RetrogeneDB ID: retro_etel_1731

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_290345:6334..6799(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000012395
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: OCIAD1
• Ensembl ID: ENSETEG00000005961
• Aliases: None
• Description: OCIA domain containing 1 [Source:HGNC Symbol;Acc:16074]

Sequence

>retro_etel_1731
AAGCTCTCTGAAGTGGAAACTTGCCAAGAGCAGTTTAAGAATCTCGAGAATTCTCCTCTTGGAGAGGCTTTACGGTTAGG
ACAGTCATGATGACCTGTACCACCTGGGCACTATTCTCAAGAGCCAACATATGATTCAAATGCCAGTGGTCATCCATCTT
TTGCGACATCCCCAGCATCCGACAAAATAGAAAGAGACGCACTTCCTCCTTATGAACCAATTCCATTCAGTGCTTCCATG
AATGAATCTACTCCCACTGGTATTACTGATCAAATTGCCCAAGAACCTGATCCCAAACTTGAAGAAAGTCCTAAAAGAAA
AAATATTACATATGAGGAATTAAGGAATAAGAACAGGGAGTCATATGAAGTAACTTTAACACAAAAGACCGACCCCTCAG
TAAGGCCTATGCAGGGGAGAATGCTTAAAGTTAAAGTTAACGAATACGGAGATACTTGGGATGAG

Alignment

ORF - retro_etel_1731 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.8 %
• Parental protein coverage: 69.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KLSYVKTCQEKFKNLENSPLGEALRSGQARRPAPSGHYSQKPKYDSDASGHPSFATSPASDNIERDALPR
          KLS.V.TCQE.FKNLENSPLGEALR.GQ...P.P.GHYSQ.P.YDS.ASGHPSFATSPASD.IERDALP.
Retrocopy KLSEVETCQEQFKNLENSPLGEALRLGQS**PVPPGHYSQEPTYDSNASGHPSFATSPASDKIERDALPP

Parental  YEPIPFSASMNESTPTGITDHVAQGPDPNIEESPKRKNITYEELRNKNRESYEVTLTHKTDPSVRPVQER
          YEPIPFSASMNESTPTGITD..AQ.PDP..EESPKRKNITYEELRNKNRESYEVTLT.KTDPSVRP.Q.R
Retrocopy YEPIPFSASMNESTPTGITDQIAQEPDPKLEESPKRKNITYEELRNKNRESYEVTLTQKTDPSVRPMQGR

Parental  LPKKEVKVNKYGDTWDE
          ..K..VKVN.YGDTWDE
Retrocopy MLK--VKVNEYGDTWDE

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_1731 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000011863	1 retrocopy	retro_cpor_928,
Echinops telfairi	ENSETEG00000005961	1 retrocopy	retro_etel_1731 ,
Latimeria chalumnae	ENSLACG00000014002	1 retrocopy	retro_lcha_88,
Macropus eugenii	ENSMEUG00000010655	2 retrocopies	retro_meug_1692, retro_meug_2016,
Monodelphis domestica	ENSMODG00000020640	1 retrocopy	retro_mdom_1103,
Sarcophilus harrisii	ENSSHAG00000018132	1 retrocopy	retro_shar_74,
Ictidomys tridecemlineatus	ENSSTOG00000014963	1 retrocopy	retro_itri_986,