RetrogeneDB ID: retro_etel_1722

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_290030:1940..2380(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EGLN1
• Ensembl ID: ENSETEG00000007202
• Aliases: None
• Description: egl nine homolog 1 (C. elegans) [Source:HGNC Symbol;Acc:1232]

Sequence

>retro_etel_1722
ATCACGTGGATCGGGGGCAACGAGGAGGGCTGCAAGGCCATCAGCTTCCTGTCCCTCGTCGACAGGCTGGTCCTGTACTG
CAGAAGCCAGCTGGGCAAATACTATGTCAAGGGGAGGCCCAAGGCGATGGTGGCTTGCTACCGGGCAATGGAACAGGTTA
TGTTCGTCATGGGGACAACCCCAACTGTGATGGCAGCTGTATCACCTGCATCTACTATCCTAACAAGAATGGGGATGCTA
AGCTGCAAGGTGGGATCCTACGGATATTTCCAGAAGGAAAATCTTTCATAGCTGAGGTAGAGCCCATTTTTGATAGACTC
CTCTTCTTCTGGTCAGACTGCCCAAACCCACGTGAAGTTCAGCCTTCCTACGCACCCAGATACACTATGAGTGTTTGGTA
CTGTGATGCTGAAGAAAGGGCAGAAGCCAAAAAGAAGTTC

Alignment

ORF - retro_etel_1722 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.1 %
• Parental protein coverage: 58.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ITWIEGKESGCETIGLLMSSMDDLIRHCNGKLGNYKINGRTKAMVACY-PGNGTGYVRHVDNPNGDGRCV
          ITWI.G.E.GC..I..L.S..D.L...C...LG.Y...GR.KAMVACY.PGNGTGYVRH.DNPN.DG.C.
Retrocopy ITWIGGNEEGCKAISFL-SLVDRLVLYCRSQLGKYYVKGRPKAMVACY<PGNGTGYVRHGDNPNCDGSCI

Parental  TCIYYLNKDWDAKVSGGILRIFPEGKAQFADIEPKFDRLLFFWSDRRNPHEVQPAYATRYAITVWYFDKD
          TCIYY.NK..DAK..GGILRIFPEGK...A..EP.FDRLLFFWSD..NP.EVQP.YA.RY...VWY.D..
Retrocopy TCIYYPNKNGDAKLQGGILRIFPEGKSFIAEVEPIFDRLLFFWSDCPNPREVQPSYAPRYTMSVWYCDAE

Parental  ERARAKVKY
          ERA.AK.K.
Retrocopy ERAEAKKKF

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_1722 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 3 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007202	1 retrocopy	retro_etel_1722 ,
Rattus norvegicus	ENSRNOG00000019773	11 retrocopies	retro_rnor_1086, retro_rnor_1783, retro_rnor_2109, retro_rnor_2110, retro_rnor_2411, retro_rnor_2885, retro_rnor_2938, retro_rnor_2939, retro_rnor_2955, retro_rnor_507, retro_rnor_948,
Ictidomys tridecemlineatus	ENSSTOG00000023570	1 retrocopy	retro_itri_1697,