RetrogeneDB ID: retro_etel_722

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_155048:756..1694(+)
• 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_722
ATGACTCAAGCCCGGGTTCTGGTGGCTGCAGTGGTGGGACTGGTGGCTGTCCTCCTGTACGCCTCCATCCATAAGATCGA
AGAAGGACACCTGGCTGTGTACTACATGGGTGGAGCTTTACTAACTAGCCCCAGTGGACCAGGCTATCATATCATGTTGC
CTTTCATAACTACGTTCAGATCTGTGCAGACAACACTACAAACTGATGAAGTTAAAAACGTGCCTTGTGGAACAAGTGGT
GGAGTCATGATCTATATTGACTGAATAGAAGTGGTTAATATGTTGGCTCCTTATGCAGTGTTTGATATCGTGAGGAACTA
CACTGCAGATTGTGACAAGACCTTAATCTTTAATAAAATCCACCACGAGCTGAATCAGTTTTGCAGTGCCCACACACTTC
AAGACGTTTACATTGAATTGTTTCATCAAATAGATGAAAACCTGAAGCAAGCTCTGCAGAAAGATTTAAACCTCATGGCT
CCAGGTCTCACCATCCAGGCTGTGCGTGTTACAAAACCCAATATCCCAGAAGCCATAAGAAGAAATTTTGAGTTAATGGG
GAGGCTGAGAAAACAAAACTTCTTATTGCTGTACAGAAACAAAAAGTCGTGGAGAAAGAAGCCAAGACAGAGAGGAAGAA
GGCCATTATAGAAGCCGAGAAGATTGCCCAGGTGGCAAAAATTCAATTTCAGCAGAAGGTGATGGAGAAGGAAACCGAAC
AGCGCATTTCTGAAATTGAAGATGCTGCATTCTTGGCTGGAGAGAAGGTGAAAGCAGATGCTGAGTTTTATGCTGCACAC
AAATATGCCACCTCCAACAAGCACAAATTGACCCCGGAGTACCTGGAGCTCAAAAAGTACCAGGCCATCACTTCGAAGAG
TACAATCTACTTTGGCAGCAGCATCCCTAGCATGCTTGTGGACTCCTCCTGCGCTCTG

Alignment

ORF - retro_etel_722 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.93 %
• Parental protein coverage: 92.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAQLGAVVALAAGFFCSSLFSAVHKIEEGHIGVYYRGGALLTSTSGPGFHLMLPFITSYKSVQTTLQTDE
          M.Q....VA...G.....L....HKIEEGH..VYY.GGALLTS.SGPG.H.MLPFIT...SVQTTLQTDE
Retrocopy MTQARVLVAAVVGLVAVLLYASIHKIEEGHLAVYYMGGALLTSPSGPGYHIMLPFITTFRSVQTTLQTDE

Parental  VKNVPCGTSGGVMIYFDRIEVVNFLVPNAVYDIVKNYTADYDKALIFNKIHHELNQFCSVHTLQEVYIEL
          VKNVPCGTSGGVMIY.D.IEVVN.L.P.AV.DIV.NYTAD.DK.LIFNKIHHELNQFCS.HTLQ.VYIEL
Retrocopy VKNVPCGTSGGVMIYID*IEVVNMLAPYAVFDIVRNYTADCDKTLIFNKIHHELNQFCSAHTLQDVYIEL

Parental  FDQIDENLKLALQQDLTSMAPGLVIQAVRVTKPNIPEAIRRNYELM-ESEKTKLLI-AAQKQKVVEKEAE
          F.QIDENLK.ALQ.DL..MAPGL.IQAVRVTKPNIPEAIRRN.ELM....K...L..A.QKQKVVEKEA.
Retrocopy FHQIDENLKQALQKDLNLMAPGLTIQAVRVTKPNIPEAIRRNFELMGRLRKQNFLL<AVQKQKVVEKEAK

Parental  TERKKALIEAEKVAQVAEITYGQKVMEKETEKKISEIEDAAFLAREKAKADAECYTAMKIAEANKLKLTP
          TERKKA.IEAEK.AQVA.I...QKVMEKETE..ISEIEDAAFLA.EK.KADAE.Y.A.K.A..NK.KLTP
Retrocopy TERKKAIIEAEKIAQVAKIQFQQKVMEKETEQRISEIEDAAFLAGEKVKADAEFYAAHKYATSNKHKLTP

Parental  EYLQLMKYKAIASNSKIYFGKDIPNMFVDSAGSL
          EYL.L.KY.AI.S.S.IYFG..IP.M.VDS...L
Retrocopy EYLELKKYQAITSKSTIYFGSSIPSMLVDSSCAL

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_722 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 ,