RetrogeneDB ID: retro_etel_271

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4548:81456..81913(+)
• Located in intron of: ENSETEG00000013254

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000015168
• Aliases: None
• Description: None

Sequence

>retro_etel_271
GAAGAGCTGGAAGACAACCCCAACCAGATTGAGCAGGCGGCAGAGATGCTGCGTGGATTAATCCACTCCCGCTACATATT
CACCAACCATGGCATCACCCAGATGTTGGAAAAGTACCAGCAAGGAGATTTTGGCTACTGTGCCCGTGTGTACTGTGAGA
ACCAGCCAATGCTTCCCTTTGGCCTGTCAGACGTCCCAGGTGAGGCCATGGTGAAACTCTACTGTCCCAGATCATGGATG
TGTTCACACCCAAGTCATTCAGGTGGCACCGCTTGGATGGTACCTACTTTGGCATTGGCTTCCCTCACATTCTCCTTGTG
GTGCACCAAAGTACTGATCCAGCAGGCCTGTCCACCAGTTTGTACCGAGGCTCTATGGTCTCAATATCCACCCGATGGCC
TACCAGCTGCAGCTCCAAGCCGCCAGCAACTTCAAGAGCCCAGTCAAGACGATTCGC

Alignment

ORF - retro_etel_271 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.11 %
• Parental protein coverage: 66.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPG
          EELEDNPNQ...IEQAAEML.GLIH.RYI.TN.GI.QMLEKYQQGDFGYC.RVYCENQPMLP.GLSD.PG
Retrocopy EELEDNPNQ---IEQAAEMLRGLIHSRYIFTNHGITQMLEKYQQGDFGYCARVYCENQPMLPFGLSDVPG

Parental  EAMVKLYCPK-CMDVYTPKSSRHHHTDGAYFGTGFPHMLFMVH-PEYRPKRPANQFVPRLYGFKIHPMAY
          EAMVKLYCP...MDV.TPKS.R.H..DG.YFG.GFPH.L..VH.P.Y...RP..QFVPRLYG..IHPMAY
Retrocopy EAMVKLYCPR<IMDVFTPKSFRWHRLDGTYFGIGFPHILLVVH<PKY*SSRPVHQFVPRLYGLNIHPMAY

Parental  QLQLQAASNFKSPVKTIR
          QLQLQAASNFKSPVKTIR
Retrocopy QLQLQAASNFKSPVKTIR

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_271 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 35 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000005751	1 retrocopy	retro_acar_107,
Bos taurus	ENSBTAG00000008837	1 retrocopy	retro_btau_885,
Callithrix jacchus	ENSCJAG00000002996	1 retrocopy	retro_cjac_2700,
Dasypus novemcinctus	ENSDNOG00000018728	1 retrocopy	retro_dnov_697,
Dipodomys ordii	ENSDORG00000014179	1 retrocopy	retro_dord_45,
Erinaceus europaeus	ENSEEUG00000006417	2 retrocopies	retro_eeur_331, retro_eeur_555,
Echinops telfairi	ENSETEG00000015168	3 retrocopies	retro_etel_225, retro_etel_271 , retro_etel_769,
Felis catus	ENSFCAG00000007642	2 retrocopies	retro_fcat_1749, retro_fcat_206,
Macropus eugenii	ENSMEUG00000004095	10 retrocopies	retro_meug_1158, retro_meug_1316, retro_meug_1598, retro_meug_187, retro_meug_1939, retro_meug_40, retro_meug_525, retro_meug_528, retro_meug_751, retro_meug_752,
Monodelphis domestica	ENSMODG00000015287	4 retrocopies	retro_mdom_1433, retro_mdom_1558, retro_mdom_704, retro_mdom_936,
Mustela putorius furo	ENSMPUG00000011129	1 retrocopy	retro_mputfur_154,
Oryctolagus cuniculus	ENSOCUG00000023483	2 retrocopies	retro_ocun_1477, retro_ocun_362,
Ochotona princeps	ENSOPRG00000012138	1 retrocopy	retro_opri_970,
Sarcophilus harrisii	ENSSHAG00000001478	2 retrocopies	retro_shar_672, retro_shar_693,
Sus scrofa	ENSSSCG00000001414	1 retrocopy	retro_sscr_538,
Tursiops truncatus	ENSTTRG00000014103	2 retrocopies	retro_ttru_1595, retro_ttru_1740,