RetrogeneDB ID: retro_etel_873

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_178333:328..649(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000012518
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RNF11
• Ensembl ID: ENSETEG00000006072
• Aliases: None
• Description: ring finger protein 11 [Source:HGNC Symbol;Acc:10056]

Sequence

>retro_etel_873
GAGTCTCAGTCTGATTCGGCTAACTTTGGTGAGGGGATGGAGCCTAGTCAGGAGCTCCCACTACCATGTCACGAAGAAGT
TTCAGTTTCAGTCTTATCATCCAACCCCAAGCTAGACTCAACAACACAATTGACAGAGAGGAGCAAATTGGGATAGCTCA
AAGAGTAGGCCTTATACAGCATCTGCCTAAAGGCATATATAACTCTGGAAGAGGTTGATCAGAGAAAAAAGATTTAGGAA
TATGTGATCTGTATGATAGACTTTGTTTCTGGGGACCCAATTTGATTTCTGCCACAAAAGCACATCTATTACTTGGGATG
T

Alignment

ORF - retro_etel_873 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.55 %
• Parental protein coverage: 70.13 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ESQSDRASFGEGTEPDQEPPPPYQEQVPVPVYHPTPSQTRLATQLTE-EEQIRIAQRIGLIQHLPKGVYD
          ESQSD.A.FGEG.EP.QE.P.P..E.V.V.V....P......TQLTE.EEQI.IAQR.GLIQHLPKG.Y.
Retrocopy ESQSDSANFGEGMEPSQELPLPCHEEVSVSVLSSNPKLDS-TTQLTE<EEQIGIAQRVGLIQHLPKGIYN

Parental  PGRDGSE-KKIRECVICMMDFVYGDPIRFLPCMHIYHLDC
          .GR..SE.KKI.E.VICM.DFV.GDPI.FLP..HIY.L.C
Retrocopy SGRG*SE>KKI*EYVICMIDFVSGDPI*FLPQKHIYYLGC

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_873 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000006072	1 retrocopy	retro_etel_873 ,
Homo sapiens	ENSG00000123091	1 retrocopy	retro_hsap_3925,
Gorilla gorilla	ENSGGOG00000004919	1 retrocopy	retro_ggor_2641,
Myotis lucifugus	ENSMLUG00000004439	1 retrocopy	retro_mluc_145,
Otolemur garnettii	ENSOGAG00000011682	1 retrocopy	retro_ogar_2003,
Pongo abelii	ENSPPYG00000001361	1 retrocopy	retro_pabe_3241,
Pan troglodytes	ENSPTRG00000041089	1 retrocopy	retro_ptro_2669,
Ictidomys tridecemlineatus	ENSSTOG00000020072	4 retrocopies	retro_itri_1747, retro_itri_1886, retro_itri_633, retro_itri_974,
Tursiops truncatus	ENSTTRG00000010211	1 retrocopy	retro_ttru_1644,