RetrogeneDB ID:

retro_tcac_28

Retrocopy
location
Organism:Cacao (Theobroma cacao)
Coordinates:7:1762538..1762877(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:TCM_030875
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:TCM_046859
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_tcac_28
ATGGTTGATATAGGCAGCCAGATCCCCACTACTTTCGATCCATTCGCCGAGGCTGAGGAATTTGGTGGCACTGGAACCAA
GGAGTATGTGCATATACGAATCCAACAGAGGAATGGAAAGAAAAGCTTGACAACTGTTCAAGGGCTGAAACAGGATTTGA
GCTACGAGAAAATTCTCAAGTGTCTCAAGAAGGACTTCTGCTGTAATGGGAATGTCGTGAATGACAAAGAGCTTGGCAAA
ATCATTCAGCTCCAAGGTGATCAGCGCAAAAACGTGTCCCAGTTCCTTGTTAATGCTGGCATCGTGAAGAAGGATCAAAT
CAAGATTCATGGTTTCTAG

ORF - retro_tcac_28 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.11 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSDLDVQIPTAFDPFADANAEDSGAGAKEYVHIRIQQRNGRKSLTTVQGLKKEFSYNKILKDLKKVFCCN
M.D...QIPT.FDPFA.A..E..G.G.KEYVHIRIQQRNG.KSLTTVQGLK...SY.KILK.LKK.FCCN
RetrocopyMVDIGSQIPTTFDPFAEAE-EFGGTGTKEYVHIRIQQRNGKKSLTTVQGLKQDLSYEKILKCLKKDFCCN
ParentalGTVVQDPELGQVIQLQGDQRKNVSTFLVQAGIVKKDNIKIHGF
G.VV.D.ELG..IQLQGDQRKNVS.FLV.AGIVKKD.IKIHGF
RetrocopyGNVVNDKELGKIIQLQGDQRKNVSQFLVNAGIVKKDQIKIHGF

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






Theobroma cacao was not studied using RNA-Seq expression data.
Theobroma cacao was not studied using ChIP-Seq data.
Theobroma cacao was not studied using EST data.
Theobroma cacao was not studied using FANTOM5 data.
retro_tcac_28 was not experimentally validated.

Retrocopy orthology:
Theobroma cacao 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Theobroma cacao TCM_046859 1 retrocopy
retro_tcac_28 ,



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