RetrogeneDB ID: retro_etel_1347

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_250724:3705..4060(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000017844
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: B9D1
• Ensembl ID: ENSETEG00000001144
• Aliases: None
• Description: B9 protein domain 1 [Source:HGNC Symbol;Acc:24123]

Sequence

>retro_etel_1347
CGGATTGTGCCCAGTGTGTACGGACTGGATATATTTGGGGATGATATGGTCTGAAGCTATGGGGTAGTGCACGTGCCATT
CCCACCTGGCTGACACAAAAGGACCATCTCTATGTTTGTTACAGAATCTCCCTCTAAAGTGCTAACGTTTACAAGCTTGT
GCACAGGATTGCGGCCAGAGTACACATATCCCAAGGTGGTGGCTCCACGTGAACGCTGGGAAGTGCTGCAAGTCCACTCC
CAGGGTTCATCACCCTCCTCTTCAATGTGGTCACCAAGGGCATGAAGAAGCTGGGCTATGACACTGGCCCTGTGGACTCA
CAAGGTGTGAGTCCAATCCACCCAAAAGAATCCTC

Alignment

ORF - retro_etel_1347 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.67 %
• Parental protein coverage: 58.82 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QIVLSVYGPDLFGNDVVRGYGVVHIPFSPGRHKRTIPMFVPESTSKVQKFTSWFMGRRPEYTDPKVVAQG
          .IV.SVYG.D.FG.D.V..YGVVH.PF.PG.HKRTI.MFV.ES.SKV..FTS...G.RPEYT.PKVVA..
Retrocopy RIVPSVYGLDIFGDDMV*SYGVVHVPFPPG*HKRTISMFVTESPSKVLTFTSLCTGLRPEYTYPKVVAPR

Parental  EGREVTRVRSQ-GFITLLFNVVTKDMKKLGYDTGPVDSQGILTP-NQPQNIL
          E..EV..V.SQ.GFITLLFNVVTK.MKKLGYDTGPVDSQG...P.N.P..IL
Retrocopy ERWEVLQVHSQ<GFITLLFNVVTKGMKKLGYDTGPVDSQGV-SP<NPPKRIL

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_1347 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000001144	3 retrocopies	retro_etel_1347 , retro_etel_149, retro_etel_2115,