RetrogeneDB ID: retro_etel_991

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_198273:889..1732(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF5
• Ensembl ID: ENSETEG00000015220
• Aliases: None
• Description: eukaryotic translation initiation factor 5 [Source:HGNC Symbol;Acc:3299]

Sequence

>retro_etel_991
CCTCCAACGTATCCCACCAACTATTTGGTTGTGAGCTGGGAGCACAGACCCAGTTTGATGTTAAGAATGACTGTTACATT
TCCAATGGATCTCATGAGGAGAATAAACTGCAAGATATGCTGGACGGATTCATTAAAAAATTTGTTCTCTGTCCTGAGTG
TGAAAATCCTGAAACAGATCTGCATGCCAATCCAAAGAAGCAAACAATAGGGAATTCTTGTAAAGCCTGTGGCTACCGAG
GCATGCTTGACACACATCATAAACTCTGCACATTCATTCTCAAAAACCCGCCTGAGAATAGTGACAGCGGTACAGGAAAG
AAGGAAAAGGAAAAGAAGAACCGGAAGGGCAAAGACAAGGAGAATGGCTCCGTGTCCAGCAGTGAAACACCACCGCCTCC
ACCTCCAAATGAAATCCGTCCTCCCCGTGCTGTCGAAGATGAGGAGGAGGAGGATTGGGGTGAGGACACAACTGAGGAAG
CACAGAGGCGCAGAATGGATGAAATCAGTGACCATGCCAAAGTGCTGACCCTTAGTGACGATCTAGAGAGGACCATTGAG
GAACGGGTTAACATCCTGTTTGATTTTGTTAAGAAAAAGGAAGAAGAGGGTGTTCTTGATTCTTTTGAAAAAGAAATTGT
TGCTGAAGCAAAAAGACTGGACGTAAAAGCCATGGGCCCCCTCGTTTTGACTGAAGTTCTTTTTAATGAGAAGATTAGGG
TACAAATCAAGAAGTACAGACGGCACTTCCTACGATTTTTGTCACAACAAAAAGGCCCAGCGGTACCTTCTGCATGGTTT
GGAGTGTGTGGTGGCGATGCATCAAGCTCAGCTCCGCTCCAAG

Alignment

ORF - retro_etel_991 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.03 %
• Parental protein coverage: 65.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PPTYPTKY-FGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQT
          PPTYPT.Y.FGCELGAQTQFDVKND.YI.NGSHE.NKLQDMLDGFIKKFVLCPECENPETDLH.NPKKQT
Retrocopy PPTYPTNY<FGCELGAQTQFDVKNDCYISNGSHEENKLQDMLDGFIKKFVLCPECENPETDLHANPKKQT

Parental  IGNSCKACGYRGMLDTHHKLCTFILKNPPENSDSGTGKKEKEKKNRKGKDKENGSVSSSETPPPPPPNEI
          IGNSCKACGYRGMLDTHHKLCTFILKNPPENSDSGTG................GSVSSSETPPPPPPNEI
Retrocopy IGNSCKACGYRGMLDTHHKLCTFILKNPPENSDSGTGXXXXXXXXXXXXXXXXGSVSSSETPPPPPPNEI

Parental  SPPRAVEDEEDDDWGEDTTEEAQRRRMDEISDHAKVLTLSDDLERTIEERVNILFDFVKKKKEEGVIDSS
          .PPRAVEDEE..DWGEDTTEEAQRRRMDEISDHAKVLTLSDDLERTIEERVNILFDFVKKK.EEGV.DS.
Retrocopy RPPRAVEDEEEEDWGEDTTEEAQRRRMDEISDHAKVLTLSDDLERTIEERVNILFDFVKKKEEEGVLDSF

Parental  DKEIVAEAERLDVKAMGPLVLTEVLFNEKIREQIKKYRRHFLR-FCHNNKKAQRYLLHGLECVVAMHQAQ
          .KEIVAEA.RLDVKAMGPLVLTEVLFNEKIR.QIKKYRRHFLR.FCH.NKKAQRYLLHGLECVVAMHQAQ
Retrocopy EKEIVAEAKRLDVKAMGPLVLTEVLFNEKIRVQIKKYRRHFLR>FCH-NKKAQRYLLHGLECVVAMHQAQ

Parental  LISK
          L.SK
Retrocopy LRSK

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_991 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000001236	1 retrocopy	retro_cpor_577,
Echinops telfairi	ENSETEG00000015220	2 retrocopies	retro_etel_1843, retro_etel_991 ,
Monodelphis domestica	ENSMODG00000013424	1 retrocopy	retro_mdom_2000,
Rattus norvegicus	ENSRNOG00000010218	2 retrocopies	retro_rnor_1781, retro_rnor_2459,
Tursiops truncatus	ENSTTRG00000002384	1 retrocopy	retro_ttru_400,