RetrogeneDB ID: retro_etel_487

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8031:948..1518(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DUSP11
• Ensembl ID: ENSETEG00000005304
• Aliases: None
• Description: dual specificity phosphatase 11 (RNA/RNP complex 1-interacting) [Source:HGNC Symbol;Acc:3066]

Sequence

>retro_etel_487
GAAAAAGACAAACTTATTGGGGTTCACTGTACCCATGGCTTAAACAGGACTGGCTATCTCATCTGTAGATACTTGATTGA
TGTAGAAGGCATGCGGCCAGATGATGCAATTGAATTATTTAACAGGTGCCGGGGAAATTGCATAGAAAGGAAAAACTACA
TTGAAGACCTTCAGAATGGACCTGCCAGGAAGAACTGGGGTTCCAGTAGGTCCAGGTCCAGTGGTTTTGAAGCATCACCA
CATCTCATGGAACCAATGTCTACTACGACTCCGTTTGGTCACCAAGGATCTGGGTATAACTTCCATCGGAACCAAGTGTA
CCCAGCCCCATCCTGGCATTTCCACGCTCAGCCCCAGGATTTCCAGCACCCAGTCAGGACATTTTCACACAATCAGCATG
TTTACCAGAGAGGCCTTGCTCCCCCACCCCCTCCGGGTCCCCCTGGGCAGCACTATTCCCAAAGCAGATACTCTTGGAAT
GTCAAGCCGGACACCAGTCAAGCCGCCCAGAACAGAAGATTCCCTCCCAGCAGACCTCACCACAGATCGTACTATTGACC
CTGTGGGGGT

Alignment

ORF - retro_etel_487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.68 %
• Parental protein coverage: 81.3 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DNDKLIGVHCTHGLNRTGYLICRYLIDVEGMRPDDAIELFNRCRGHCIERKNYIEDLQNGTARKNWGSSR
          ..DKLIGVHCTHGLNRTGYLICRYLIDVEGMRPDDAIELFNRCRG.CIERKNYIEDLQNG.ARKNWGSSR
Retrocopy EKDKLIGVHCTHGLNRTGYLICRYLIDVEGMRPDDAIELFNRCRGNCIERKNYIEDLQNGPARKNWGSSR

Parental  SRSSGFEASPHLMEPVYYE--FGHQGSGYNFHRNQVYPAPSWHFHAQPQDFQHPVRTFSHNQHVYQRGLA
          SRSSGFEASPHLMEP......FGHQGSGYNFHRNQVYPAPSWHFHAQPQDFQHPVRTFSHNQHVYQRGLA
Retrocopy SRSSGFEASPHLMEPMSTTTPFGHQGSGYNFHRNQVYPAPSWHFHAQPQDFQHPVRTFSHNQHVYQRGLA

Parental  PPPPPGPPGQHYSQSRYSWNVKPDTSQAAQNRRFPPSRPHHRSYY-PRGG
          PPPPPGPPGQHYSQSRYSWNVKPDTSQAAQNRRFPPSRPHHRSYY.P.GG
Retrocopy PPPPPGPPGQHYSQSRYSWNVKPDTSQAAQNRRFPPSRPHHRSYY*PCGG

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_487 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012041	2 retrocopies	retro_chof_2647, retro_chof_932,
Echinops telfairi	ENSETEG00000005304	1 retrocopy	retro_etel_487 ,
Macropus eugenii	ENSMEUG00000009370	1 retrocopy	retro_meug_1073,
Tupaia belangeri	ENSTBEG00000014600	1 retrocopy	retro_tbel_1984,
Tursiops truncatus	ENSTTRG00000015444	5 retrocopies	retro_ttru_1220, retro_ttru_1512, retro_ttru_1627, retro_ttru_1746, retro_ttru_1877,