RetrogeneDB ID: retro_etel_434

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_714:69186..69573(-)
• Located in intron of: ENSETEG00000006133

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC25
• Ensembl ID: ENSETEG00000006478
• Aliases: None
• Description: coiled-coil domain containing 25 [Source:HGNC Symbol;Acc:25591]

Sequence

>retro_etel_434
AACTCATCTGCTTACACTGTTTACATGGGAAAGGATAAATATAAAAATGGAGGTCTAATAAAGTATGGCTGGCCAGAAGA
TACTTGGTTTCATGTGGAAAAACTCTTTGGCTCACGTCTATCCTCGATTACAGAAGGGGGAGAACATAGAAGATATTCAA
AGGAAGTGCGGGCGGACTGCACACACCTTGTGAAGGCCAATAGCATCCAAGGCTGCAAGATGAACAACGTTAACTTGGTA
TACACACCGTGGTCTAACCGGAAGAAAACAGCTGACGTGGATGTGGGACAGGTAGGCTTTCACAGGCAAAAGGATGTAAA
AACTGTGACAGCGGAGAAGAAAATGAATGGAATACTGAACCGATTAGAACAGACCAAAATGGAAAGG

Alignment

ORF - retro_etel_434 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.28 %
• Parental protein coverage: 64.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SSSTYTIYMGKDKYENEDLIKYGWPEDIWFHVDKLS-AHVYLRLQKGENIEDIPQ-EKLTECAHLVKVS-
          .SS.YT.YMGKDKY.N..LIKYGWPED.WFHV.KL..AHVY.RLQKGENIEDI...E....C.HLVK...
Retrocopy NSSAYTVYMGKDKYKNGGLIKYGWPEDTWFHVEKLF>AHVYPRLQKGENIEDIQR<EVRADCTHLVKANS

Parental  ---CKMNNVNVVYTPWSNLKKTADMDVGQIGFHRQKDVKIVAVEKKVNEILNRLERTKMER
          ...CKMNNVN.VYTPWSN.KKTAD.DVGQ.GFHRQKDVK.V..EKK.N.ILNRLE.TKMER
Retrocopy IQGCKMNNVNLVYTPWSNRKKTADVDVGQVGFHRQKDVKTVTAEKKMNGILNRLEQTKMER

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_434 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012971	2 retrocopies	retro_chof_2254, retro_chof_847,
Dipodomys ordii	ENSDORG00000006595	1 retrocopy	retro_dord_491,
Echinops telfairi	ENSETEG00000006478	1 retrocopy	retro_etel_434 ,
Homo sapiens	ENSG00000147419	1 retrocopy	retro_hsap_1701,
Gorilla gorilla	ENSGGOG00000009685	1 retrocopy	retro_ggor_1274,
Monodelphis domestica	ENSMODG00000015976	1 retrocopy	retro_mdom_511,
Pongo abelii	ENSPPYG00000018468	2 retrocopies	retro_pabe_1364, retro_pabe_477,
Pan troglodytes	ENSPTRG00000020109	1 retrocopy	retro_ptro_141,
Tarsius syrichta	ENSTSYG00000000732	1 retrocopy	retro_tsyr_1364,