RetrogeneDB ID: retro_etel_1922

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_314414:82648..82912(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000014969
• Aliases: None
• Description: None

Sequence

>retro_etel_1922
GGGGATGATGGCCAGGCCAGGCCCAACGAGGGCAAGGTGGACTCCTGCCTGTGACGGGCCGCTCTGTCCACCTGCCCCGT
CACCCTAATCAACACCAAGAGATAGGCTGTCAAGGATCAAGTGGGCAGCATTGTCTGGAAGGAGCTCGTCTCTTTTAAAG
CTAATGATATTGAAAAGGCAGCGCCATCTCTGGACCAGAATGGTGTAGATCTCCTAATGACGGAGATTTCTAAAGGCTTT
GGGAGCCCCTCTGGCAATAGCAGT

Alignment

ORF - retro_etel_1922 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.36 %
• Parental protein coverage: 59.86 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGDGQAGPDEGENMAAALQAALKNPP---INTKSQAVKDRAGSIVLKVLISFKANDIEKAVQSLDKSGVD
          G.DGQA.P.EG........AAL...P...INTK..AVKD..GSIV.K.L.SFKANDIEKA..SLD..GVD
Retrocopy GDDGQARPNEGKVDSCL*RAALSTCPVTLINTKR*AVKDQVGSIVWKELVSFKANDIEKAAPSLDQNGVD

Parental  LLMKYIYKGFESPFGSSS
          LLM..I.KGF.SP.G.SS
Retrocopy LLMTEISKGFGSPSGNSS

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_1922 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 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000560	2 retrocopies	retro_chof_1502, retro_chof_783,
Dasypus novemcinctus	ENSDNOG00000010375	3 retrocopies	retro_dnov_1277, retro_dnov_199, retro_dnov_2495,
Equus caballus	ENSECAG00000019128	1 retrocopy	retro_ecab_1104,
Echinops telfairi	ENSETEG00000014969	1 retrocopy	retro_etel_1922 ,
Monodelphis domestica	ENSMODG00000007194	1 retrocopy	retro_mdom_968,
Mus musculus	ENSMUSG00000008475	1 retrocopy	retro_mmus_281,
Rattus norvegicus	ENSRNOG00000028062	1 retrocopy	retro_rnor_1873,
Tupaia belangeri	ENSTBEG00000006295	8 retrocopies	retro_tbel_1822, retro_tbel_1933, retro_tbel_1962, retro_tbel_2504, retro_tbel_3191, retro_tbel_3192, retro_tbel_3197, retro_tbel_3806,