RetrogeneDB ID: retro_etel_370

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_6227:4861..5376(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA5
• Ensembl ID: ENSETEG00000002187
• Aliases: None
• Description: annexin A5 [Source:HGNC Symbol;Acc:543]

Sequence

>retro_etel_370
GGGACACGTCAGAGAATGCTGGTGGCTCTCCGCCAGGCTCGTCGAGACCCTGATACTGGATTGGATGAAGCCCCAGTCGA
GCAAGATGCTCAGGTTTTGTTTTAAGCCGGGGAACTCAAATGGGGGATGGGTGAAGAATAGTTTATCACCATCTTTGGAA
CTCGAAGTGTGTCGCATTTGAGAAGGGTCTTTGACAAATACATGACCATGTCAGGATTTCCAGTGGAGGAATCCATTGAC
CGGGAGACTTCTGGAAATTGGGAGCAACTGCTACTCGCTGTTGTAAAGGCTACTCGAAGTACACCCGCCCACCTGGCAGA
CACCCTCGCCCATGCTACGCAGACCGATGACCATACCTCATCAGAGTGGTGGTTTCCCAGAGTGAGATCGATCTGTTTAA
CATAAGAATGGAGTTTAGGAAGAATTTTGCCACCTCTCTTTGTTCCATGATTAAGGGGGAGACATCTGGGGACTATAAGA
AAACCCTCCTGATGCTCTGTGGAGGAGAAGACGAC

Alignment

ORF - retro_etel_370 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.41 %
• Parental protein coverage: 54.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GYYQRMLVVLLQTNRDPDTGVDEAQVEHDAQVLFRAGELKWGTDEEKFITIFGTRSVSHLRRVFDKYMTI
          G..QRMLV.L.Q..RDPDTG.DEA.VE.DAQVLF.AGELKWG..EE.FITIFGTRSVSHLRRVFDKYMT.
Retrocopy GTRQRMLVALRQARRDPDTGLDEAPVEQDAQVLF*AGELKWGMGEE*FITIFGTRSVSHLRRVFDKYMTM

Parental  SGFQIEETIDRETSGNLEQLLLAVVKSIRSIPGYLAETLYRALKGAGTDDHT-LIRVVVSRSEIDLFNIR
          SGF..EE.IDRETSGN.EQLLLAVVK..RS.P..LA.TL..A.....TDDHT.LIRVVVS.SEIDLFNIR
Retrocopy SGFPVEESIDRETSGNWEQLLLAVVKATRSTPAHLADTLAHATQ---TDDHT<LIRVVVSQSEIDLFNIR

Parental  KEFRKNFASSLYSMIKGDTSGDYKKALLMLCGGEDD
          .EFRKNFA.SL.SMIKG.TSGDYKK.LLMLCGGEDD
Retrocopy MEFRKNFATSLCSMIKGETSGDYKKTLLMLCGGEDD

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_370 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021746	1 retrocopy	retro_btau_308,
Echinops telfairi	ENSETEG00000002187	3 retrocopies	retro_etel_1728, retro_etel_370 , retro_etel_901,
Echinops telfairi	ENSETEG00000018299	1 retrocopy	retro_etel_573,
Macropus eugenii	ENSMEUG00000003853	3 retrocopies	retro_meug_1071, retro_meug_1782, retro_meug_985,
Otolemur garnettii	ENSOGAG00000003878	1 retrocopy	retro_ogar_2257,