RetrogeneDB ID: retro_etel_86

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_1465:82589..83353(-)
• Located in intron of: ENSETEG00000016538

Retrocopy information

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

Parental gene information

• Parental gene symbol: G3BP2
• Ensembl ID: ENSETEG00000016219
• Aliases: None
• Description: GTPase activating protein (SH3 domain) binding protein 2 [Source:HGNC Symbol;Acc:30291]

Sequence

>retro_etel_86
ATGGTTATGGAGAAACCCAGTCTGCTGCTTGTAGGGCGGTTGTTTGTGATGCAATACTATACTTTGCTGAATAAAGCTCC
AGAATATTTACACAGGTTTTATGGCAGGAATTCTTCCGATGTTCACGGTGGAGCAGATGCTAGTGGAAAGCCCCAAGAAG
CTGTTTATGATCAAAATGATATACATCACAAAGTATTATCTCTGAACTTCAGTGCGTGTCATACTAAAATTCGTCATGTG
GATGCTCATGCAACCTTGAGTGATGGAGTAGTTGTTCAGGTCATGGGCTTCCTGTCTAACAGTGGACAACCAGAGAGGAA
GCTTATGCAAACGTTGGTCCTGGCTCCTGAAGGTTCTGTTCCAAATCAGTTTTATGTTCACAATGATATGTTTCGTTATG
AAGATGAAGTGTTTGGTGATTCTGAACCAGAACTTGATCAAGAGTCAGAAGATGAAGTAGAAGAGGAACAAGAAGAAAGG
CAACCATCTCCCGAACCTGTTCAGGAAAATGCCAGTAGTGGTTACTATGAAGCTCACCCTGTGACTAATGGCAGAGAGGA
ACCTTTAGAAGAAGCTCTCATGACCCTGAACCTGAGCCAGAATCTGAAGCAAAAACTGAAGAACTGAAACCACAAGTGGA
GGAGAAAAACTTAGAATTAGAGGAGAAGTCTATTTCTCCTCCGCCTGCGGAACCTGCTTCTCTGCCACAAGAACCACCAA
AGCCAAGAGTTGAAGCTAAACCGGAAGTCCCACATCGGCCACCT

Alignment

ORF - retro_etel_86 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.67 %
• Parental protein coverage: 53.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVMEKPSPLLVGREFVRQYYTLLNKAPEYLHRFYGRNSSYVHGGVDASGKPQEAVYGQNDIHHKVLSLNF
          MVMEKPS.LLVGR.FV.QYYTLLNKAPEYLHRFYGRNSS.VHGG.DASGKPQEAVY.QNDIHHKVLSLNF
Retrocopy MVMEKPSLLLVGRLFVMQYYTLLNKAPEYLHRFYGRNSSDVHGGADASGKPQEAVYDQNDIHHKVLSLNF

Parental  SECHTKIRHVDAHATLSDGVVVQVMGLLSNSGQPERKFMQTFVLAPEGSVPNKFYVHNDMFRYEDEVFGD
          S.CHTKIRHVDAHATLSDGVVVQVMG.LSNSGQPERK.MQT.VLAPEGSVPN.FYVHNDMFRYEDEVFGD
Retrocopy SACHTKIRHVDAHATLSDGVVVQVMGFLSNSGQPERKLMQTLVLAPEGSVPNQFYVHNDMFRYEDEVFGD

Parental  SEPELDEESEDEVEEEQEERQPSPEPVQENASSGYYEAHPVTNGIEEPLEEA-SHDPEPEPESETKTEEL
          SEPELD.ESEDEVEEEQEERQPSPEPVQENASSGYYEAHPVTNG.EEPLEEA.SHDPEPEPESE.KTEEL
Retrocopy SEPELDQESEDEVEEEQEERQPSPEPVQENASSGYYEAHPVTNGREEPLEEA<SHDPEPEPESEAKTEEL

Parental  KPQVEEKNLEELEKSISPPPAEPVSLPQEPPKAFSWASVTSKNLPP
          KPQVEEKNLE..EKSISPPPAEP.SLPQEPPK....A.......PP
Retrocopy KPQVEEKNLELEEKSISPPPAEPASLPQEPPKPRVEAKPEVPHRPP

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_86 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019897	1 retrocopy	retro_cjac_4164,
Echinops telfairi	ENSETEG00000016219	1 retrocopy	retro_etel_86 ,
Echinops telfairi	ENSETEG00000017447	1 retrocopy	retro_etel_1488,
Gorilla gorilla	ENSGGOG00000014947	1 retrocopy	retro_ggor_1763,
Otolemur garnettii	ENSOGAG00000000157	1 retrocopy	retro_ogar_810,
Ictidomys tridecemlineatus	ENSSTOG00000012975	1 retrocopy	retro_itri_1853,