RetrogeneDB ID: retro_cele_2

Retrocopy location

• Organism: Caenorhabditis elegans
• Coordinates: III:11156608..11157199(-)
• Located in intron of: Y47D3A.4

Retrocopy information

• Ensembl ID: Y47D3A.31
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: T28H11.7
• Ensembl ID: T28H11.7
• Aliases: None
• Description: Protein T28H11.7 [Source:RefSeq peptide;Acc:NP_500703]

Sequence

>retro_cele_2
ATGTTCAGTCGACTAAAGCAAAAAGTGAAAGAAAAGACGGGCAGAAGCAAGGCGACAGTGCTTCCCGCCGAAATCGACGA
GGCGTTGATCTACTTCAAATCTCTGAAGCCCCGCGTCCAGGATCTCTACAAGCACATGGCAAATCTGAACGACGTGGCAA
ATTGGCAAGTGAAAGCCAACTTTTCAGGCCCACTGGAGAACTATGCTCTGCTCGGAGATCGTATCAACGTGCAACCGTTC
ATCAATTGTGTCGACACGCGGATGGAGGCAGAAGTCGAGTCGATGGATAAGGTGCTGGCGATTTGTGAGCGGTACAAGGC
GTTCACACAGAACGAGAGTAAGCTTCACACAAATACAATTGCCAATTTGAATAAGACACGTCTCGATATGGATAGTGCTG
CGAACAAGTACGCCAGCAACGACACTGACGTCAATCGGACTCGGTTTGATGATGCCACTCGTGAGTTTGAGGTGGCTTGT
GATCGGATGCGTGAGTTGGCGATAAGTATTCAGACAATTGAGGAGACTCATTCCATGTGGCAAGATGAATTGATGCGGGA
GATAAAGGCCGGAATGAGGAAACCGAATTGA

Alignment

ORF - retro_cele_2 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.01 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MFGRLKQKVKEKTGRAKATTLPAEVDDAMGYFKNLTPRVKDLHKSMTNLEDISKWQKKASFSGTLENYSR
          MF.RLKQKVKEKTGR.KAT.LPAE.D.A..YFK.L.PRV.DL.K.M.NL.D...WQ.KA.FSG.LENY..
Retrocopy MFSRLKQKVKEKTGRSKATVLPAEIDEALIYFKSLKPRVQDLYKHMANLNDVANWQVKANFSGPLENYAL

Parental  LGDKINVKPFMDAVDARMGAEADAVKGVLAICEKYKSFYQNEGKLHADSIANLNRTRLDMDSAADKYANN
          LGD.INV.PF...VD.RM.AE......VLAICE.YK.F.QNE.KLH...IANLN.TRLDMDSAA.KYA.N
Retrocopy LGDRINVQPFINCVDTRMEAEVESMDKVLAICERYKAFTQNESKLHTNTIANLNKTRLDMDSAANKYASN

Parental  ETEVNKTRLDNSTTEFEVACERMRELANGIKTIESNHSSWQDGLMKEIKVALRK
          .T.VN.TR.D..T.EFEVAC.RMRELA..I.TIE..HS.WQD.LM.EIK...RK
Retrocopy DTDVNRTRFDDATREFEVACDRMRELAISIQTIEETHSMWQDELMREIKAGMRK

Legend:

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

Expression

RNA-Seq

Caenorhabditis elegans was not studied using RNA-Seq expression data.

ChIP-Seq

Caenorhabditis elegans was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cele_2 retrocopy.

TSS

Caenorhabditis elegans was not studied using FANTOM5 data.

Lab

retro_cele_2 was not experimentally validated.

Homology

Retrocopy orthology:

Caenorhabditis elegans 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
Caenorhabditis elegans	T28H11.7	1 retrocopy	retro_cele_2 ,