RetrogeneDB ID: retro_etel_1965

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_320202:88181..88537(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YPEL1
• Ensembl ID: ENSETEG00000008187
• Aliases: None
• Description: yippee-like 1 (Drosophila) [Source:HGNC Symbol;Acc:12845]

Sequence

>retro_etel_1965
ATGGCACAGGTGACAAAATCCCAAACCTTCCAAGCTTATCTGCCAAACTGCCATCGCACATATAGCTGTCTCCACTGCAG
GGCCACCTGGCCAAGCACGACGAGCTCATCTCCAAATGCTTCCAGGGATGCCAGGGCAGTGCCTACCTCTTCAGTTTTGT
GGTGAACGTGAGCTGCGGTCCAGCGGAGGAGCGTGTCCTGATCACAGGCTTGCACGCCGTCTCGGACATTTACTGTGAAA
ACTGCCAAACCACCCTGGGCTGGAAATACGAACATGCCTTTGAGAGCAGTCAGAAATATTAGGAAGGAAAATGTATCAAT
GAGCTCGCCCACAGGATCAAGGACAAGGGCTGGGAG

Alignment

ORF - retro_etel_1965 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.79 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVKMTKSKTFQAYLPNCHRTYSCLHCRA-HLANHDELISKAXSFQGSQGRAYLFNSVVNVGCGPAEERVL
          M...TKS.TFQAYLPNCHRTYSCLHCRA.HLA.HDELISK...FQG.QG.AYLF..VVNV.CGPAEERVL
Retrocopy MAQVTKSQTFQAYLPNCHRTYSCLHCRA<HLAKHDELISKC--FQGCQGSAYLFSFVVNVSCGPAEERVL

Parental  LTGLHAVSDIYCENCKTTLGWKYEHAFESSQKYKEGKFIIELAHMIKDNGWE
          .TGLHAVSDIYCENC.TTLGWKYEHAFESSQKY.EGK.I.ELAH.IKD.GWE
Retrocopy ITGLHAVSDIYCENCQTTLGWKYEHAFESSQKY*EGKCINELAHRIKDKGWE

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_1965 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
Anolis carolinensis	ENSACAG00000001397	1 retrocopy	retro_acar_93,
Callithrix jacchus	ENSCJAG00000015755	1 retrocopy	retro_cjac_597,
Dasypus novemcinctus	ENSDNOG00000024482	1 retrocopy	retro_dnov_13,
Echinops telfairi	ENSETEG00000008187	1 retrocopy	retro_etel_1965 ,
Pteropus vampyrus	ENSPVAG00000013638	1 retrocopy	retro_pvam_162,
Tursiops truncatus	ENSTTRG00000016725	1 retrocopy	retro_ttru_1895,