RetrogeneDB ID: retro_etel_390

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_6678:476518..476834(-)
• Located in intron of: ENSETEG00000009060

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000009268
• Aliases: None
• Description: None

Sequence

>retro_etel_390
TTAACCAGATTTGAACAGAAGGATGGCCACTTGGCCCAGGTAGAAATAGATGAAGTGCTTAGTTTCATGTGTCACAATAA
CTACCAAAGTTTCTGCCCACAATGCAGTGCCAAGTGGGATTGTACTTCTTGTCAAACTCCTTCTTGATGTGGGCCGCAAT
GTCCTTCTCGATGTTGTATTTCTCCAGCGCCTGAATCGCGCACTCCACCGAGTCCTGTTGCATCTCCTCCGACATGTCGG
CATTTTTGATCACGGCCTTTCGGTCGCACATGGTTACCGTGAAGCGCGCGGACTAGCCGACTGCGACGGTCCTGGG

Alignment

ORF - retro_etel_390 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.65 %
• Parental protein coverage: 99.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LTRFEQKDGHLAQVEIDEVLSFMCH-ITTKVSAHNAVPSGIVLLTTTRFLSTGGHRNVLLDVVFLQRLSR
          LTRFEQKDGHLAQVEIDEVLSFMCH.ITTKVSAHNAVPSGIVLL.....L..G..RNVLLDVVFLQRL.R
Retrocopy LTRFEQKDGHLAQVEIDEVLSFMCH>ITTKVSAHNAVPSGIVLLVKL-LLDVG--RNVLLDVVFLQRLNR

Parental  ALHRVLLHLLRHVGIFDHGLSVAHSHREADPTATSWGRG
          ALHRVLLHLLRHVGIFDHGLSVAH..REA...A...G.G
Retrocopy ALHRVLLHLLRHVGIFDHGLSVAHGYREARGLADCDGPG

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_390 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 5 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000009268	3 retrocopies	retro_etel_1297, retro_etel_390 , retro_etel_781,
Gorilla gorilla	ENSGGOG00000008793	4 retrocopies	retro_ggor_1066, retro_ggor_1113, retro_ggor_2055, retro_ggor_3078,
Macaca mulatta	ENSMMUG00000001195	6 retrocopies	retro_mmul_1463, retro_mmul_1723, retro_mmul_1897, retro_mmul_2269, retro_mmul_470, retro_mmul_835,
Pongo abelii	ENSPPYG00000005032	6 retrocopies	retro_pabe_1134, retro_pabe_1198, retro_pabe_1215, retro_pabe_1469, retro_pabe_2371, retro_pabe_2459,
Tupaia belangeri	ENSTBEG00000008820	3 retrocopies	retro_tbel_1196, retro_tbel_1765, retro_tbel_695,