RetrogeneDB ID: retro_etel_9

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_24736:797..1697(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000008639
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000000510
• Aliases: None
• Description: None

Sequence

>retro_etel_9
ATGGAAAAAAGATGGTGTGTCTCTCAACTCGAGCCCAAGTTGGCAGCAGGAAGTGGAACACACAGTCACGGGAACCAGTC
CACAGCTGTGCCCGCCTCTAGTTCAGGACCTCTTCAAAACCACCAGCATGTGGACAGCAACCATGAACTGGAGAATGTAG
CGGACTTAACTATGGGTCCTGGACATTCTCCTATTACACGAATGAATCCCACATCAGGAGCGCTGATCCCTCTCCCCCGT
CCCATTGGAACTGCCAACACCACCAAGAACCCGGTGGTGACAGCAGAGATGTGCTGCTACTGCTTTGATGTGCTCTACTG
TCACCTCTATGGCTGCCCACAGCCACGACTTCCTAGATTCACCAATGACCCCTATCCACTGTTTGTGACATGGAAGACAG
GGCGGGATAAGTGGCTCCGGGGCTGCATTGGAACCTTCTCAGCCATGAATCTTCACTCAGGACTCAGGAAATACTCGTTA
ACCAGTGCACTTAAGGACAGCCGATTTCCCCCAATGATGCCGGAGGAGCTACCTAAACTTTTCTGCTCTGTCTCCCTCTT
TACTGACTTTGAGGATGCCAGTGATTACCTGGACTGGGAGGTAGGGGTCCATGGCATTCGAATTGAATTCATCAATGAAA
AGGACATCACATGTACAGCCACATATTTACCTGAGGTTGCTAAAGAACAAGACTGGAGTCAGATCCAGACCATAGACTCA
TTGCTCAGGAAAGGTGGTTTAACGGCTCCTATTACCAGTGAATTCCGAAAAACGATCAAACTCACCAGGTACCGAAGTGA
GAAGGTGACACTCAGTTATGCAGAGTATATTGCTTCTCGCCAGCACTGCTTCCAGAATGGCACTCTTCATGCCCCACCCC
TCTACAATCATTACTCTTGA

Alignment

ORF - retro_etel_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.41 %
• Parental protein coverage: 94.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CCGVKKPKLS-GSGTHSHGNQSATVPASSSGPLQNHQHVDSNNGRENVSDLTLGPGNSPITRMNPTSGAL
          C.....PKL..GSGTHSHGNQS..VPASSSGPLQNHQHVDSN...ENV.DLT.GPG.SPITRMNPTSGAL
Retrocopy CVSQLEPKLAAGSGTHSHGNQSTAVPASSSGPLQNHQHVDSNHELENVADLTMGPGHSPITRMNPTSGAL

Parental  SPLPRPNGTANTTKNLVVTAEMCCYCFDVLYCHLYGFPQPRLPRFTNDXXPLFVTWKTGRDKRLRGCIGT
          .PLPRP.GTANTTKN.VVTAEMCCYCFDVLYCHLYG.PQPRLPRFTND..PLFVTWKTGRDK.LRGCIGT
Retrocopy IPLPRPIGTANTTKNPVVTAEMCCYCFDVLYCHLYGCPQPRLPRFTNDPYPLFVTWKTGRDKWLRGCIGT

Parental  FSAMNLHSGLREYTLTSALKDSRFPPLTREELPKLFCSVSLLTNFEDASDYLDWEVGVHGIRIEFINEKG
          FSAMNLHSGLR.Y.LTSALKDSRFPP...EELPKLFCSVSL.T.FEDASDYLDWEVGVHGIRIEFINEK.
Retrocopy FSAMNLHSGLRKYSLTSALKDSRFPPMMPEELPKLFCSVSLFTDFEDASDYLDWEVGVHGIRIEFINEKD

Parental  IKRTATYLPEVAKEQDWDQIQTIDSLLRKGGFKAPITSEFRKTIKLTRYRSENVSLSYAEYIASRQHCFQ
          I..TATYLPEVAKEQDW.QIQTIDSLLRKGG..APITSEFRKTIKLTRYRSE.V.LSYAEYIASRQHCFQ
Retrocopy ITCTATYLPEVAKEQDWSQIQTIDSLLRKGGLTAPITSEFRKTIKLTRYRSEKVTLSYAEYIASRQHCFQ

Parental  NGTLHAPPLYNHYS
          NGTLHAPPLYNHYS
Retrocopy NGTLHAPPLYNHYS

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_9 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 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009373	1 retrocopy	retro_chof_1566,
Callithrix jacchus	ENSCJAG00000010743	1 retrocopy	retro_cjac_383,
Equus caballus	ENSECAG00000023095	1 retrocopy	retro_ecab_1085,
Echinops telfairi	ENSETEG00000000510	1 retrocopy	retro_etel_9 ,
Homo sapiens	ENSG00000144233	1 retrocopy	retro_hsap_1227,
Gorilla gorilla	ENSGGOG00000014448	1 retrocopy	retro_ggor_961,
Myotis lucifugus	ENSMLUG00000006871	1 retrocopy	retro_mluc_684,
Macaca mulatta	ENSMMUG00000001987	1 retrocopy	retro_mmul_1302,
Mus musculus	ENSMUSG00000041915	2 retrocopies	retro_mmus_1330, retro_mmus_352,
Nomascus leucogenys	ENSNLEG00000015793	1 retrocopy	retro_nleu_700,
Pan troglodytes	ENSPTRG00000012437	1 retrocopy	retro_ptro_843,
Sarcophilus harrisii	ENSSHAG00000014762	1 retrocopy	retro_shar_86,