RetrogeneDB ID: retro_etel_37

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_176500:2738..3560(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000002546
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000002644
• Aliases: None
• Description: None

Sequence

>retro_etel_37
CCTGGTGTAGGAGCAAAAATTGCTGAAAAGATTGACGAGTATTTAGCAACTGGAAAATTACGTAAACTAGAAAAGATTAG
GCAGGATGATACAAGTTCATCCATCAATTTCCTGACTCGAGTTACTGGCATTGGCCCATCTGCTGCAAGAAAGTTTGTAG
ATGAAGGAATTAAAACATTAGAAGATCTCAGAAAACATGAAGATAAATTGAACCATCACCAGCGAATTGGGCTGAAATAT
TTTGAAGACTTTGAGAAAAGAATCCCTTGTGAAGAGATGTTACAGATGCAGGATATTGTGCTGAATGAAGTTCAAAAGGT
GGATTCTGAATATATCGCTACAGTCTGTGGCAGTTTTAGAAGAGGCGCAGAGTCCAGCGGCGACATGGATGTTCTCCTGA
CCCATCCAAGCTTTACCTCTGAGTCAGCCAAGCAGCCCAAACTGTTGCATCGAGTTGTGGAGCAACTACAAAAGGCCCAT
TTTATCACAGACACTCTGTCCAAGGGTGAGACGAAGTTCATGGGTGTCTGCCAGCTTCCCAGTAAAAATGATGAACAAGA
ATACCCACACAGGAGGATCGATATCAGGTTGATACCCAAGGATCAGTATTACTGTAGTGTGCTCTATTTCACTGGCAGGG
ATATTTTTAATAAGAACATGAGAACGCATGCCCTAGAAAAGGGCTTCACAATCAACAAATACACAATCCGCCCTCTGGGA
GTCACTGGCGTTGCTGGAGAACCCCTGCCAGTGGATAGTGAGAAAGACATCTTTGACTACATCCAGTGGAAGTACCGGGA
GCCCAAGGACCGGAGCGAGTGA

Alignment

ORF - retro_etel_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.85 %
• Parental protein coverage: 51.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PGVGAKIAEKIDEYLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKFVDEGIKTLEDLRKHEDKL
          PGVGAKIAEKIDEYLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKFVDEGIKTLEDLRKHEDKL
Retrocopy PGVGAKIAEKIDEYLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKFVDEGIKTLEDLRKHEDKL

Parental  NHHQRIGLKYFEDFERRIPREEMLQMQDIVLNEVQKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTS
          NHHQRIGLKYFEDFE.RIP.EEMLQMQDIVLNEVQKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTS
Retrocopy NHHQRIGLKYFEDFEKRIPCEEMLQMQDIVLNEVQKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTS

Parental  ESAKQPKLLHRVVEQLQKAHFITDTLSKGETKFM
          ESAKQPKLLHRVVEQLQKAHFITDTLSKGETKFM
Retrocopy ESAKQPKLLHRVVEQLQKAHFITDTLSKGETKFM

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_37 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005134	1 retrocopy	retro_amel_1482,
Canis familiaris	ENSCAFG00000005517	1 retrocopy	retro_cfam_891,
Echinops telfairi	ENSETEG00000002644	1 retrocopy	retro_etel_37 ,
Macropus eugenii	ENSMEUG00000012619	1 retrocopy	retro_meug_1007,
Procavia capensis	ENSPCAG00000007734	1 retrocopy	retro_pcap_463,