RetrogeneDB ID: retro_crei_10

Retrocopy location

• Organism: Chlamydomonas reinhardtii
• Coordinates: DS496828:3000..3588(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: CHLREDRAFT_152892
• Aliases: None
• Description: None

Sequence

>retro_crei_10
GCAAGCGAATTGCAGGCCACGATCCGGGCAATGGTGCAGCCGGGCAAGGGATTGCTCGCCGCCGATGAGAGCGGCCCGAC
CATCGCCAAGCGCTTCACCACGATCGGCGTGGAATCGAACGAAGAGAACCGCCGCGCGTGGCGCAGCCTGTTGCTGTCCA
CACCAGGGCTTGGCGCGCATATCAGCGGTGTGATCCTGTATGAGGAAACGCTGGGCCAGCGCGCCGACGACGGCACGCCG
CTGCCCGAGCTTTGCGCGCGCCAGGGCATCGTGCCCGGCATCAAGGTGGACAAGGGAAAGGTTCCACTCGTGAATGCGCC
CGGTGACGAGATCACCGAAGGTCTGGACGGACTGCCAAAGCGACTGGAGGCCTACCGCCAGCAAGGCGCGCGCTTTGCAA
AGTGGCGCGCGGTGTTCAACGTGTCGGACACGCTGCCGAGCGCGCTGGCGGTGCAGGCCAATGCGCAGGTGCTCGCCGCG
TATGCGGCAATCTGCCAGGCGTCAGGCATCGTGCCGATCGTGGAACCCGAGGTGCTGATGGATGGCGATCATGGGCTGGC
GCGCTCCGCTGCGGTGACGGAGCGCGTG

Alignment

ORF - retro_crei_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.54 %
• Parental protein coverage: 50.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AEELKKTAAYISQKGKGILASDESNATTGKRLESVGVENTEDNRRAWRELLYTAPGLGQYISGAIMFEET
          A.EL..T.....Q.GKG.LA.DES..T..KR....GVE..E.NRRAWR.LL...PGLG..ISG.I..EET
Retrocopy ASELQATIRAMVQPGKGLLAADESGPTIAKRFTTIGVESNEENRRAWRSLLLSTPGLGAHISGVILYEET

Parental  LYQKARDGRQFVDILLAQGIYPGIKVDTGLQILPGDKGETTTQGLDGLADRCKAYRKQGARFAKWRAVVK
          L.Q.A.DG.........QGI.PGIKVD.G...L....G...T.GLDGL..R..AYR.QGARFAKWRAV..
Retrocopy LGQRADDGTPLPELCARQGIVPGIKVDKGKVPLVNAPGDEITEGLDGLPKRLEAYRQQGARFAKWRAVFN

Parental  IGEAGCPSTTAVLENAHGLARYAQICQENGLVPIVEPEVTLGPGDYSIEETAFWSERV
          ......PS..AV..NA..LA.YA.ICQ..G.VPIVEPEV.L..GD......A...ERV
Retrocopy VSDT-LPSALAVQANAQVLAAYAAICQASGIVPIVEPEV-LMDGDHGLARSAAVTERV

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_10 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_152892	1 retrocopy	retro_crei_10 ,