RetrogeneDB ID: retro_etel_2046

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_40650:657..998(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000004856
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000012052
• Aliases: None
• Description: None

Sequence

>retro_etel_2046
ATGCCCTTGTTCGTGGTGAACACCAACGTGCCCCGTGCCTCTGTGCCGGACGGGCTGTTCTCCGAGCTCACCCAGCAACT
AGCGCAGGCCACCGGCAAGCCGGCCCAGTACATCGCCGTGCACGTGGTCCTCGACCAGCTCATGGTGTTCGGCGGCTCTG
GCGAACCGTGTGCCCTCTGCACCTGCACAGCATCGGCAAGATCGGCGAGGCCCAGAACCGCACCTACAGCAAGCTGTTGT
GCGGCCTGCTGGCCGAGCGCCTGCGCATCAGCCCGGAGAGGATCTACATCAACGACTATGACATGAACGCCGCCAACGTG
GGTTGGAACGGCTCCACCTTC

Alignment

ORF - retro_etel_2046 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.43 %
• Parental protein coverage: 98.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPMFVVNTNVPRASVPDGLLSELTQQLAQATGKPAQYIAVHVVPDQLMVFGGSGEPCALCS-LHSIGKIG
          MP.FVVNTNVPRASVPDGL.SELTQQLAQATGKPAQYIAVHVV.DQLMVFGGSGEPCALC..LHSIGKIG
Retrocopy MPLFVVNTNVPRASVPDGLFSELTQQLAQATGKPAQYIAVHVVLDQLMVFGGSGEPCALCT<LHSIGKIG

Parental  GAQNRTYSKLLCGLLAERLRISSERIYINYYDMNASNVGWNGFPF
          .AQNRTYSKLLCGLLAERLRIS.ERIYIN.YDMNA.NVGWNG..F
Retrocopy EAQNRTYSKLLCGLLAERLRISPERIYINDYDMNAANVGWNGSTF

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_2046 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 8 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010668	3 retrocopies	retro_cjac_2903, retro_cjac_3132, retro_cjac_357,
Cavia porcellus	ENSCPOG00000013520	1 retrocopy	retro_cpor_879,
Dasypus novemcinctus	ENSDNOG00000014555	1 retrocopy	retro_dnov_36,
Equus caballus	ENSECAG00000012792	1 retrocopy	retro_ecab_1122,
Echinops telfairi	ENSETEG00000012052	3 retrocopies	retro_etel_2001, retro_etel_2046 , retro_etel_509,
Mus musculus	ENSMUSG00000033307	8 retrocopies	retro_mmus_1573, retro_mmus_1759, retro_mmus_1878, retro_mmus_2182, retro_mmus_2444, retro_mmus_3016, retro_mmus_3315, retro_mmus_489,
Ochotona princeps	ENSOPRG00000012184	1 retrocopy	retro_opri_968,
Rattus norvegicus	ENSRNOG00000006589	6 retrocopies	retro_rnor_137, retro_rnor_1608, retro_rnor_1644, retro_rnor_2263, retro_rnor_31, retro_rnor_361,