RetrogeneDB ID: retro_etel_244

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4146:25103..25689(-)
• Located in intron of: ENSETEG00000015677

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM210A
• Ensembl ID: ENSETEG00000007826
• Aliases: None
• Description: family with sequence similarity 210, member A [Source:HGNC Symbol;Acc:28346]

Sequence

>retro_etel_244
CTTGGTGTTCTTCACTTTAACAATGGGAGCAAGATTATTTACCCAAGAGAGTTGCATCATCCAATGCCCCACCCCAAGGA
ACTCCCACAGGAAAAAAGGAAGAACTTTATCCATTACAAGACAAACTATTAGTCTGTATCAGTGATTTAAGAAAACATTT
AGCTCGTATGGCAAGGTTTGGATTCCAGTATACCTAATAACTTCTGGTGTTTCGTTTGGGGCATTTTATTATGCAGCCAT
AAAAGGAGTGAATGTCGTCCCTTTTCTAGAGCTCACTGGGTTACCGGACGGCGTAGTGAGCATTCTCAAAAATTCCCAGA
GTGGAAATGTGCTAACAGCATATGCCCTGTTTAAGATTGCAACACCTGTCCAATACACTGCGACCCTGGGAGGCACATCA
TTTACTGTGAAGTATTTGTGAAGTCGTGGCTACATTTCAACCCCTCCTCCGGTTAAGGAATATCTGCAGGGCAGGATGGA
AGAGACGAAGGAACTGCTCACAGAGAAAATGGAAGAAACCAAGGGGAGACTCACTGCAAAATTACAAGAAACCAAAGAAA
AAGTTTCTTTTAAGAAAAAAGTGGAA

Alignment

ORF - retro_etel_244 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.35 %
• Parental protein coverage: 71.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LGVLHFK-QWEQDYLPKRVASSNATSQGTPTGKKEELDPLQDK-SISLYQRFKKTFRQYGKVLIPVHLIT
          LGVLHF..QWEQDYLPKRVASSNA..QGTPTGKKEEL.PLQDK..ISLYQ.FKKTF..YGKV.IPV.LIT
Retrocopy LGVLHFN<QWEQDYLPKRVASSNAPPQGTPTGKKEELYPLQDK<TISLYQ*FKKTFSSYGKVWIPVYLIT

Parental  SGVWFGTFYYAAIKGVNVVPFLELIGLPDGVVNILKNSQSGNALTAYALFKXXXXXRYTVTLGGTSFTVK
          SGV.FG.FYYAAIKGVNVVPFLEL.GLPDGVV.ILKNSQSGN.LTAYALFK......YT.TLGGTSFTVK
Retrocopy SGVSFGAFYYAAIKGVNVVPFLELTGLPDGVVSILKNSQSGNVLTAYALFKIATPVQYTATLGGTSFTVK

Parental  YLRRRGYMSTPPPVKEYLQDRMEETKELLTEKMEETKGRLTEKLQETKEKVSFKKKVE
          YL..RGY.STPPPVKEYLQ.RMEETKELLTEKMEETKGRLT.KLQETKEKVSFKKKVE
Retrocopy YL*SRGYISTPPPVKEYLQGRMEETKELLTEKMEETKGRLTAKLQETKEKVSFKKKVE

Legend:

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

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_244 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007826	1 retrocopy	retro_etel_244 ,
Macaca mulatta	ENSMMUG00000011961	1 retrocopy	retro_mmul_39,
Ictidomys tridecemlineatus	ENSSTOG00000019999	1 retrocopy	retro_itri_915,
Tursiops truncatus	ENSTTRG00000007425	1 retrocopy	retro_ttru_245,