F..D.A.STVPV.D
Retrocopy VSQGNGALEIL*LNIVEMTDEHAALVGGDV*FTGRKFFVHLFRRMNQCGTEILADAFR<D*AISTVPVAD

Parental  TLHLKSFCSMAGPNLIAIGSSEPA-QKALKIMQQMSDHRYDKLTVPDDVAANCVYLNIPNKGHVLLH-RA
          .L.LK.F.S..GPNLIA.G..EP...KA.KI.QQ..DH.Y.KLT...D....CVYL.I.NKG.VLLH..A
Retrocopy ALYLKNFHSVDGPNLIAVGFREPT<IKAFKIIQQVIDHCYNKLTMLNDMVTICVYLIILNKGLVLLH>KA

Parental  PEEYPESAKVFEKLKDHMLIPVTNTELEKV
          .EEY.ES.KV.EKL.DH..IP..NTELEK.
Retrocopy WEEYLESVKVYEKLRDHR*IPARNTELEKI

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST

Sarcophilus harrisii was not studied using EST data.

TSS

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab

retro_shar_547 was not experimentally validated.

Homology

Retrocopy orthology:

Sarcophilus harrisii 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.

---

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,