RetrogeneDB ID: retro_etel_7

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_23311:3..675(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000007917
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000019235
• Aliases: None
• Description: None

Sequence

>retro_etel_7
CTGACGCTGGCCTGGGGGTCCGTCTTCTTCCCCCAGCTCTTCGCACTCTCCACCCGGTGGCTGCGCCGCTCGCTGCACCA
ATGGACCAAGAAGGACCTCGTGATGATCAGCACTAGGCTGGTTTCTTCAGTTCACGGTGTGCTGGCCACCGGGTCAGGGA
TCATCATTATCTACTCCTGCAGAGACGTGATGACAGACAGGCACTGGCTTGCCCGAGAATACGTGTGGTTTTTGATTCCG
TACATGCTCTATGACACCTACACCTTGTACCTCTGTGAATGGTACAAAATCAAGGAGGAGAACCGCAGACACTCCCTCGC
CACGTTCCAAAACTTCCCCAGTAAGAACCGCCTGATGCTCACACACCACGTGGTCATTCTGCTCGCCCTTGTGCCTGTTG
CCCAGAGACTGAGGGGAGACCTGGGGGACTTCTTTGTTGGCTGCATCTTCAAGGCGGAACTGAGCACTCCGTTTGTGTCG
CTGGGCAGAGTCCTGATTCAGCTAAAGCAGCAGCACACCCTTCTGTACAAGGTGAATGGCATCCTCTCTCTGGCCACCTT
CTTTGCCTGTCGGCTCCTCCTATTCCCCTTCGTGTACTGGTCCTATGGCCAACAGAAGGGACTAACACTGTACAAAGTGC
CATTCCCCATCCCTTTCCACCGCAATATGGCC

Alignment

ORF - retro_etel_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.11 %
• Parental protein coverage: 85.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVSSVHGVLATGSGIVVIYSCRDVMTDRHWLAREYVWFLIPYMLYDTYAMYLCEWYKIKEENRRHSLATF
          LVSSVHGVLATGSGI..IYSCRDVMTDRHWLAREYVWFLIPYMLYDTY..YLCEWYKIKEENRRHSLATF
Retrocopy LVSSVHGVLATGSGIIIIYSCRDVMTDRHWLAREYVWFLIPYMLYDTYTLYLCEWYKIKEENRRHSLATF

Parental  QSFLIKNRLMLTHHAVILFALVPVAQRLRGDLGDFFVGCIFTAELSTLFVSLGRVLIQ-AQQHTLLYKVN
          Q.F..KNRLMLTHH.VIL.ALVPVAQRLRGDLGDFFVGCIF.AELST.FVSLGRVLIQ..QQHTLLYKVN
Retrocopy QNFPSKNRLMLTHHVVILLALVPVAQRLRGDLGDFFVGCIFKAELSTPFVSLGRVLIQLKQQHTLLYKVN

Parental  GILTLATFFACRILLFPFMYWSYGQQQGLRLYQVPFHIPFHCNVA
          GIL.LATFFACR.LLFPF.YWSYGQQ.GL.LY.VPF.IPFH.N.A
Retrocopy GILSLATFFACRLLLFPFVYWSYGQQKGLTLYKVPFPIPFHRNMA

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_7 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019129	1 retrocopy	retro_cfam_1644,
Echinops telfairi	ENSETEG00000019235	1 retrocopy	retro_etel_7 ,
Loxodonta africana	ENSLAFG00000017562	1 retrocopy	retro_lafr_518,
Microcebus murinus	ENSMICG00000009347	1 retrocopy	retro_mmur_111,