RetrogeneDB ID: retro_crei_4

Retrocopy location

• Organism: Chlamydomonas reinhardtii
• Coordinates: DS496112:763658..764064(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: CHLREDRAFT_148885
• Aliases: None
• Description: None

Sequence

>retro_crei_4
CCCTCTGATGAGGCATTTGCAGGGTTGGACTTCATGCTGTCGCTGCATCAGGGGCAGCATGCTGAGAACATGCGCGTGGT
GAGGGGTTCAAGCCTGGTGACCGCGTACGATTGTTGGAGGGCACGGAGCTGTTCGACAAGGAGGTGGCCACCTATTCACA
GGACATTTTTACACCGTGACTCGGCAGAAGGGCTATAGGTTCGCCATGGAGGGCAAGCGACGCCTGCATAGCCCGTCGGA
AATGCTGTTGGTTCGTAAAGTGACTACAGGGTAGCAGGCGGGGCGCCAGGCAGAGGCAGCACAGGAGCAGCGCCAGGTGC
GGCGTGTTGCGCGTGCTCTTGCCACAACTCAGCAGCAGGCTACACGTGCTATTGAAGCTCAAGAGGCACCACCAGCTGCG
CCTGCA

Alignment

ORF - retro_crei_4 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.55 %
• Parental protein coverage: 73.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PGENDLAGVDFMLSLHKGQHAKDTRVV-SGFKPGDRVRLLEATGLFDKEMATYSQDF-FYTVTRQKGYRF
          P.....AG.DFMLSLH.GQHA...RVV..GFKPGDRVRLLE.T.LFDKE.ATYSQD..FYTVTRQKGYRF
Retrocopy PSDEAFAGLDFMLSLHQGQHAENMRVV<EGFKPGDRVRLLEGTELFDKEVATYSQDI<FYTVTRQKGYRF

Parental  AMEGKRRLHSPSEMLL-QQATRAIEAQEAPPAAPANKPAGKRGSRKREQARQLPSRPTVQLPAPSRGTA
          AMEGKRRLHSPSEMLL....T....A.....AA........R..R......Q...R......AP....A
Retrocopy AMEGKRRLHSPSEMLLVRKVTTG*QAGRQAEAAQEQRQV-RRVARALATTQQQATRAIEAQEAPPAAPA

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_4 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Chlamydomonas reinhardtii	CHLREDRAFT_148885	2 retrocopies	retro_crei_4 , retro_crei_5,