RetrogeneDB ID: retro_crei_3

Retrocopy location

• Organism: Chlamydomonas reinhardtii
• Coordinates: BK000554:169743..170145(-)
• Located in intron of: DAA01471

Retrocopy information

• Ensembl ID: DAA00960
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: CHLREDRAFT_130212
• Aliases: None
• Description: None

Sequence

>retro_crei_3
ATGCCTACAATTCAACAATTAATTCGTTCTGCTCGAAAAAAAATCACAAAGAAAACAAAATCACCTGCTCTTAAATCTTG
TCCACAACGTCGTGGTATTTGTCTTCGTGTTTATACAGTTACACCAAAAAAACCAAACTCTGCACTTCGTAAAGTTGCTA
GGGTTCGTTTAACTACAGGATTTGAAGTAACAGCTTATATTCCAGGTGTTGGCCACAATTTACAAGAACACGCAGTAGTA
TTAGTACGTGGTGGTCGAGTTAAAGATTTACCTGGTGTACGTTATCACATTGTACGTGGTAGTTTAGATACAGCTGGTGT
TAAAAACCGTGTTCAAAGTCGTTCAAAATATGGTGTTAAAATGGGGTCAAAAACAGCTGCAAAAACAGCAGGTAAAAAAT
AA

Alignment

ORF - retro_crei_3 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.35 %
• Parental protein coverage: 91.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATVGQLLGGARKVAKTRKCRIRQLDGSPFKKGICLRVYTTSPKKPNSANRKLAKVQLSNGLKALAYIPG
          M.T..QL...ARK...T.K.....L...P...GICLRVYT..PKKPNSA.RK.A.V.L..G....AYIPG
Retrocopy MPTIQQLIRSARKKI-TKKTKSPALKSCPQRRGICLRVYTVTPKKPNSALRKVARVRLTTGFEVTAYIPG

Parental  EGHNLQEHSMVLVSGNGVRDLPGVKLRIVRGRYDCAGVKDRKKSRSRYGTKKPKAT
          .GHNLQEH..VLV.G..V.DLPGV...IVRG..D.AGVK.R..SRS.YG.K....T
Retrocopy VGHNLQEHAVVLVRGGRVKDLPGVRYHIVRGSLDTAGVKNRVQSRSKYGVKMGSKT

Legend:

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

Expression

RNA-Seq

Chlamydomonas reinhardtii was not studied using RNA-Seq expression data.

ChIP-Seq

Chlamydomonas reinhardtii was not studied using ChIP-Seq data.

EST

Chlamydomonas reinhardtii was not studied using EST data.

TSS

Chlamydomonas reinhardtii was not studied using FANTOM5 data.

Lab

retro_crei_3 was not experimentally validated.

Homology

Retrocopy orthology:

Chlamydomonas reinhardtii 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
Chlamydomonas reinhardtii	CHLREDRAFT_130212	1 retrocopy	retro_crei_3 ,