RetrogeneDB ID: retro_etel_35

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_275969:5596..6424(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000007955
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000002717
• Aliases: None
• Description: None

Sequence

>retro_etel_35
CCTGCGCTCCCAGGGCCCTTCCCTGGTGGCCGCGTGGTCCGGCTGCACCCGGTCATCTTAGCCTCCATCGTGGACAGCTA
CCAACGATGCAATGAGGGCGCTGCCCGAGTTATCGGGACCCTGCTGGGCACTGTTGACAAGCACTCAGTGGAAGTGACCA
ATTGCTTTTCAGTGCCTCACAATGAGTCTGAAGATGAGGTGGCCGTGGACATGGAATTTGCAAAGAACATGTATGAATTA
CACAAGAAAGTCTCTCCAAATGAGCTCATCCTGGGCTGGTACGCTACAGGCCATGACATCACTGAGCACTCGGTGCTGAT
CCATGAGTACTACAGCCGAGAGGCCCCCAACCCCATTCACCTCACTGTGGACACCAGCCTCCAGAACGGCCGCATGAGCA
TCAAGGCCTATATCAGCACTTTAATGGGTGTCCTTGGGAGGACCATGGGGGTGATGTTCACACCTCTGACCGTGAGGTAT
GCGTATTACGACACCGAACACATCGGAGTTGATCTGATTATGAAGACCTGCTTTAGCTCCAACCAGGTGATCGGGCTCTC
AAGTGACTTGCAGCAAGTCGGAGGGGTGTCAGCCCGCGTCCAGGATGCGGTGTTGCAGTATGCAGAGTACGTGCTGTCTG
GAAATGTGACAGCTGACAATACCGTGGGCCGCTTCTTGATGAGCCTGGTTAACCAAGTACCCAAAATCGTTCCCGATGAC
TTCGAGACCATGCTCAACAGCAACATCAACCACCTGCTGATGGTGACCTACCTGACCAACCTTACGCAGTCACAGATAAC
CCTCAACGAGAAACTTGTCAACCTGTGA

Alignment

ORF - retro_etel_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.62 %
• Parental protein coverage: 66.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TVDKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSR
          TVDKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSR
Retrocopy TVDKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHKKVSPNELILGWYATGHDITEHSVLIHEYYSR

Parental  EAPNPIHLTVDTSLQNGRMSIKAYMSTLMGVPGRTMGVMFTPLTVRYAYYDTERIGVDLIMKTCFSSNRV
          EAPNPIHLTVDTSLQNGRMSIKAY.STLMGV.GRTMGVMFTPLTVRYAYYDTE.IGVDLIMKTCFSSN.V
Retrocopy EAPNPIHLTVDTSLQNGRMSIKAYISTLMGVLGRTMGVMFTPLTVRYAYYDTEHIGVDLIMKTCFSSNQV

Parental  IGLSSDLQQVGGASARIQDALSTVLQYAEDVLSGKVSADNTVGRFLMSLVNQVPKIVPDDFETMLNSNIN
          IGLSSDLQQVGG.SAR.QDA...VLQYAE.VLSG.V.ADNTVGRFLMSLVNQVPKIVPDDFETMLNSNIN
Retrocopy IGLSSDLQQVGGVSARVQDA---VLQYAEYVLSGNVTADNTVGRFLMSLVNQVPKIVPDDFETMLNSNIN

Parental  DLLMVTYLANLTQSQIALNEKLVNL
          .LLMVTYL.NLTQSQI.LNEKLVNL
Retrocopy HLLMVTYLTNLTQSQITLNEKLVNL

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_35 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 14 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004861	1 retrocopy	retro_btau_527,
Canis familiaris	ENSCAFG00000006884	1 retrocopy	retro_cfam_1339,
Callithrix jacchus	ENSCJAG00000011903	1 retrocopy	retro_cjac_1416,
Erinaceus europaeus	ENSEEUG00000001226	1 retrocopy	retro_eeur_130,
Echinops telfairi	ENSETEG00000002717	2 retrocopies	retro_etel_1583, retro_etel_35 ,
Homo sapiens	ENSG00000175390	3 retrocopies	retro_hsap_2106, retro_hsap_2512, retro_hsap_4321,
Gorilla gorilla	ENSGGOG00000011702	5 retrocopies	retro_ggor_1566, retro_ggor_1567, retro_ggor_1568, retro_ggor_1589, retro_ggor_1590,
Myotis lucifugus	ENSMLUG00000000825	1 retrocopy	retro_mluc_2356,
Macaca mulatta	ENSMMUG00000015010	1 retrocopy	retro_mmul_412,
Oryctolagus cuniculus	ENSOCUG00000004225	1 retrocopy	retro_ocun_1488,
Otolemur garnettii	ENSOGAG00000003220	3 retrocopies	retro_ogar_3041, retro_ogar_859, retro_ogar_863,
Pongo abelii	ENSPPYG00000003512	1 retrocopy	retro_pabe_175,
Pan troglodytes	ENSPTRG00000003326	1 retrocopy	retro_ptro_197,
Pteropus vampyrus	ENSPVAG00000015764	1 retrocopy	retro_pvam_371,