RetrogeneDB ID: retro_etel_2184

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_93618:1012..1802(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000019930
• Aliases: None
• Description: None

Sequence

>retro_etel_2184
CATCACTACCCTGGACCCGGAAACCACTTCTGGCATTGGTCTGTTCATGTCCAGGCTGAGCGAGGTGCAGCTCCCTCACA
TGGACGACCACACCCTGCCCGGGAAGTATGGGGTTGGATTCACCAACATGGTGGAGAGGATGACTCCTGGCAGCAAGGAT
CTTTCCAGTAAAGAATTTCATGAAGGCGGACGTATTCTAGTGCAGAAATTACAGAAATATCAGCCACGAATAGTGGTGTT
TAATGGAAAATGTATCTATGAAATCTCTAATAAAGAAGTGTTTGGAATGAAGATTAAGAATTTAGAATTCGGACTACAGC
CTCATAAGATCCCAGACACTGAAACACTGTGCTACGCCATGCCGTCGTCCAGCGCCCGGTGTGCTCAGTTTCCTCGTGCC
CAAGACAAAGTACATTACTACATCAAACTGAAGCACCTGCGGGACCAGCTTTAGGGCGTGGAACGAAACACTGACATTTA
GGAAGTGCAATATACATTTGACTTACAGCTCGCCCAAAAGGATGCAAAGAAGATGGCTGTGAAGGAAGAGAAGTATGATC
CATGCTATGAAGCAGCGTACGGTGGTGCTTACGGGGAGAATGTCTGCCATCGCGAACTAGGGAGCTGTTCTTCCAACGAG
CTCACAGCCGAGGGTGCAGAATTACACGGAGAATCAACGCTAAGTGACAATCCAAACGGGCAGTGGATGACCCAGTCATT
TACAGACCAGATCCCTTCCTTTAATAGCCCCTGTGAAACGCAAACTCCTCCGGAAGAAGGAAACCAGGCC

Alignment

ORF - retro_etel_2184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.15 %
• Parental protein coverage: 63.66 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HHYPGPGNHFWKC-LFMSGLSEVQLNHMDDHTLPGKYGIGFTNMVERTTPGSKDLSSKEFREGGRILVQK
          HHYPGPGNHFW...LFMS.LSEVQL.HMDDHTLPGKYG.GFTNMVER.TPGSKDLSSKEF.EGGRILVQK
Retrocopy HHYPGPGNHFWHW>LFMSRLSEVQLPHMDDHTLPGKYGVGFTNMVERMTPGSKDLSSKEFHEGGRILVQK

Parental  LQKYQPRIAVFNGKCIYEIFSKEVFGVKVKNLEFGLQPHKIPDTETLCYVMPSSSARCAQFPRAQDKVHY
          LQKYQPRI.VFNGKCIYEI..KEVFG.K.KNLEFGLQPHKIPDTETLCY.MPSSSARCAQFPRAQDKVHY
Retrocopy LQKYQPRIVVFNGKCIYEISNKEVFGMKIKNLEFGLQPHKIPDTETLCYAMPSSSARCAQFPRAQDKVHY

Parental  YIKLKDLRDQLKGVVRNTDIQEVQYTFDLQLAQEDAKKMAVKEEKYDPGYEAAYGGAYGENVCHREPGSC
          YIKLK.LRDQL.GV.RNTDI.EVQYTFDLQLAQ.DAKKMAVKEEKYDP.YEAAYGGAYGENVCHRE.GSC
Retrocopy YIKLKHLRDQL*GVERNTDI*EVQYTFDLQLAQKDAKKMAVKEEKYDPCYEAAYGGAYGENVCHRELGSC

Parental  SSNGIT-EGAELPGESTLSDNPNGQWMTQSFTDQIPSFNSPCETQT-PEEGNQA
          SSN..T.EGAEL.GESTLSDNPNGQWMTQSFTDQIPSFNSPCETQT.PEEGNQA
Retrocopy SSNELTAEGAELHGESTLSDNPNGQWMTQSFTDQIPSFNSPCETQTPPEEGNQA

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_2184 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 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000013722	1 retrocopy	retro_dnov_1749,
Echinops telfairi	ENSETEG00000019930	1 retrocopy	retro_etel_2184 ,
Homo sapiens	ENSG00000139372	1 retrocopy	retro_hsap_980,
Loxodonta africana	ENSLAFG00000003813	1 retrocopy	retro_lafr_460,
Mus musculus	ENSMUSG00000034674	4 retrocopies	retro_mmus_1125, retro_mmus_1363, retro_mmus_3040, retro_mmus_637,
Oryctolagus cuniculus	ENSOCUG00000016313	1 retrocopy	retro_ocun_1289,
Rattus norvegicus	ENSRNOG00000027124	1 retrocopy	retro_rnor_2286,