RetrogeneDB ID: retro_etel_259

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4412:185870..186111(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000008663
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: VAMP1
• Ensembl ID: ENSETEG00000002527
• Aliases: None
• Description: vesicle-associated membrane protein 1 (synaptobrevin 1) [Source:HGNC Symbol;Acc:12642]

Sequence

>retro_etel_259
CAGAGGCTGCAGCTGACACAAAACCAAGTGGAAAAGGTGATGGACATCATGCGTGTCAACGTGGACAAGGTGTTTGAAAG
AGACCAGAAGCTTTCTGAGCTGGACGACCGGGTGGATGCACTGCAGGCAGGATCTTCTCAATTTGAAACACGTGCTGCCA
AGTTAGCAGAAATCCCGGTGGAAGAATCGCAAGCTGTGGGCAGTTGGGATTAGCGTGGTGGTTCTCAACACCATCATCAG
C

Alignment

ORF - retro_etel_259 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.9 %
• Parental protein coverage: 70.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RRLQQTQAQVEEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFESSAAKL-KRKYWWKNCKMMIM
          .RLQ.TQ.QVE.V.DIMRVNVDKV.ERDQKLSELDDR.DALQAG.SQFE..AAKL.....W.KN.K....
Retrocopy QRLQLTQNQVEKVMDIMRVNVDKVFERDQKLSELDDRVDALQAGSSQFETRAAKL>QKSRW-KNRKLWAV

Parental  LGAICAIIVVVIVS
          ...I.......I.S
Retrocopy --GISVVVLNTIIS

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_259 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002527	1 retrocopy	retro_etel_259 ,
Ictidomys tridecemlineatus	ENSSTOG00000007482	1 retrocopy	retro_itri_67,