RetrogeneDB ID: retro_etel_1141

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_217411:1769..2121(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000003884
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MED21
• Ensembl ID: ENSETEG00000006223
• Aliases: None
• Description: mediator complex subunit 21 [Source:HGNC Symbol;Acc:11473]

Sequence

>retro_etel_1141
GTACTTCTCCAGTGTCTCCTCTCCTGCCTATTTCAGCAATGTTCAGGCAGCAGTTAACAAAGATCAGCCACATAAGCCTA
CTGAAAAGCATGCCCAACTTTCACAGCACCGATTCCAGAAACAGCAAAAGACATAAATGTTTTGATAGTTTCCTCAACCC
AGTGAAGAATCTGCAGCCGCTCTACAAGTTGCTAGTTCGTATAAGCTAGGAGACGAGAACCAGGAAGCCGCTCCAAGTCT
GGAGGATGCTGTTTATCACGATCGGGTATGCTTCTGGAAATGATTCAAAGTGTACTTGCCGATACTGCACAGTGACAGCA
AAAGACAAGAAGTAGCACCTACAGCCAGTCTC

Alignment

ORF - retro_etel_1141 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.33 %
• Parental protein coverage: 81.25 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VLQQC-GPPASFSNIQTAINKDQPANPTEEYAQL-FAALIARTAKDIDVLIDS-LPSEESTAALQAASLY
          VL.QC...PA.FSN.Q.A.NKDQP..PTE..AQL.F.A.I..TAKDI.VLI.S..PSEES.AALQ.AS.Y
Retrocopy VLLQC>SSPAYFSNVQAAVNKDQPHKPTEKHAQL<FTAPIPETAKDINVLIVS>QPSEESAAALQVASSY

Parental  KLEEENHEAATCLEDVVYRGDILLEKIQSALADIAQSQLKTRSGTHSQSL
          KL..EN.EAA..LED.VY.......K.......I..S..K........SL
Retrocopy KLGDENQEAAPSLEDAVYHDRVCFWK*FKVYLPILHSDSKRQEVAPTASL

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_1141 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011670	1 retrocopy	retro_amel_108,
Dasypus novemcinctus	ENSDNOG00000010041	1 retrocopy	retro_dnov_998,
Echinops telfairi	ENSETEG00000006223	1 retrocopy	retro_etel_1141 ,
Felis catus	ENSFCAG00000030691	1 retrocopy	retro_fcat_1101,
Homo sapiens	ENSG00000152944	1 retrocopy	retro_hsap_4105,
Gorilla gorilla	ENSGGOG00000016313	1 retrocopy	retro_ggor_2756,
Myotis lucifugus	ENSMLUG00000007678	1 retrocopy	retro_mluc_229,
Nomascus leucogenys	ENSNLEG00000005431	1 retrocopy	retro_nleu_573,
Pongo abelii	ENSPPYG00000004377	1 retrocopy	retro_pabe_3361,
Ictidomys tridecemlineatus	ENSSTOG00000008391	2 retrocopies	retro_itri_1005, retro_itri_1057,