RetrogeneDB ID: retro_etel_1509

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_276013:1721..2338(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM120B
• Ensembl ID: ENSETEG00000008930
• Aliases: None
• Description: transmembrane protein 120B [Source:HGNC Symbol;Acc:32008]

Sequence

>retro_etel_1509
ATGTCCGGGCAGCTGGAGCGCTGCGAGCGCGATTGGCACAAGCTGGAGGGAGAATTTCAGGAACTGCAGAAAACACACAA
GATCTACAAGCAGAAGCTGGAGGAGCTGACGGCCCTGCAGAGCCTGTGTAGCAGCTCCATCCACAAGCAGAATAAGCGGC
TGAAGGGCTTGAAGCACACACTCCAGAGGTACTAGCGTCATGCTCAGCTCAAGAGGAGGCAGAGCTTATCCAGCAGATGG
GCGCCAACATTAAGGAGCGGCAAGACATCTTCTTCGACATGGAGGCCTACCTGCCCAAGAAGAATGGGCTCTACTTAAAC
CTGGTCCTGGGCAACGTGAATGTGACCCTTCTCAGCAACCAGGCCAAGTTCGCCTATAAGGACGAGTACGAGAAGTTCAA
ACTGTACCTGACCATCATCCTGCTGCTTGGTGCTGTGGCGTGTCGGTTTGTCCTTCACTACAGGGTGACAGACGAAGTCT
TCAACTTCCTGCTGGTGTGGTATTACTGCACCCTGACGATCCGGGAGAGCATTCTCATCAGCAATGGCTCGAGGATCAAA
GGCTGGTGGGTGTCTCACCACTACGTGTCCACATTCCTGTCAGGCGTGATGTTGACT

Alignment

ORF - retro_etel_1509 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.99 %
• Parental protein coverage: 60.47 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSGQLERCERDWHELEGEFQELQETHKIYKQKLEELTALQSLCSSSIHKQKKRLKDLKHTLQRYKRHA-S
          MSGQLERCERDWH.LEGEFQELQ.THKIYKQKLEELTALQSLCSSSIHKQ.KRLK.LKHTLQRY.RHA.S
Retrocopy MSGQLERCERDWHKLEGEFQELQKTHKIYKQKLEELTALQSLCSSSIHKQNKRLKGLKHTLQRY*RHA<S

Parental  QEE-AELIQQMGANIKERQDIFFDMEAYLPKKNGXXXXXXXXXXXXXXXXXXXXFAYKDEYEKFKLYLTI
          ..E.AELIQQMGANIKERQDIFFDMEAYLPKKNG....................FAYKDEYEKFKLYLTI
Retrocopy AQEEAELIQQMGANIKERQDIFFDMEAYLPKKNGLYLNLVLGNVNVTLLSNQAKFAYKDEYEKFKLYLTI

Parental  ILLLGAVACRFVLHYRVTDEVFNFLLVWYYCTLTIRESILISNGSRIKGWWVSHHYVSTFLSGVMLT
          ILLLGAVACRFVLHYRVTDEVFNFLLVWYYCTLTIRESILISNGSRIKGWWVSHHYVSTFLSGVMLT
Retrocopy ILLLGAVACRFVLHYRVTDEVFNFLLVWYYCTLTIRESILISNGSRIKGWWVSHHYVSTFLSGVMLT

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_1509 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000008930	1 retrocopy	retro_etel_1509 ,