RetrogeneDB ID: retro_etel_44

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_9609:148..529(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013921
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000012347
• Aliases: None
• Description: None

Sequence

>retro_etel_44
GCAGTGGCCAATAATCAGGACAAGCTGGCCTTCGAGAATGGGTCTGTTCTGAAGCAGTTTCTTTCTGAGACAGAGAAAAT
GTCCCCGGAAGACAGAGCAAAGTGCTTTGAAAAGAACGAGGCCATCCAGGCGGCCCACGATGCCGTGGCACAGGAAGGTC
AGTGCCGGGTAGATGACAAAGTGAACTTCCACTTCATCCTGTTCAACAACGTGGAGGGCCACCTCTATGAACTTGATGGA
CGAATGCCTTTTCCCGTGAACCACGGCTCCAGTTCAGAGGACTCCCTGCTGCAGGATGCTGCCAAGGTCTGCAGAGAATT
CACTGAGCTTCAGCAAGGGGAGGTCCGCTTCTCGGCTGTGGCCCTCTGCAAGGCAGCCTAA

Alignment

ORF - retro_etel_44 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.41 %
• Parental protein coverage: 56.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AVANNQDKLAFENGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNN
          AVANNQDKLAFENGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNN
Retrocopy AVANNQDKLAFENGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNN

Parental  VEGHLYELDGRMPFPVNHGSSSEDSLLQDAAKVCREFTEREQGEVRFSAVALCKAA
          VEGHLYELDGRMPFPVNHGSSSEDSLLQDAAKVCREFTE..QGEVRFSAVALCKAA
Retrocopy VEGHLYELDGRMPFPVNHGSSSEDSLLQDAAKVCREFTELQQGEVRFSAVALCKAA

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_44 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 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003295	1 retrocopy	retro_chof_1737,
Callithrix jacchus	ENSCJAG00000019346	1 retrocopy	retro_cjac_365,
Erinaceus europaeus	ENSEEUG00000002185	3 retrocopies	retro_eeur_150, retro_eeur_573, retro_eeur_598,
Echinops telfairi	ENSETEG00000012347	1 retrocopy	retro_etel_44 ,
Felis catus	ENSFCAG00000025457	1 retrocopy	retro_fcat_1321,
Homo sapiens	ENSG00000154277	2 retrocopies	retro_hsap_781, retro_hsap_782,
Gorilla gorilla	ENSGGOG00000008809	1 retrocopy	retro_ggor_648,
Macropus eugenii	ENSMEUG00000013774	1 retrocopy	retro_meug_8,
Myotis lucifugus	ENSMLUG00000010138	2 retrocopies	retro_mluc_1216, retro_mluc_2113,
Nomascus leucogenys	ENSNLEG00000017176	2 retrocopies	retro_nleu_2582, retro_nleu_2583,
Oryctolagus cuniculus	ENSOCUG00000001353	1 retrocopy	retro_ocun_309,
Pan troglodytes	ENSPTRG00000016009	2 retrocopies	retro_ptro_3028, retro_ptro_3029,
Ictidomys tridecemlineatus	ENSSTOG00000015507	1 retrocopy	retro_itri_288,
Tupaia belangeri	ENSTBEG00000011438	1 retrocopy	retro_tbel_306,
Tarsius syrichta	ENSTSYG00000008305	1 retrocopy	retro_tsyr_1191,
Tursiops truncatus	ENSTTRG00000012095	1 retrocopy	retro_ttru_1370,