RetrogeneDB ID: retro_etel_1844

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_306439:49824..50404(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000010389
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000016200
• Aliases: None
• Description: None

Sequence

>retro_etel_1844
AAGATGTTTGCAAAGGAACTGAAGCTGGTGTTCCCAGGTGCACAGGGCCTGAACCGAGGCCAGCCTGAGGTGGGCGCGTT
AGAGCGAGCCTGCAAAGCCAATGGAGTAACCGACTGGCTGGTGGTTAACGAGCACCTTGGCATGACCGTGGGGCTCATTA
TCAGCACCCTGCCGCTCGGCCGCACTGCATACTTCACTCTGCAATGTCGTCATGTGGCAAGACATTCCTGACCTGGGCAC
AATGTCAGAAGCCAAGCCCCACCTCATTGTGCATGGGTTTCTCCTCTCGCCTGGGCAAACAGGTCTCTGACATCCTGAAG
TACCTGTTCCCTGTCCCCAAAGATGACAGCCACCGGATCATCACTTTTGCAACCAGGATGACTACATCTTGTTCCGACAC
CACACGAACGAGAAGGAGGACCACCACAATGTGGAGCTGACTGAAGTTGGACCTCGCTTTGAGCTAAAGTTGTGCATGAT
TCGCCTGGGCACGTTGGAACAGGAGGCGACCGCGGATGTTGAGTGGCGCTGGCACCCGTACACCAGTACTGCATGCAAGA
GGGTCTTCTGGAGAGCTGAC

Alignment

ORF - retro_etel_1844 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.7 %
• Parental protein coverage: 86.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGMPVGLIISHLPFGPTAYFTL-CN
          KMFAKELKLVFPGAQ..NRG..EVGAL.RACKANGVTD.LVV.EH.GM.VGLIIS.LP.G.TAYFTL.C.
Retrocopy KMFAKELKLVFPGAQGLNRGQPEVGALERACKANGVTDWLVVNEHLGMTVGLIISTLPLGRTAYFTLQCR

Parental  VVMRHDIPDLGTMSEAKPH-LIMHGFSSRLGKRVSDILKYLFPVPKDDSHRVITFA-NQDDYISFRHHTY
          .V.RH..P.....S.A.PH.L.M.GFSSRLGK.VSDILKYLFPVPKDDSHR.ITFA.NQDDYI.FRHHT.
Retrocopy HVARHS*PGHNVRSQAPPH<LCM-GFSSRLGKQVSDILKYLFPVPKDDSHRIITFA<NQDDYILFRHHTN

Parental  KKVDHHNVELTEVGPRFELKLYMIRLGTLEQEATADVEWRWHPYTNTARKRVFLSAD
          .K.DHHNVELTEVGPRFELKL.MIRLGTLEQEATADVEWRWHPYT.TA.KRVF..AD
Retrocopy EKEDHHNVELTEVGPRFELKLCMIRLGTLEQEATADVEWRWHPYTSTACKRVFWRAD

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_1844 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016200	2 retrocopies	retro_etel_1844 , retro_etel_73,
Macropus eugenii	ENSMEUG00000008058	1 retrocopy	retro_meug_1463,
Sarcophilus harrisii	ENSSHAG00000008267	1 retrocopy	retro_shar_48,