RetrogeneDB ID: retro_etel_261

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4427:134685..135334(-)
• Located in intron of: ENSETEG00000004050

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZWINT
• Ensembl ID: ENSETEG00000007793
• Aliases: None
• Description: ZW10 interacting kinetochore protein [Source:HGNC Symbol;Acc:13195]

Sequence

>retro_etel_261
ATGGAGGCGGAGGTCTTAAAGGCATTGGCCAAATTGAGTACCATTCTGGAGCCCGCAGGCTTGCAGGAAGAAGCAGAGCT
GCCTGCACAGATGTTGGCTGAGTTTGTGATGGACTCTCGGAAGAAGGACAAGCTTCTGTGTAGCCAGCTGCCAGTAGCGG
ACTTCCTGCAGAGTTTCATGGTGAATGAGGACACTGCCCAGGGTCTAGCTTCTGAAGACACAAGCCGGAAAATGGCAGCA
GAAGCCAAGGAGCAGTGGAAAGAGCTGAAGGCCACCTATCAGGAACACGTGGAGGCCATCACAAGTGGTCTGAAGCAGGC
CCTGCCTCTGATGGAGGAGGCCCGGCTGAAGCAGGCCAAGCTCCAGGGGGCGCTTGAGCAGCTCCAGGCCAAGAAGCAAG
TGGCCATGGAGACACAAAGGGCAGCCCAGCAGCAGTGGCAACTACAGCAGGAGATGCATGTGCAGCATGTGGCAGAAATA
AGAGATCGACATTAGGGAAACTCAGCAGGAGGTTGAACGGCTGTATCAGGACCTCGGAAGCTTGATGAGTCAGGCCGAAC
AGGAACGGGATAAGCTGCACAGACACCAGGCCTTCCTGCAGCTACTGTGCAACCTGCAGAATCAGATGCTCCCCGAGGCG
GAGGCAGAG

Alignment

ORF - retro_etel_261 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.7 %
• Parental protein coverage: 84.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEAEVLKALAKLSTVLEPAGLQEEAELPAQMLAEFVMDSRKKDKLLCSQLQVADFLQSFMVNEDTAQGLA
          MEAEVLKALAKLST.LEPAGLQEEAELPAQMLAEFVMDSRKKDKLLCSQL.VADFLQSFMVNEDTAQGLA
Retrocopy MEAEVLKALAKLSTILEPAGLQEEAELPAQMLAEFVMDSRKKDKLLCSQLPVADFLQSFMVNEDTAQGLA

Parental  SEDTSRKMAAEAKEQWKELKATYQEHVEAITSGLKQALPLMEEARLKQAQLQGALEQLQAKKQVAMETQR
          SEDTSRKMAAEAKEQWKELKATYQEHVEAITSGLKQALPLMEEARLKQA.LQGALEQLQAKKQVAMETQR
Retrocopy SEDTSRKMAAEAKEQWKELKATYQEHVEAITSGLKQALPLMEEARLKQAKLQGALEQLQAKKQVAMETQR

Parental  AAQQQWQLQQEMHVQHVAEIRDRQ-RETQQEVERLYQDLGSLMSQAEQERDKLHRHQAFLQLLCNLQNQM
          AAQQQWQLQQEMHVQHVAEIRDR..RETQQEVERLYQDLGSLMSQAEQERDKLHRHQAFLQLLCNLQNQM
Retrocopy AAQQQWQLQQEMHVQHVAEIRDRH>RETQQEVERLYQDLGSLMSQAEQERDKLHRHQAFLQLLCNLQNQM

Parental  LPEAEAE
          LPEAEAE
Retrocopy LPEAEAE

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_261 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002655	1 retrocopy	retro_btau_239,
Echinops telfairi	ENSETEG00000007793	1 retrocopy	retro_etel_261 ,
Mus musculus	ENSMUSG00000019923	3 retrocopies	retro_mmus_1488, retro_mmus_2611, retro_mmus_997,
Rattus norvegicus	ENSRNOG00000048682	2 retrocopies	retro_rnor_1211, retro_rnor_1306,
Tarsius syrichta	ENSTSYG00000010283	1 retrocopy	retro_tsyr_1005,
Tursiops truncatus	ENSTTRG00000002204	1 retrocopy	retro_ttru_1193,