RetrogeneDB ID: retro_etel_654

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_131739:288..1182(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000012876
• Aliases: None
• Description: None

Sequence

>retro_etel_654
GATGGGCGCCCACCGGACCACAGCAATGGCGAGAGTCAAGGTACGGGTCCCGTACCCTCCAGAGACAACAGCGAAGTGCA
AAGCCTAGAGGGCCTTGAGAACTTATTGCTGAGTGATGAAAACCTTTCAGATGGGCCTGGGGAGGAAGGGCACTGGGAGG
AGGAGGAGTACGAAGCCGAAGGTCTGGCCGAGGCGTGTTTTCAGTGCCTTGAGACCGACCAGGTCCAGTATGTATCTGAT
CAGGATCGGGCCCTGGAGGAGTGGGTGGCCTCCGAAACATCCCCACTGCCCCGACCTCGCTGGCAAGTGCTCACTGCCCT
CCGTGATCGCCAGCTGGGTTCGAGACCCCGCTTTGTCTCTGAGGCCTGTGGGGCGAGAGTCTTTGTGCAGCGCTTCCACC
TGCAGCATGAGCTCGTGGGTCATTTCGCGTGTGTCAATTCCGTGTACTTCAACCAGCGTGGCACCTGGCTGGCCAGTTCC
AGTGACGACCCGAGGGTGCTGGTGTGGGATTGGGCACGTGGGAAGCAGGTACTGAGCTATCACAGTGGCCACAGAACCAA
TGTCTTTCAGGCCAAGTTCCTCCCCAATTCTGTTGATTCTGTTGTAGCCACGTGTGGCAGTGATGGGCAAGTACGTATCG
CGGAGCTGGAAGCCTTGCCGTATTACGAGATAACCAGACGTGTGGCCCAGCACGGGGGAGCCGCCCACAAGTTGGCCCTG
GAGCCAGACTCCCCCTATAGGTTCCTGAGTTCCGGTGAAGATGGCATGGTCTACACCATTGATCTCAGATTACGCCTGCC
GGCCTCACCAGTGGTGGTTGTCAGAGACAGGGAGAGCAAAGTAGGGCTGTACAGCATTTCTGTGAACCCTGCCGATGTCA
ATCAGTTCGCAGTG

Alignment

ORF - retro_etel_654 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.7 %
• Parental protein coverage: 51.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DDGGPSRTSAESRGTDTESSGEDKDSDSMEDTGHYSINDESRAHDRSEEE--EEEEEEEDEQPRRRVQRK
          D...P.....ES.GT....S.......S.E........DE.......EE...EEEE.E.........Q..
Retrocopy DGRPPDHSNGESQGTGPVPSRDNSEVQSLEGLENLLLSDENLSDGPGEEGHWEEEEYEAEGLAEACFQCL

Parental  RGNREQDSSDDERALEDWVSSETSALPRPRWQALPALRERELGSSARFVYEACGARVFVQRFQLQHGLEG
          .....Q..SD..RALE.WV.SETS.LPRPRWQ.L.ALR.R.LGS..RFV.EACGARVFVQRF.LQH.L.G
Retrocopy ETDQVQYVSDQDRALEEWVASETSPLPRPRWQVLTALRDRQLGSRPRFVSEACGARVFVQRFHLQHELVG

Parental  HTGCVNTLHFNQRGNWLASGSDDLKVVVWDWVRRQPVLDFESGHKSNVFQAKFLPNSGDSTLAMCARDGQ
          H..CVN...FNQRG.WLAS.SDD..V.VWDW.R...VL...SGH..NVFQAKFLPNS.DS..A.C..DGQ
Retrocopy HFACVNSVYFNQRGTWLASSSDDPRVLVWDWARGKQVLSYHSGHRTNVFQAKFLPNSVDSVVATCGSDGQ

Parental  VRVAELSATQCCKNTKRVAQHKGASHKLALEPDSPCTFLSAGEDAVVFTIDLRQDRPASKLVVTKEKEKK
          VR.AEL.A......T.RVAQH.GA.HKLALEPDSP..FLS.GED..V.TIDLR...PAS..VV....E.K
Retrocopy VRIAELEALPYYEITRRVAQHGGAAHKLALEPDSPYRFLSSGEDGMVYTIDLRLRLPASPVVVVRDRESK

Parental  VGLYTVYVNLANTHQFAV
          VGLY...VN.A...QFAV
Retrocopy VGLYSISVNPADVNQFAV

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_654 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014293	1 retrocopy	retro_amel_47,
Bos taurus	ENSBTAG00000005796	1 retrocopy	retro_btau_1853,
Canis familiaris	ENSCAFG00000031010	1 retrocopy	retro_cfam_223,
Callithrix jacchus	ENSCJAG00000005913	1 retrocopy	retro_cjac_1322,
Echinops telfairi	ENSETEG00000012876	1 retrocopy	retro_etel_654 ,
Felis catus	ENSFCAG00000003925	1 retrocopy	retro_fcat_14,
Mustela putorius furo	ENSMPUG00000013949	1 retrocopy	retro_mputfur_173,
Mus musculus	ENSMUSG00000026554	1 retrocopy	retro_mmus_111,
Otolemur garnettii	ENSOGAG00000011349	1 retrocopy	retro_ogar_2113,
Pteropus vampyrus	ENSPVAG00000007982	1 retrocopy	retro_pvam_1356,
Sus scrofa	ENSSSCG00000006388	1 retrocopy	retro_sscr_88,
Tupaia belangeri	ENSTBEG00000001566	1 retrocopy	retro_tbel_3644,