RetrogeneDB ID: retro_etel_661

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_135229:87..498(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB10
• Ensembl ID: ENSETEG00000010795
• Aliases: None
• Description: RAB10, member RAS oncogene family [Source:HGNC Symbol;Acc:9759]

Sequence

>retro_etel_661
GATACAGCAGGCCAAGAGCGATTCCACACCATCACAACCTCCTACTACAGGGGAGCAATGGGTATTATGCTAGTATATGA
CATCACCAATGGTAAAAGTTTTGAAAACATCAGCAAATGGCTTAGAAACATAGATGAGCACGCCAATGAAGATGTGGAAA
GAATGTTGCTAGGCAACAAGTGTGACATGGACGATAAAAGAGTTGTACCAAAAGGCAAAGGAGAACAGATTGCAAGGGAG
CATGGTATAAGATTTTTTGAGACTAGTGCAAAAGCAAATATAAACATCGAAAAGGCGTTCCTCACATTAGCTGAAGATAT
CCTTCGAAAGACCCCTGTCAAAGAGCCCAACAGTGAGAATGTAGATATCAGCAGCGGAGGCGGCGGGACAGGCTGGAGGA
GCAAATGCTGC

Alignment

ORF - retro_etel_661 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.35 %
• Parental protein coverage: 68.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DTAGQERFYTITTSYYRGAMGIMLVYDITNGKSFEKINKWLTNIDDHANEDVERMLLGNKCDMDDKRVVP
          DTAGQERF.TITTSYYRGAMGIMLVYDITNGKSFE.I.KWL.NID.HANEDVERMLLGNKCDMDDKRVVP
Retrocopy DTAGQERFHTITTSYYRGAMGIMLVYDITNGKSFENISKWLRNIDEHANEDVERMLLGNKCDMDDKRVVP

Parental  KGKGEQIAREHGIRFFETSAKANINIEKAFLTLAEDILRKTPVKEPNSENVDISSGGGGTGWRSKCC
          KGKGEQIAREHGIRFFETSAKANINIEKAFLTLAEDILRKTPVKEPNSENVDISSGGGGTGWRSKCC
Retrocopy KGKGEQIAREHGIRFFETSAKANINIEKAFLTLAEDILRKTPVKEPNSENVDISSGGGGTGWRSKCC

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_661 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000003959	1 retrocopy	retro_cint_21,
Echinops telfairi	ENSETEG00000002205	2 retrocopies	retro_etel_1687, retro_etel_413,
Echinops telfairi	ENSETEG00000010795	1 retrocopy	retro_etel_661 ,
Myotis lucifugus	ENSMLUG00000009937	1 retrocopy	retro_mluc_2453,
Monodelphis domestica	ENSMODG00000015821	1 retrocopy	retro_mdom_1577,
Tupaia belangeri	ENSTBEG00000016698	1 retrocopy	retro_tbel_4738,