RetrogeneDB ID: retro_etel_240

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4045:72526..72835(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HORMAD2
• Ensembl ID: ENSETEG00000000213
• Aliases: None
• Description: HORMA domain containing 2 [Source:HGNC Symbol;Acc:28383]

Sequence

>retro_etel_240
CTCAGTCACCCCACCAAATCACAAAAGCAAACAAATTTTCCATCCCAAATCACTAATGAGCATGAGTCTTTGATAATGGT
GAAGAAACTTTTTGCTACTTCTGTTTCCAGTATAACATATGTAAGGGGCCTATTTCCAGAGAGTTCTTATGGAGAATGCC
ATTTAGATGACCTCAATTTAAAAATCCTCTGAGAAGATAAAAAATGCCCCGGGTCACTGCATTTTATCAAATGGATCCAA
GGTTGTTTTGATGCGCTGGAAAAGAAATATGTAAGAATGTTATAAAATGTGTACACCAGGAAAAACAAA

Alignment

ORF - retro_etel_240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.82 %
• Parental protein coverage: 56.42 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LRHPTKSQKQTIFPSQITNERESMIMVKKLFATSVSCITYIRGLFPESSYGERHLDDLSLKIL--QDNCQ
          L.HPTKSQKQT.FPSQITNE.ES.IMVKKLFATSVS.ITY.RGLFPESSYGE.HLDDL.LKIL.....C.
Retrocopy LSHPTKSQKQTNFPSQITNEHESLIMVKKLFATSVSSITYVRGLFPESSYGECHLDDLNLKIL*EDKKCP

Parental  GALHVIKWIQGCSEALEKKYLRDVTEIHQFKFK
          G.LH.IKWIQGC..ALEKKY.R........K.K
Retrocopy GSLHFIKWIQGCFDALEKKYVRML*NVYTRKNK

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_240 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000213	1 retrocopy	retro_etel_240 ,
Macaca mulatta	ENSMMUG00000004713	1 retrocopy	retro_mmul_1836,
Otolemur garnettii	ENSOGAG00000015658	3 retrocopies	retro_ogar_2155, retro_ogar_3422, retro_ogar_3438,