RetrogeneDB ID: retro_etel_955

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_190623:0..459(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000020142
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: F11R
• Ensembl ID: ENSETEG00000016382
• Aliases: None
• Description: F11 receptor [Source:HGNC Symbol;Acc:14685]

Sequence

>retro_etel_955
AAAGTCACCGAGAATCAATTTGCCAGATTGACCTGCGGCTACTCCGGCTTCTCCAGCCCCTGTGTGGAGTGGAAATTTGT
CCAAAACGACATCAGCAGCCTTGTTTGCTATAACAACAAGATCACCACTTCCTATGAGGGCCAAGTTACCTTCTCACCAT
ATGACATCACCATCCATTCTGTGACTCGGAATGCATGCATGGTGTGCATATGTGTGTGTATGGTCTCAGAGGATGGCGGC
AACAACTACGGGGAGGTCAACGTGCAGCTCATTGTGCTTGTGCCTACAGTGAACATCCCCTCTTCTGTCACCAGTGGAAA
CTGGGTAGTGCTGACCTGCTCAGAGCAAGATGGTTCCGATCCCTCTAAATATACCTGGTTCAAGGATGGGATAATGATGC
CTACGGAGCCCAAGAGCAACTGCGCCTTCAGTAACTCATCTTATACCCTGATTCACAAG

Alignment

ORF - retro_etel_955 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.8 %
• Parental protein coverage: 55.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVAENQFARLTCIYSGFSNPRVEWKFVQGDTTSLVCYNNKITASYEGRVTFSPNDITIHSVTRKDNGMYT
          KV.ENQFARLTC.YSGFS.P.VEWKFVQ.D..SLVCYNNKIT.SYEG.VTFSP.DITIHSVTR.......
Retrocopy KVTENQFARLTCGYSGFSSPCVEWKFVQNDISSLVCYNNKITTSYEGQVTFSPYDITIHSVTRNACMVCI

Parental  C--MVSEDGGNNYGEVNVQLIVLVPPSKPTVSILTSVTIGNRVVLTCSEKDGSPPSEYTWFRNGVMMPTE
          C..MVSEDGGNNYGEVNVQLIVLVP....TV.I..SVT.GN.VVLTCSE.DGS.PS.YTWF..G.MMPTE
Retrocopy CVCMVSEDGGNNYGEVNVQLIVLVP----TVNIPSSVTSGNWVVLTCSEQDGSDPSKYTWFKDGIMMPTE

Parental  PKSTRAFSNSSYTLFQK
          PKS..AFSNSSYTL..K
Retrocopy PKSNCAFSNSSYTLIHK

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_955 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000000928	1 retrocopy	retro_eeur_154,
Echinops telfairi	ENSETEG00000016382	1 retrocopy	retro_etel_955 ,
Rattus norvegicus	ENSRNOG00000004414	1 retrocopy	retro_rnor_528,