RetrogeneDB ID: retro_etel_1513

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_276453:96..1010(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERLIN2
• Ensembl ID: ENSETEG00000016394
• Aliases: None
• Description: ER lipid raft associated 2 [Source:HGNC Symbol;Acc:1356]

Sequence

>retro_etel_1513
GCTGCAGTGGTGGGACTGGTGGCTGTCCTCCTGTACACCTCCATCCATAAGATCGAAGAAGGACACCTGGCTGTGTACTA
CAGGGGTGGAGCTTTACTAACTAGCCCCAGTGGACCAGGCTATCATATCATGTTGCCTTTCATAACTACGTTCAGATCTG
TGCAGACAACACTACAAACTGATGAAGTTAAAAACGTGCCTTGTGGAACAAGTGGTGGAGTCATGATCTATATTGACCGG
AACAGAAGTGGTGAATATGTTGGCTCCTTATGCAGTGTTTGATATCGTGAGGAACTACACTTGCAGATTATGACAAGACC
TTAATCTTTAATAAAATCCACCACGAGCTGAACCAGTTTTGCAGTGCCCACACACTTCAAGAAGTTTACATTGAATTGTT
TGATCAAATAGATGAAAACCTGGAGCAAGCTCTGCAGAAAGATTTAAACCTCATGGCTCCGGGTCTCACCATCCAGGCTG
TGCGTGTTACAAAACCCAATATCCCAGAAGCCATACGAAGAAATTTTGAGTTAATGGAGGCTGAGAAAACAAAACTTCTT
ATTGCTGTACAGAAACAAAAAGTCGTGGAGAAAGAAGCCGAGACAGAGAGGAAGAAGGCCATTATAGAAGCCGAGAAGAT
TGCCCAGGTGGCAAAAATTCAATTTCAGCAGAAGGTGATGGAGAAGGAAACCGAACAGCGCATTTCTGAAATTGAAGATG
CTACATTCTTGGCTGGAGAGAAGGCGAAAGCAGATGCTGAGTTTTATGCTACACACAAATATGCCACCGCCAACAAGCAC
AAATTGACCCCGGAGTACCTGGAGCTCAAAAAGTACCAGGCCATCGCTTCGAACAGTACGATCTACTTTGGCAGCAGCAT
CCCTAGCATGCTTGTGGACACCTCCTGCGCTCTG

Alignment

ORF - retro_etel_1513 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.45 %
• Parental protein coverage: 89.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ALAAGFFCSSLFSAVHKIEEGHIGVYYRGGALLTSTSGPGFHLMLPFITSYKSVQTTLQTDEVKNVPCGT
          A...G.....L....HKIEEGH..VYYRGGALLTS.SGPG.H.MLPFIT...SVQTTLQTDEVKNVPCGT
Retrocopy AAVVGLVAVLLYTSIHKIEEGHLAVYYRGGALLTSPSGPGYHIMLPFITTFRSVQTTLQTDEVKNVPCGT

Parental  SGGVMIYFDR-IEVVNFLVPNAVYDIVKNYT-ADYDKALIFNKIHHELNQFCSVHTLQEVYIELFDQIDE
          SGGVMIY.DR..EVVN.L.P.AV.DIV.NYT.ADYDK.LIFNKIHHELNQFCS.HTLQEVYIELFDQIDE
Retrocopy SGGVMIYIDR>TEVVNMLAPYAVFDIVRNYT>ADYDKTLIFNKIHHELNQFCSAHTLQEVYIELFDQIDE

Parental  NLKLALQQDLTSMAPGLVIQAVRVTKPNIPEAIRRNYELMESEKTKLLIAAQKQKVVEKEAETERKKALI
          NL..ALQ.DL..MAPGL.IQAVRVTKPNIPEAIRRN.ELME.EKTKLLIA.QKQKVVEKEAETERKKA.I
Retrocopy NLEQALQKDLNLMAPGLTIQAVRVTKPNIPEAIRRNFELMEAEKTKLLIAVQKQKVVEKEAETERKKAII

Parental  EAEKVAQVAEITYGQKVMEKETEKKISEIEDAAFLAREKAKADAECYTAMKIAEANKLKLTPEYLQLMKY
          EAEK.AQVA.I...QKVMEKETE..ISEIEDA.FLA.EKAKADAE.Y...K.A.ANK.KLTPEYL.L.KY
Retrocopy EAEKIAQVAKIQFQQKVMEKETEQRISEIEDATFLAGEKAKADAEFYATHKYATANKHKLTPEYLELKKY

Parental  KAIASNSKIYFGKDIPNMFVDSAGSL
          .AIASNS.IYFG..IP.M.VD....L
Retrocopy QAIASNSTIYFGSSIPSMLVDTSCAL

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_1513 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016394	3 retrocopies	retro_etel_1513 , retro_etel_616, retro_etel_722,