RetrogeneDB ID: retro_etel_893

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_181114:12355..12788(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000014252
• Aliases: None
• Description: None

Sequence

>retro_etel_893
ATGACGCCGACAGTGCTGGTGCTGAAGGCACGGACTGCTGCGCTGTTGAGCCCCCTGCAAGCACCCACTCTAGCTGTCAG
GTACACGTCCAAGAAGACAGAGGGCAGCTCCCAAAACCTTGGTGAGAAGTCACCTGGCAAACACTTTGGCATCAAGAAAA
TGGAAGGGCACTACGTTCATGCTGACAGCATCCTGGACACTCAGGGCAAATGCCACTGGCACCCAGGAGCCACATGGGGC
TGGGGAAGAAGTGCCTGTATGCCTTAGAAGATGGATAGTCCACTGCACGAAGGGGGTCTATGTGCCCAGCCCCAACAACA
CAGAAGCCATGGATCTGGTCACCAGGGGGCCCAAGGGTGCTGTGCTCTACAAGACTTTTATCCATGTGGTCTCCACCAAC
CCTGAGGGCACCGTCAAGCTGGCAGCTATGCTT

Alignment

ORF - retro_etel_893 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78. %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MASAVLALRARPAVTALLSPLQAPALAVRYASKKTGGSSKNLGGKSPGKHFGIKKMEGHYVHAGNILGTQ
          M...VL.L.AR.A..ALLSPLQAP.LAVRY.SKKT.GSS.NLG.KSPGKHFGIKKMEGHYVHA..IL.TQ
Retrocopy MTPTVLVLKARTA--ALLSPLQAPTLAVRYTSKKTEGSSQNLGEKSPGKHFGIKKMEGHYVHADSILDTQ

Parental  RKFRWHPGA-HVGLGKRKCLYALEDG-IVHYTKDVYVPSPNNAEAMDLVTRLPKGAVLYKTFVHVLPTKP
          .K..WHPGA.H.GLGK.KCLYALEDG.IVH.TK.VYVPSPNN.EAMDLVTR.PKGAVLYKTF.HV..T.P
Retrocopy GKCHWHPGA<HMGLGK-KCLYALEDG<IVHCTKGVYVPSPNNTEAMDLVTRGPKGAVLYKTFIHVVSTNP

Parental  EGTFKLVAML
          EGT.KL.AML
Retrocopy EGTVKLAAML

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_893 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 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017031	1 retrocopy	retro_cfam_1454,
Choloepus hoffmanni	ENSCHOG00000005103	1 retrocopy	retro_chof_943,
Callithrix jacchus	ENSCJAG00000018851	2 retrocopies	retro_cjac_28, retro_cjac_378,
Dasypus novemcinctus	ENSDNOG00000023845	2 retrocopies	retro_dnov_1233, retro_dnov_1731,
Erinaceus europaeus	ENSEEUG00000010549	3 retrocopies	retro_eeur_126, retro_eeur_22, retro_eeur_9,
Echinops telfairi	ENSETEG00000014252	2 retrocopies	retro_etel_13, retro_etel_893 ,
Microcebus murinus	ENSMICG00000009698	1 retrocopy	retro_mmur_624,
Macaca mulatta	ENSMMUG00000017231	1 retrocopy	retro_mmul_64,
Mus musculus	ENSMUSG00000024414	2 retrocopies	retro_mmus_1696, retro_mmus_2918,
Oryctolagus cuniculus	ENSOCUG00000004601	2 retrocopies	retro_ocun_1026, retro_ocun_1936,
Otolemur garnettii	ENSOGAG00000005385	1 retrocopy	retro_ogar_53,