RetrogeneDB ID: retro_etel_2012

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_324612:4886..5483(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000001406
• Aliases: None
• Description: None

Sequence

>retro_etel_2012
ATGGGTGGCGGCGGCGGCGTTCTGGAGCGGGAAGACGCCGCGCTGTTCCTGCGTGGAAGAGGCCAGAGCGATGACTCTGA
CTTGTGGGATGATGCAGCATTGGTCAAAGCCTATGATAAGGCTGTAGCTTCCTTTAAGAATGCTCTAAAGAATGGAGAAA
TTTGTGAAGCTACTGACAAACCAACACTCACACCTAAAAGAAAGCCTACTAAGAAGAAAAAGACCGTCATGACTCCACTG
AAGCAGTGGAAAGTTGGTGATAAATGTTCCGCCATTTGGTCAGAAGATGGCTGCATTTACCCAGCTACCATCACTTCAGT
TGATCATAATAGAGAAACTTGTGTTGTGGTTTACACCGGATATGGAAACAGAGAGGAGCAACATCTGTCTGATCTACTTC
TCCCAACCTTTGGAGGAGTTCATAATGTAGACCAGAATGCTCAAGAGAATGAAAACGAAAGTCAAATTTCAACAGATGAA
AGTGAGAGTTCCTCCAGGTCTCTTGGAAACAAACCAAATACCAAGTCTAAAGCCGCACCATGGAGCTCCCCCTACCCCAC
CCCTCCAATGCAGGCATCCGGGCTGGGGCCAGGAAAG

Alignment

ORF - retro_etel_2012 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.45 %
• Parental protein coverage: 99.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGGGGGVPEREDAVLFRR-TGQTEDADIGDDTALIKAYDKAVASSKNALKNGEICEATDKPKLTPKRKPT
          MGGGGGV.EREDA.LF.R..GQ..D.D..DD.AL.KAYDKAVAS.KNALKNGEICEATDKP.LT....P.
Retrocopy MGGGGGVLEREDAALFLRGRGQSDDSDLWDDAALVKAYDKAVASFKNALKNGEICEATDKPTLT----PK

Parental  KKKKXXXXXXXXXXXXWKVGDKCSAIWSEDGCIYPATLTSVDLTRETCVVVDTGYGN-EEQRLSDLLLPT
          .K..............WKVGDKCSAIWSEDGCIYPAT.TSVD..RETCVVV.TGYGN.EEQ.LSDLLLPT
Retrocopy RKPTKKKKTVMTPLKQWKVGDKCSAIWSEDGCIYPATITSVDHNRETCVVVYTGYGNREEQHLSDLLLPT

Parental  FGGVHNVDQNAQENENESQISTDESESSSRSLGNKPNTKSKAAPWSSFLPPPPPMPASGMGPGK
          FGGVHNVDQNAQENENESQISTDESESSSRSLGNKPNTKSKAAPWSS...P.PPM.ASG.GPGK
Retrocopy FGGVHNVDQNAQENENESQISTDESESSSRSLGNKPNTKSKAAPWSSPY-PTPPMQASGLGPGK

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_2012 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000012328	1 retrocopy	retro_cpor_988,
Dasypus novemcinctus	ENSDNOG00000007283	4 retrocopies	retro_dnov_1239, retro_dnov_1613, retro_dnov_1637, retro_dnov_2175,
Echinops telfairi	ENSETEG00000001406	2 retrocopies	retro_etel_1549, retro_etel_2012 ,
Homo sapiens	ENSG00000205571	1 retrocopy	retro_hsap_4140,
Gorilla gorilla	ENSGGOG00000026704	1 retrocopy	retro_ggor_2780,
Myotis lucifugus	ENSMLUG00000010603	1 retrocopy	retro_mluc_1623,
Macaca mulatta	ENSMMUG00000020214	1 retrocopy	retro_mmul_216,
Nomascus leucogenys	ENSNLEG00000004454	1 retrocopy	retro_nleu_1054,
Oryctolagus cuniculus	ENSOCUG00000017097	1 retrocopy	retro_ocun_617,
Pan troglodytes	ENSPTRG00000016955	1 retrocopy	retro_ptro_2813,
Sus scrofa	ENSSSCG00000016970	1 retrocopy	retro_sscr_654,
Ictidomys tridecemlineatus	ENSSTOG00000012288	1 retrocopy	retro_itri_968,
Tupaia belangeri	ENSTBEG00000002399	1 retrocopy	retro_tbel_1033,