RetrogeneDB ID: retro_etel_2071

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_47168:1224..1455(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FKBP1B
• Ensembl ID: ENSETEG00000018990
• Aliases: None
• Description: FK506 binding protein 1B, 12.6 kDa [Source:HGNC Symbol;Acc:3712]

Sequence

>retro_etel_2071
AAGGCGTTTCCCAAGAAGGGCCAGACGTGTGTGCTACACTACACAGGAATGCTCCAAAATGGGAAGAAATTTAATTCATC
CCGAGACAGAAACAAACCTTTCAAGTTCAGAATTGGCAAACAAGAAGTTATCAAGGGCTTCGACAAGGGCGCGGCCCAGA
TGAGCTTGGGGCAGAGGGTGAAGCTTACCTGCACCCCTGATGTGGTGTATGGAACCACGGGCCACCCTGGT

Alignment

ORF - retro_etel_2071 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.31 %
• Parental protein coverage: 81.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RTFPKKGQTCVVHYTGILQNGKKFDSSRDRNKPFKFRIGKQEVIKGFEEGAAQMSLGQRAKLTCTPDVAY
          ..FPKKGQTCV.HYTG.LQNGKKF.SSRDRNKPFKFRIGKQEVIKGF..GAAQMSLGQR.KLTCTPDV.Y
Retrocopy KAFPKKGQTCVLHYTGMLQNGKKFNSSRDRNKPFKFRIGKQEVIKGFDKGAAQMSLGQRVKLTCTPDVVY

Parental  GTTGHPG
          GTTGHPG
Retrocopy GTTGHPG

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_2071 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 13 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002797	1 retrocopy	retro_amel_1717,
Ciona savignyi	ENSCSAVG00000006859	1 retrocopy	retro_csav_11,
Erinaceus europaeus	ENSEEUG00000013920	2 retrocopies	retro_eeur_135, retro_eeur_514,
Echinops telfairi	ENSETEG00000003358	8 retrocopies	retro_etel_1114, retro_etel_1484, retro_etel_1491, retro_etel_1499, retro_etel_1774, retro_etel_2130, retro_etel_2200, retro_etel_997,
Echinops telfairi	ENSETEG00000007454	1 retrocopy	retro_etel_2059,
Echinops telfairi	ENSETEG00000018432	1 retrocopy	retro_etel_867,
Echinops telfairi	ENSETEG00000018990	2 retrocopies	retro_etel_186, retro_etel_2071 ,
Homo sapiens	ENSG00000119782	1 retrocopy	retro_hsap_1329,
Macropus eugenii	ENSMEUG00000010689	1 retrocopy	retro_meug_14,
Microcebus murinus	ENSMICG00000001530	1 retrocopy	retro_mmur_257,
Pan troglodytes	ENSPTRG00000011708	1 retrocopy	retro_ptro_906,
Sorex araneus	ENSSARG00000013808	1 retrocopy	retro_sara_24,
Tupaia belangeri	ENSTBEG00000012282	1 retrocopy	retro_tbel_56,