RetrogeneDB ID: retro_etel_1465

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_270115:3539..4541(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000007977
• Aliases: None
• Description: None

Sequence

>retro_etel_1465
ATGAATCCTTTGCTTTCTCTGGCTATCATTTGCTTGGGAATAGTCTCAGCTGCGCTATAACATGATCAAAATCTAGATGC
GCCGTGGCATCAGTGGAAGTCAACATACAAGAGACCATATAGCATGAATGGAGAAGGTTGGAGGAGAGCAGTCTGGGAGA
AAAAATGTGAAGATGATTGAACTGCACAATCAAGAATACAGCCAAGGAAAGCATGGCTTCACCTTGGCCATGAATGCTTT
GGGGGACATGACCAATGAAGAATTCAGACAGGTGATGAATGGCTTTCAAATACAGAAACATAATGGGAAGACACTCCATG
ATTCTCCTTCTGATAATATTCCCAAATCTGTGGATTGGCGTCAGAAAGGTTATGTGCCCCTGTGAAGAATCAGGGTCAGT
GTGGTTCTTGTTGGGCTTCTAATGCAACTGGTGCCCTTGAAGGACAGATGTTTCGGGAAACGGGCAGCCTTGTGTCTCTC
AGTGAGCAGAACCTGGTGGACTGCTCTCGGTCTGAAGGCAATGAGGGCTGCAACGGGGGCCTCATGGATCATGCTTTCCA
GGACATTAAGAACAGTGGAGGCCTGGATTCTGAGGAATTTTATCCCTATCTTGCAATAGACACAGGGGATTGTCACTACA
ATCCTCAGTATTCTGCTGCCAATGATACTGGCTTCGTAAACATCCCTCAGCTGGAAAAGGAACTGATGAGGGTAGTGGCC
AGGGTGGATCCCACCTCTGTTGCTATTGATGCAAGCCTGATGACGTTCCAGTTCTACAAAAGTGGAATTTATTTCGATTC
AAGCTGCAGCAGCAAGGATCTGGACCATGGTGTTCTGGTGGTTGGCTATGGCTTTGAAGGAAAAGAATGAGACTCAAACA
ACAAAGACTGGATTGTCAAGAACAGCTGGGACACAACTTGGGGTGTAGATGGGTACACAAAGATGGCCAAAGATCGAAAC
AATCACTGGGGAATTGCCACAGCAGCCAGCCACCCTACCATG

Alignment

ORF - retro_etel_1465 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.9 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MNPFLFLAIICLGIVSAALKHDQNLDARWHQWKSTHKRPYSTNEEDWRRAVWEK-NVKMIELHNQEYSQG
          MNP.L.LAIICLGIVSAAL.HDQNLDA.WHQWKST.KRPYS.N.E.WRRAVWEK.NVKMIELHNQEYSQG
Retrocopy MNPLLSLAIICLGIVSAAL*HDQNLDAPWHQWKSTYKRPYSMNGEGWRRAVWEK>NVKMIELHNQEYSQG

Parental  KHGFTLGMNAFGDMTNEEFRQVMNGFQIQK-NGKTFHESSSDNIPKSVDWRQKGYV-TPVKNQGQCGSCW
          KHGFTL.MNA.GDMTNEEFRQVMNGFQIQK.NGKT.H.S.SDNIPKSVDWRQKGYV..PVKNQGQCGSCW
Retrocopy KHGFTLAMNALGDMTNEEFRQVMNGFQIQKHNGKTLHDSPSDNIPKSVDWRQKGYV<APVKNQGQCGSCW

Parental  AFSATGALEGQMFRKTGSLVSLSEQNLVDCSRSEGNEGCNGGLMDNAFQYIKKNGGLDSEESYPYLGTDT
          A..ATGALEGQMFR.TGSLVSLSEQNLVDCSRSEGNEGCNGGLMD.AFQ.IK..GGLDSEE.YPYL..DT
Retrocopy ASNATGALEGQMFRETGSLVSLSEQNLVDCSRSEGNEGCNGGLMDHAFQDIKNSGGLDSEEFYPYLAIDT

Parental  GDCHYNPKYSAANDTGFINIRQLEKDLMKAVASVGPISVAIDASLMTFQFYKNGIYFDSSCSSKDLDHGV
          GDCHYNP.YSAANDTGF.NI.QLEK.LM..VA.V.P.SVAIDASLMTFQFYK.GIYFDSSCSSKDLDHGV
Retrocopy GDCHYNPQYSAANDTGFVNIPQLEKELMRVVARVDPTSVAIDASLMTFQFYKSGIYFDSSCSSKDLDHGV

Parental  LVVGYGFEGKESDSNNKYWIVKNSWGTTWGVDGYIKMAKDRDNHCGIATAASYPTM
          LVVGYGFEGKE.DSNNK.WIVKNSW.TTWGVDGY.KMAKDR.NH.GIATAAS.PTM
Retrocopy LVVGYGFEGKE*DSNNKDWIVKNSWDTTWGVDGYTKMAKDRNNHWGIATAASHPTM

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_1465 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001149	1 retrocopy	retro_cfam_43,
Echinops telfairi	ENSETEG00000007977	1 retrocopy	retro_etel_1465 ,
Macropus eugenii	ENSMEUG00000002168	2 retrocopies	retro_meug_1349, retro_meug_1567,
Macropus eugenii	ENSMEUG00000014293	1 retrocopy	retro_meug_1873,
Macropus eugenii	ENSMEUG00000016209	2 retrocopies	retro_meug_159, retro_meug_1727,
Monodelphis domestica	ENSMODG00000002844	1 retrocopy	retro_mdom_1101,
Petromyzon marinus	ENSPMAG00000003453	1 retrocopy	retro_pmar_7,
Vicugna pacos	ENSVPAG00000004397	1 retrocopy	retro_vpac_433,