RetrogeneDB ID: retro_etel_823

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_170070:1332..1672(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000002713
• Aliases: None
• Description: None

Sequence

>retro_etel_823
TTACTGCACTGCAGTGGTGTCCTGGGGCCCTTGTACCTGTGCCCACACAGTGCCTGCCATGCCACCTGGCTCCATGATCC
CTTTTGATTCACCAATATCCTGGATACTTTCATGAAACTCATATCATATTAGGGCTCCAGAACCCTGTGCCGTGGCCTGT
CAGCCATCCTGATGCTGACTGTGCCAGCCGCGGCCATCTCCTTTACTGCCTATGACCAACTCAAGACCTTTCGGTGTGAC
TGAGGCTTGACCTAAGCCTTTTTACCCTTAAGGAGGCCAGCAGTCTCATCTGCCTGGGCACTGTGACCATGTCTATCCTC
TGTAGCTGGTGGGGACAAAG

Alignment

ORF - retro_etel_823 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.9 %
• Parental protein coverage: 56.16 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LLYCNGVLEPLYLCPHSARCATWFHDPNPINGTTDAFVKIVRHEGARTLWSGLPATLVMTVPATAIYFTS
          LL.C.GVL.PLYLCPHSA..ATW.HDP.......D.F.K.....G.RTL..GL.A.L..TVPA.AI.FT.
Retrocopy LLHCSGVLGPLYLCPHSACHATWLHDPF*FTNILDTFMKLISY*GSRTLCRGLSAILMLTVPAAAISFTA

Parental  YDQLKTFLCDRALT-SDLYAPMVAGTLARLGTVTV-VSPLELVRTK
          YDQLKTF.CD..LT...L.....A..L..LGTVT..V.PL.LV.TK
Retrocopy YDQLKTFRCD*GLT<LSLFTLKEASSLICLGTVTM<VYPL*LVGTK

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_823 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000008556	1 retrocopy	retro_dnov_1866,
Echinops telfairi	ENSETEG00000002713	1 retrocopy	retro_etel_823 ,
Homo sapiens	ENSG00000013306	1 retrocopy	retro_hsap_290,
Myotis lucifugus	ENSMLUG00000001925	2 retrocopies	retro_mluc_2296, retro_mluc_646,
Monodelphis domestica	ENSMODG00000011561	1 retrocopy	retro_mdom_1102,
Pongo abelii	ENSPPYG00000008333	1 retrocopy	retro_pabe_383,
Pan troglodytes	ENSPTRG00000009272	1 retrocopy	retro_ptro_239,
Rattus norvegicus	ENSRNOG00000020994	2 retrocopies	retro_rnor_1892, retro_rnor_2884,
Ictidomys tridecemlineatus	ENSSTOG00000004189	1 retrocopy	retro_itri_447,