RetrogeneDB ID: retro_etel_1111

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_213018:661..898(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000016856
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CDC42SE1
• Ensembl ID: ENSETEG00000019984
• Aliases: None
• Description: CDC42 small effector 1 [Source:HGNC Symbol;Acc:17719]

Sequence

>retro_etel_1111
ATGAGTGAATTCTGGCACAAACTGGGCTGCTGTGTGGTAGAGAAACCCCAGCCGAAAAAGAAGAGGAGATGGATTGACTG
AGCTATGATTGGGGAACTGATGAATTTCGTTCACCTGACTCACATTGGCTCTGGGGAGATGGGAGCTGGAGATGGACTCG
CCATGACAGGTGCCGTTCAGGAGCAAATGAGATCCAAGGGAAACCGAGACAGGCCGTGGCGCAATTCAAGGGGCTTG

Alignment

ORF - retro_etel_1111 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSEFWHKLGCCVVEKPQPKKKRRRIDRTMIGEPMNFVHLTHIGSGEMGAGDGLAMTGAVQEQMRSKGNRD
          MSEFWHKLGCCVVEKPQPKKKRR.ID..MIGE.MNFVHLTHIGSGEMGAGDGLAMTGAVQEQMRSKGNRD
Retrocopy MSEFWHKLGCCVVEKPQPKKKRRWID*AMIGELMNFVHLTHIGSGEMGAGDGLAMTGAVQEQMRSKGNRD

Parental  RPWSNSRGL
          RPW.NSRGL
Retrocopy RPWRNSRGL

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_1111 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015363	1 retrocopy	retro_btau_894,
Dipodomys ordii	ENSDORG00000007370	1 retrocopy	retro_dord_322,
Echinops telfairi	ENSETEG00000019984	1 retrocopy	retro_etel_1111 ,
Mus musculus	ENSMUSG00000046722	1 retrocopy	retro_mmus_3360,
Tursiops truncatus	ENSTTRG00000007000	1 retrocopy	retro_ttru_549,