RetrogeneDB ID: retro_etel_2107

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_62160:1007..1378(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DESI1
• Ensembl ID: ENSETEG00000005136
• Aliases: None
• Description: desumoylating isopeptidase 1 [Source:HGNC Symbol;Acc:24577]

Sequence

>retro_etel_2107
ATGGAGCCGCCGCATCTCTATCCGGTGATGCTCTACGTGTACGACCTGTCTAAGGGCCTGGCCCGGAGAATCAGCCCCAT
CATGCTGGGGAAACAGCTGGAAGGCATCTGGCATACCTCCATAGTGGTGCACAGAGAGAGTTCTTCTTCGGCAGTGGCGG
CATCTCCAGCTGTCCCCCGGGCGGGACATTGCTTGGGCCCCCAGACTCGGTGGTGGACGTGGGGAGCACAGAAGTCAGCA
AAGACATCTTCCTGGAGTACCTGTCTTCCCTGGGAGAGTCTCTGTTCCGAGGAGAGGCTTATAACCTCTTGGAACACAAC
TGCAACACATTCAGCAATGAAGTGGCCCAGTTCCTGACCGGGAGGGAGATC

Alignment

ORF - retro_etel_2107 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.4 %
• Parental protein coverage: 73.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEPPHLYPVKLYVYDLSKGLARRLSPIMLXXXXXXXXHTSIVVHRD-EFFFGSGGISSCPPGGTLLGPPD
          MEPPHLYPV.LYVYDLSKGLARR.SPIML........HTSIVVHR..EFFFGSGGISSCPPGGTLLGPPD
Retrocopy MEPPHLYPVMLYVYDLSKGLARRISPIMLGKQLEGIWHTSIVVHRE<EFFFGSGGISSCPPGGTLLGPPD

Parental  SVVDVGSTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFSNEVAQFLTGRKI
          SVVDVGSTEV...IFLEYLSSLGESLFRGEAYNL.EHNCNTFSNEVAQFLTGR.I
Retrocopy SVVDVGSTEVSKDIFLEYLSSLGESLFRGEAYNLLEHNCNTFSNEVAQFLTGREI

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_2107 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018941	1 retrocopy	retro_cjac_1874,
Echinops telfairi	ENSETEG00000005136	1 retrocopy	retro_etel_2107 ,
Monodelphis domestica	ENSMODG00000016577	2 retrocopies	retro_mdom_1548, retro_mdom_684,
Ictidomys tridecemlineatus	ENSSTOG00000009480	1 retrocopy	retro_itri_1719,