RetrogeneDB ID: retro_etel_952

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_190257:3266..3547(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB4
• Ensembl ID: ENSETEG00000000932
• Aliases: None
• Description: MOB family member 4, phocein [Source:HGNC Symbol;Acc:17261]

Sequence

>retro_etel_952
AATGGACTTGCTGTCAGACTTCAGAGTGTGTGCCAGACATATACATGGACCCAGAGGATAGCAATTGAGCAATGAACTTT
CCTTGTGTAGCTCACAAAACTCCAAAAGAGTGTCCTGCTATAGACTACATCAGGCACACACTTGATGGTGCTTCCTGTCT
TCTGAATAGCAGTAAATGTTTTCCTAGCAGTGTTGGCATAGAGGACTAATCTGTAGCAAAGCTGAAATAACTATGCTGTA
GTGTTCATACAATATTTTCACATCTTTATTCTCATCACCAG

Alignment

ORF - retro_etel_952 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.26 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NGLAVKLQSECHPDTCTQMTATEQWIFL-CAAHKTPKECPAIDYTRHTLDGAACLLNSNKYFPSRVSIKE
          NGLAV.LQS.C...T.TQ..A.EQ..FL.C.AHKTPKECPAIDY.RHTLDGA.CLLNS.K.FPS.V.I..
Retrocopy NGLAVRLQSVCQTYTWTQRIAIEQ*TFL<CVAHKTPKECPAIDYIRHTLDGASCLLNSSKCFPSSVGIED

Parental  SSVAKLGSVCRRIYRIFSHAYFHHR
          .SVAKL...C.....IFSH.Y.HH.
Retrocopy *SVAKLK*LCCSVHTIFSHLYSHHQ

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_952 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000932	1 retrocopy	retro_etel_952 ,
Latimeria chalumnae	ENSLACG00000015430	1 retrocopy	retro_lcha_112,
Monodelphis domestica	ENSMODG00000012305	2 retrocopies	retro_mdom_1333, retro_mdom_963,
Nomascus leucogenys	ENSNLEG00000006881	2 retrocopies	retro_nleu_287, retro_nleu_376,
Oryctolagus cuniculus	ENSOCUG00000005712	1 retrocopy	retro_ocun_30,
Pan troglodytes	ENSPTRG00000012775	3 retrocopies	retro_ptro_1609, retro_ptro_626, retro_ptro_640,
Sarcophilus harrisii	ENSSHAG00000017821	1 retrocopy	retro_shar_351,
Sus scrofa	ENSSSCG00000016079	2 retrocopies	retro_sscr_804, retro_sscr_824,
Tarsius syrichta	ENSTSYG00000001726	1 retrocopy	retro_tsyr_1673,