RetrogeneDB ID: retro_etel_2059

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_44045:3995..4184(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000018527
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000007454
• Aliases: None
• Description: None

Sequence

>retro_etel_2059
ATGGGAGTGCAGGTGGAGACCATCTCCCCGGGAGACGGGCGCACCTTCCCGAAGTGCGGCCAGACCTGCGTGGTGCACTA
CAAGGGGATGCTGGAAGATGGGAAGAAATTTGACTCCTCCGGGGATAGAAACAAGCCCTTTAAGTTCATGCTGTTCAAGC
AGGAGGTGATCCGAGGCTGGAAGGAGGGG

Alignment

ORF - retro_etel_2059 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.06 %
• Parental protein coverage: 58.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGVQVETISPGDGRTFPKRGQTCVVHYTGMLEDGKKFDSSRDRNKPFKFMLGKQEVIRGWEEG
          MGVQVETISPGDGRTFPK.GQTCVVHY.GMLEDGKKFDSS.DRNKPFKFML.KQEVIRGW.EG
Retrocopy MGVQVETISPGDGRTFPKCGQTCVVHYKGMLEDGKKFDSSGDRNKPFKFMLFKQEVIRGWKEG

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_2059 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 16 parental genes, and 33 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000008303	4 retrocopies	retro_btau_1220, retro_btau_1265, retro_btau_128, retro_btau_1760,
Ciona savignyi	ENSCSAVG00000006859	1 retrocopy	retro_csav_11,
Echinops telfairi	ENSETEG00000003358	8 retrocopies	retro_etel_1114, retro_etel_1484, retro_etel_1491, retro_etel_1499, retro_etel_1774, retro_etel_2130, retro_etel_2200, retro_etel_997,
Echinops telfairi	ENSETEG00000007454	1 retrocopy	retro_etel_2059 ,
Echinops telfairi	ENSETEG00000018432	1 retrocopy	retro_etel_867,
Echinops telfairi	ENSETEG00000018990	2 retrocopies	retro_etel_186, retro_etel_2071,
Felis catus	ENSFCAG00000026097	2 retrocopies	retro_fcat_168, retro_fcat_751,
Homo sapiens	ENSG00000088832	1 retrocopy	retro_hsap_1198,
Gorilla gorilla	ENSGGOG00000001729	3 retrocopies	retro_ggor_1494, retro_ggor_2344, retro_ggor_933,
Macaca mulatta	ENSMMUG00000015996	1 retrocopy	retro_mmul_10,
Monodelphis domestica	ENSMODG00000019554	2 retrocopies	retro_mdom_151, retro_mdom_733,
Mustela putorius furo	ENSMPUG00000017946	1 retrocopy	retro_mputfur_1649,
Pteropus vampyrus	ENSPVAG00000013840	1 retrocopy	retro_pvam_1367,
Sus scrofa	ENSSSCG00000007188	1 retrocopy	retro_sscr_98,
Tursiops truncatus	ENSTTRG00000003547	3 retrocopies	retro_ttru_1227, retro_ttru_802, retro_ttru_904,
Vicugna pacos	ENSVPAG00000011511	1 retrocopy	retro_vpac_171,