RetrogeneDB ID: retro_etel_2156

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_79754:3015..3657(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000000746
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UCP2
• Ensembl ID: ENSETEG00000014773
• Aliases: None
• Description: uncoupling protein 2 (mitochondrial, proton carrier) [Source:HGNC Symbol;Acc:12518]

Sequence

>retro_etel_2156
CGCATCGGCCTCTACGACTCCGTCAAGCAGTTCTACACCAAGGGCTCTGAGCATGCCGGCATCGGTAGCCGCCTCCTGGC
AGGCAGCACCACTGGTGCCCTGGCTGTGGCAGTGGCCCAGCCCACGGATGTGGTAAAGGTCCGGTTCCAAGCTCAGGCCC
GGGCTGGAGGTGGCCGGAGATACCAGAGCACTGTGGATGCCTACAAGACCATTGCTCTGTAGGAAGGGTTCCGAGGACTC
TGGAAAGGGACCTCACCCAATGTGGCTCGGAATGCCATTGTCAACTGTGCTGAGCTGGTGACCTATGACCTCATCAAAGA
TTCCCTCCTGAAGGCCAAACTCATGACAGATGACCTCCCTTGCCATTTCATTTCCGCCTTCGGGGCCGGCTTCTGCACCA
CCGTCATTGCCTCCCCCGTCGACGTGGTCAAGACAAGATATATAAACTCTGCCCTGGGCCAGTACAGCAGCGCTGGCAAC
TGCGCCCTTACCATGCTCCAGAAGGAGGGGCCCCGGGCCTTCTACAAAGGGTTCATGCCCTCCTTTCTCCGCCTGGGCTC
CTGGAACGTGGTGATGTTCGTCACCTACGAGGAGCTGAAGCGGGCCCTCACGGCCGCCTACACTTCTCGGGAGGCTCCCT
TT

Alignment

ORF - retro_etel_2156 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.26 %
• Parental protein coverage: 69.16 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVDAYKT
          RIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVDAYKT
Retrocopy RIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVDAYKT

Parental  IAREEGFRGLWKGTSPNVARNAIVNCAELVTYDLIKDSLLKANLMTDDLPCHFISAFGAGFCTTVIASPV
          IA..EGFRGLWKGTSPNVARNAIVNCAELVTYDLIKDSLLKA.LMTDDLPCHFISAFGAGFCTTVIASPV
Retrocopy IAL*EGFRGLWKGTSPNVARNAIVNCAELVTYDLIKDSLLKAKLMTDDLPCHFISAFGAGFCTTVIASPV

Parental  DVVKTRYMNSALGQYSSAGNCALTMLQKEG-RAFYKGFMPSFLRLGSWNVVMFVTYEQLKRALMAAYTSR
          DVVKTRY.NSALGQYSSAGNCALTMLQKEG.RAFYKGFMPSFLRLGSWNVVMFVTYE.LKRAL.AAYTSR
Retrocopy DVVKTRYINSALGQYSSAGNCALTMLQKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEELKRALTAAYTSR

Parental  EALF
          EA.F
Retrocopy EAPF

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_2156 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000014773	1 retrocopy	retro_etel_2156 ,
Macropus eugenii	ENSMEUG00000011481	2 retrocopies	retro_meug_2102, retro_meug_505,
Monodelphis domestica	ENSMODG00000007498	2 retrocopies	retro_mdom_1122, retro_mdom_1703,
Otolemur garnettii	ENSOGAG00000001700	1 retrocopy	retro_ogar_601,