RetrogeneDB ID: retro_etel_41

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_231929:90..1221(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013386
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000008526
• Aliases: None
• Description: None

Sequence

>retro_etel_41
ATGACTGATGATGAACTGTTGGCCTTGGTAGTTGATAATGGCTCAGGGATGTGCAAGGCAGGCTTTGGTGGGGACGATGC
CCCCCGGGCTGTGTTCCCATCCATGGTAGGCCGGCCTCGTCACCAAGGGGTCATGGTAGGCATGGGCCAGAAGGACTGCT
ATGTGGGGGATGAGGCGCAGAGCAAGAGAGGCATCCTCACCTTGAAATATCCCATTGAGCATGGAGTGGTCACCAACTGG
GATGATATGGAGAAGATCTGGTACCACACTTTCTACAATGAGCTTCGTGTGGCACCGGATGAGCATCCCATCCTCCTCAC
CGAGGCACCCCTCAACCCCAAGATCAACCGTGAGAAAATGACTCAGATCATGTTCGAGGCCTTCAACACACCTGCCATGT
ATGTGGCTATCCAGGCTGTACTGTCCCTCTATGCCTCTGGCCGGACCACAGGCATTGTTATGGATTCTGGAGATGGGGTA
ACTCACACTGTGCCCATCTATGAGGGTTACGCGCTACCCCATGCCATTCTCCGTCTGGATCTGGCTGGCAGAGACCTGAC
TGATTACCTCATGAAGATCCTGACAGAGCGAGGCTACAACTTCAACACCACTGCTGAACGTGAGATTGTGCGTGATGTCA
AAGAGAAGCTGTGCTATGTGGCCTTGGACTTTGAACAAGAGATGGGTGCTGCTGCTGCTTCCTCCTCTCTTGAAAGAAGC
TACGAGCTTCCTGATGGCCAAGTGATCACCATTGGGAATGAACGCTTTCGGTGCCCAGAAGCCATGTTCCAGCCTTCCTT
TCTGGGCATTGAGTCCTGTGGGATCCACGAGACAACCTTCAACTCAATCATGAAGTGTGACGTGGATATTCGCAAGGACC
TGTATGCCAACACTGTGCTGTCTGGAGGCAGCACCATGTACCCTGGCATTGCTGACCGGATGCAGAAGGAAATTGTCATT
TTGGCGCCCAGCACCATGAAAATCAAGATCATCTCTCCCCCAGAGCGGAAGTATTCCGTGTGGATTGGAGGGTCCATACT
GGCCAGCCTGTCCACATTCCAGCAGATGTGGATCAGTAAGCAGGAATATGATGAGGCAGGACCTCCCATCGTTCATAGGA
AGTGTTTCTGA

Alignment

ORF - retro_etel_41 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.12 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLN
          GVMVGMGQKD.YVGDEAQSKRGILTLKYPIEHG..TNWDDMEKIW.HTFYNELRVAP.EHP.LLTEAPLN
Retrocopy GVMVGMGQKDCYVGDEAQSKRGILTLKYPIEHGVVTNWDDMEKIWYHTFYNELRVAPDEHPILLTEAPLN

Parental  PKANREKMTQIMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLA
          PK.NREKMTQIMFE.FN.PAMYVAIQAVLSLYASGRTTGIV.DSGDGVTH.VPIYEGYALPHAI.RLDLA
Retrocopy PKINREKMTQIMFEAFNTPAMYVAIQAVLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLA

Parental  GRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPDGQVITIG
          GRDLTDYLMKILTERGY.F.TTAEREIVRD.KEKLCYVALDFE.EM..AA.SSSLE.SYELPDGQVITIG
Retrocopy GRDLTDYLMKILTERGYNFNTTAEREIVRDVKEKLCYVALDFEQEMGAAAASSSLERSYELPDGQVITIG

Parental  NERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVLSGGTTMYPGIADRMQKEITALA
          NERFRCPE..FQPSF.G.ES.GIHETT.NSIMKCD.DIRKDLYAN.VLSGG.TMYPGIADRMQKEI..LA
Retrocopy NERFRCPEAMFQPSFLGIESCGIHETTFNSIMKCDVDIRKDLYANTVLSGGSTMYPGIADRMQKEIVILA

Parental  PSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQEYDEAGPSIVHRKCF
          PSTMKIKII.PPERKYSVWIGGSILASLSTFQQMWISKQEYDEAGP.IVHRKCF
Retrocopy PSTMKIKIISPPERKYSVWIGGSILASLSTFQQMWISKQEYDEAGPPIVHRKCF

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_41 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 13 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000759	3 retrocopies	retro_chof_1909, retro_chof_2042, retro_chof_21,
Dasypus novemcinctus	ENSDNOG00000006719	1 retrocopy	retro_dnov_32,
Echinops telfairi	ENSETEG00000008526	1 retrocopy	retro_etel_41 ,
Macropus eugenii	ENSMEUG00000005463	1 retrocopy	retro_meug_970,
Macropus eugenii	ENSMEUG00000010843	1 retrocopy	retro_meug_1374,
Myotis lucifugus	ENSMLUG00000015509	3 retrocopies	retro_mluc_190, retro_mluc_427, retro_mluc_90,
Nomascus leucogenys	ENSNLEG00000012233	1 retrocopy	retro_nleu_2313,
Oryctolagus cuniculus	ENSOCUG00000008193	3 retrocopies	retro_ocun_1306, retro_ocun_1421, retro_ocun_919,
Pongo abelii	ENSPPYG00000002459	1 retrocopy	retro_pabe_3027,
Sorex araneus	ENSSARG00000005778	1 retrocopy	retro_sara_732,
Tupaia belangeri	ENSTBEG00000017616	3 retrocopies	retro_tbel_1555, retro_tbel_3014, retro_tbel_4616,
Tarsius syrichta	ENSTSYG00000008155	5 retrocopies	retro_tsyr_1282, retro_tsyr_2102, retro_tsyr_858, retro_tsyr_9, retro_tsyr_92,
Vicugna pacos	ENSVPAG00000010621	3 retrocopies	retro_vpac_12, retro_vpac_355, retro_vpac_651,