RetrogeneDB ID: retro_etel_761

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_160382:7683..8214(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000000487
• Aliases: None
• Description: None

Sequence

>retro_etel_761
GGCTTGATCATCATGGATAAGGTGGAAGGTGCTGAGGAGAATGTGCTGCCCAACGCGTCTGGCCTGGCGGGTCCCTTTGG
CTGTCTCAACAACGCCCGCCATGGCATCACGTGGGGTGCCCGTGGAGCTGCCGGAGTTCTGTTTACACACGGCGTGCCGT
GCGCCCTGGACAGGATGGAGTTTGGCGTCCCACTAGCCGGGAACCAGCTGATCCAAAAGAAGCTGGCTGACTTGCTCTCC
AAGATCACCCTGGGCCTTCACGCCTGCCTGCAGCTCGGCGGGTTGAAGGAGCAAGCCAGGGCCACCGCGGAAATGGTCTC
TCTGCTGAAGAGGCATAACCGAGGGAAAGCTCTAGACGTCGCCCGCCAGGCCAGAGACGTGCTTGGGGGTAACGGGATTT
CTGACGAGTACCACGTGATGCGACACACTATGAACCTGGAGGCAGTGAACACCGATGAAGGTATGCGTGACATCCACGCG
CTGATCCTGGGACAAGCAATCATGGGGATTCAGGCATTCATGGTGGGCAAA

Alignment

ORF - retro_etel_761 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.77 %
• Parental protein coverage: 54.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GMIIMDEVAVPEENVLPNASGLAGPFGCLNNARYGITWGVLGAA-EFCLHTARQ-YTLDRIQFGVPLARN
          G.IIMD.V...EENVLPNASGLAGPFGCLNNAR.GITWG..GAA.EFCLHTA.....LDR..FGVPLA.N
Retrocopy GLIIMDKVEGAEENVLPNASGLAGPFGCLNNARHGITWGARGAA>EFCLHTACR<CALDRMEFGVPLAGN

Parental  QLIQKKLADMLTEITLGLHACLQLGRLKDQDKATPEMISLLKRNNSGKALDIARQARDMLGGNGISDEYH
          QLIQKKLAD.L..ITLGLHACLQLG.LK.Q..AT.EM.SLLKR.N.GKALD.ARQARD.LGGNGISDEYH
Retrocopy QLIQKKLADLLSKITLGLHACLQLGGLKEQARATAEMVSLLKRHNRGKALDVARQARDVLGGNGISDEYH

Parental  VIRHTMNLEAVNTYEGTHDIHALILGRAITGIQAFTAGK
          V.RHTMNLEAVNT.EG..DIHALILG.AI.GIQAF..GK
Retrocopy VMRHTMNLEAVNTDEGMRDIHALILGQAIMGIQAFMVGK

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_761 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000487	1 retrocopy	retro_etel_761 ,
Gasterosteus aculeatus	ENSGACG00000006126	1 retrocopy	retro_gacu_22,
Xenopus tropicalis	ENSXETG00000001085	1 retrocopy	retro_xtro_10,