RetrogeneDB ID: retro_etel_1012

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_200314:3699..4261(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TECR
• Ensembl ID: ENSETEG00000020013
• Aliases: None
• Description: trans-2,3-enoyl-CoA reductase [Source:HGNC Symbol;Acc:4551]

Sequence

>retro_etel_1012
ATGAAACACTATGAGGTGGAGATCCTGGACGGGAAGACACAGGAGAAGCTGTGCTTCCTGGACAAGGTGGAACCCCACGC
CACCATCGCAGAGATCAAGAACCTTTTCACCAAGAGCCATCCGCAGTGGTACCCTGCCCGCCAGTCCCTCCGCCTGGACC
CCAAGGGTAAGTCCCTGAAGGATGAGGATGTTCTACAGAAGCTGCCTGTGGGCACCACGGCCATGCTCTACTTCCGGGAC
CTCGGGGCCCAGATCAGCTGGGTGACGGTGTTCCTGACAGAGTATGCAGGGCCCCTCTTCATCTACCTGCTCTTCTACTT
CCGGGTGCCCTTCATCTACGGCCACAAATATGACTTCGCGTCCCAGCCGACACACAGTGGTGCACCTCGCCTGTATCTGC
CACTCATTCCACTACGTGAAACGTCTGCTGGAGACGATCTTTGTGCACCGCTTCTCGCACGGCACCATGCCCCTCCGCAA
CATCTTCAAGAATTGCACGTACTACTGGGGCTTCGCGGCCTGGATGGCCTATTACATTAACCACCCTCTCTACACGCCGC
CC

Alignment

ORF - retro_etel_1012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.23 %
• Parental protein coverage: 60.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKHYEVEILDGKTREKLCFLDKXXXXXXXXXXXXXXXXXXPQ-YPARQSLRLDPKSKSLKDEDVLQKLPV
          MKHYEVEILDGKT.EKLCFLDK..................PQ.YPARQSLRLDPK.KSLKDEDVLQKLPV
Retrocopy MKHYEVEILDGKTQEKLCFLDKVEPHATIAEIKNLFTKSHPQWYPARQSLRLDPKGKSLKDEDVLQKLPV

Parental  GTTATLYFRDLGAQISWVTVFLTEYAGPLFIYLLFYFRVPFIYGHKYDFTS-SRHTVVHLACICHSFHYV
          GTTA.LYFRDLGAQISWVTVFLTEYAGPLFIYLLFYFRVPFIYGHKYDF.S.SRHTVVHLACICHSFHYV
Retrocopy GTTAMLYFRDLGAQISWVTVFLTEYAGPLFIYLLFYFRVPFIYGHKYDFAS>SRHTVVHLACICHSFHYV

Parental  KRLLETIFVHRFSHGTMPLRNIFKNCTYYWGFAAWMAYYINHPLYTPP
          KRLLETIFVHRFSHGTMPLRNIFKNCTYYWGFAAWMAYYINHPLYTPP
Retrocopy KRLLETIFVHRFSHGTMPLRNIFKNCTYYWGFAAWMAYYINHPLYTPP

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_1012 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020013	1 retrocopy	retro_etel_1012 ,
Homo sapiens	ENSG00000099797	1 retrocopy	retro_hsap_3092,
Mus musculus	ENSMUSG00000031708	1 retrocopy	retro_mmus_1662,
Nomascus leucogenys	ENSNLEG00000013546	1 retrocopy	retro_nleu_124,
Pongo abelii	ENSPPYG00000009648	2 retrocopies	retro_pabe_2561, retro_pabe_3591,
Rattus norvegicus	ENSRNOG00000021808	1 retrocopy	retro_rnor_579,