RetrogeneDB ID: retro_etel_945

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_189246:1020..1822(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000007476
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000017395
• Aliases: None
• Description: None

Sequence

>retro_etel_945
AACTGCCTACAGAGGATAAAGGTGGAGAACACTGAGGAGAACCACTGGCAGTTCTGAGATATCCTCTTCACAGTAGACAA
TTCCATCAGGCGGAGCATCAGGGCCATGCCCCATTTCCATGAGACCCTCTACCAGAAGGACACCCAGGGAAAGATGCTCA
AAACTATCTTCAAGGAAAAGGGGATTGTCATGGGAATCAAGTTGGAACAAGGAGCAGCTCCTCTTGAAAGAACAAACAAA
TAAGCCACCATTCAAGGTTTTGATGGCCTCTCTGAGTGCTACTCAGTACAAAAAGGATGGGGCTGACTTTGGGAAGTGTC
GGGCTGTGCTGAGGATCACTGACCAGTGTCCATCCAACCTTGTTATCCAGGAGAATGCCAACGTGATGGCTCACTATACT
AGCGTCTGTCAACAAAATGTGTTGGTGCCCAGTGTGTAACCAGAGGTCATTCGTAATGGAGACTATAACCTGGAACACAG
CCAGTATGTTAGTGAGAAGGTCCTGACAGTTGTTTATAAGGCCTTCAATGACCATCAAGTTTACATGGAGGGCATACTTC
TTAAACCAAACATGGTGACTGCTGGATATGCCTGCACCAAATAATATACTCCAGAGCAAGTGGCTTTGGCCACTGTCACA
GCTCTCCATTGTACTGCTCCTGCAACTGTTCCAGGAATTTGCTTCTTGTCTGGTGGCATGAGTGAAGAGAATGCCACTCT
CAACCTCAGTGTTATCAACCTTTGCCCTCTACCAAAGCACTGGAAGCTAAGCTTCTCTTATGGGTGGGTCTTATGTGGGT
CA

Alignment

ORF - retro_etel_945 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.72 %
• Parental protein coverage: 77.46 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NRLQRIQVENTEENRRQFREMLFSVDNSVNQSIGGVILFHETLYQKDSQGKLFKTILKEKGIVVGIKLDQ
          N.LQRI.VENTEEN..QF...LF.VDNS...SI.....FHETLYQKD.QGK..KTI.KEKGIV.GIKL.Q
Retrocopy NCLQRIKVENTEENHWQF*DILFTVDNSIRRSIRAMPHFHETLYQKDTQGKMLKTIFKEKGIVMGIKLEQ

Parental  GAAPLAGTNKESTIQGLDGLSARC-AQYKKDGADFGKWRAVLRIADQCPSNLAIQENANALARYASICQQ
          GAAPL..TNK..TIQG.DGLS..C..QYKKDGADFGK.RAVLRI.DQCPSNL.IQENAN..A.Y.S.CQQ
Retrocopy GAAPLERTNK*ATIQGFDGLS-EC>TQYKKDGADFGKCRAVLRITDQCPSNLVIQENANVMAHYTSVCQQ

Parental  NGLVPIVEPEVIPDGDHDMEHCQYVSEKVLAAVYKALNDHHVYLEGTLLKPNMVTAGHACTKKYTPEQVA
          N.LVP.V.PEVI..GD...EH.QYVSEKVL..VYKA.NDH.VY.EG.LLKPNMVTAG.ACTK.YTPEQVA
Retrocopy NVLVPSV*PEVIRNGDYNLEHSQYVSEKVLTVVYKAFNDHQVYMEGILLKPNMVTAGYACTK*YTPEQVA

Parental  MATVTALHRTVPAAVPGICFLSGGMSEEDATLNLNAINLCPLPKPWKLSFSYGRALQAS
          .ATVTALH.T.PA.VPGICFLSGGMSEE.ATLNL..INLCPLPK.WKLSFSYG..L..S
Retrocopy LATVTALHCTAPATVPGICFLSGGMSEENATLNLSVINLCPLPKHWKLSFSYGWVLCGS

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_945 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014816	5 retrocopies	retro_dnov_1625, retro_dnov_1631, retro_dnov_2028, retro_dnov_2152, retro_dnov_547,
Echinops telfairi	ENSETEG00000017395	2 retrocopies	retro_etel_2089, retro_etel_945 ,
Echinops telfairi	ENSETEG00000019230	1 retrocopy	retro_etel_20,
Monodelphis domestica	ENSMODG00000014418	2 retrocopies	retro_mdom_1752, retro_mdom_393,
Tupaia belangeri	ENSTBEG00000009298	1 retrocopy	retro_tbel_3244,