RetrogeneDB ID: retro_etel_1828

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_304397:8772..9249(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000015413
• Aliases: None
• Description: None

Sequence

>retro_etel_1828
GTCGAGCACCAGGTCAGGAGAGAAGTGGAGATCCAGTCCCACTTCAGGCACCCCAACATTCTCAGGCTGTACGCTTACTT
CCACGGCGCCACCAGGGTGGACCTCATCCTGGAGTGCGCCCCTCCGGGAACCGTCTAGAGAGAGCCCAGAAGCTTTCCAA
GTTCAACGAGCAGAGGACAGCCACATATATCACAGAGTTGGCAGAAGCCCTGCCCTGCTGTCCTTCCAAGAAAGTTATTC
AGAGACATTAAGCCAGAGAACCTGCTCCTGGGCCCCACTGGGGAGCTGAAGATGGCAGCTTTTGGGTGCTCAGTGCACGC
CCCGTCTTTCAGGAGAACCACCCTGCGCCGCACGCTGGGCTACCTGCCCCCCGAGGATGATTGAGGGCCACATGCACGTG
AGAAGGTGGACCTCTGGCGCCTCGGAGCCCTTTGCTATGAATTTCTCGTTGGAAACTCCCCTTTGGAGGCAAACACA

Alignment

ORF - retro_etel_1828 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.15 %
• Parental protein coverage: 54.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LEHQLRREIEIQAHLQHPNILRLYNYFHDARRVYLILEYAPRGELYKE-LKHRCRFDEQRTATIMEELAD
          .EHQ.RRE.EIQ.H..HPNILRLY.YFH.A.RV.LILE.AP.G....E.......F.EQRTAT...ELA.
Retrocopy VEHQVRREVEIQSHFRHPNILRLYAYFHGATRVDLILECAPPGTV*RE<AQKLSKFNEQRTATYITELAE

Parental  ALIYCHEKKVI-HRDIKPENLLLGLRGEVKIADFGWSVHTPSLRRKTVCGTLDYLPPE-MIKGRMY-DER
          A...C...K....RDIKPENLLLG..GE.K.A.FG.SVH.PS.RR.T...TL.YLPPE.MI.G.M...E.
Retrocopy A-LPCCPSKKV>FRDIKPENLLLGPTGELKMAAFGCSVHAPSFRRTTLRRTLGYLPPE>MIEGHMH<REK

Parental  VDLWCIGVLCYELLVGSPPFESPT
          VDLW..G.LCYE.LVG..P.E..T
Retrocopy VDLWRLGALCYEFLVGNSPLEANT

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_1828 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 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000023297	1 retrocopy	retro_cfam_1177,
Echinops telfairi	ENSETEG00000015413	1 retrocopy	retro_etel_1828 ,
Macropus eugenii	ENSMEUG00000014431	2 retrocopies	retro_meug_741, retro_meug_947,
Mus musculus	ENSMUSG00000070837	1 retrocopy	retro_mmus_2455,
Otolemur garnettii	ENSOGAG00000000999	6 retrocopies	retro_ogar_1122, retro_ogar_1159, retro_ogar_1240, retro_ogar_1293, retro_ogar_2384, retro_ogar_923,