RetrogeneDB ID: retro_etel_836

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_172943:2..411(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YEATS4
• Ensembl ID: ENSETEG00000010793
• Aliases: None
• Description: YEATS domain containing 4 [Source:HGNC Symbol;Acc:24859]

Sequence

>retro_etel_836
ATGTCAGCGTATGTGAAGAAACCCAGCTGAAAGTACAGGAAAGTTAGGTCGGTCCCCAAAGAATCGCCGCTAAGCCACCG
TACAAAATTACTGAAACGGGATGGGGTGAACTGAAATAATCCTCAGAATAGTTTTTCACTGACCCTAAGAAAAAACCCGT
GTCCCTGTGCCGTTTATTACAGCTCTTTCGGTTGGACACCCAGGCCATGCTGGGGAAAAAGACAGCGGCTTCTGAGTTTC
CGGATGAAGCGATATCTGCAGACCCACAGCACTGACAGGACAATTACTCACAACATCGTGTCAGCCGGCACGAGCAGGCT
GTGGGCACTTAACGGAATTTGTAGAACTCGGAGTGAGCACCAGAGAAAACCTAGAAGCTGCCAAGAAGAACACACGCTTC
GAAGCTGCA

Alignment

ORF - retro_etel_836 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.99 %
• Parental protein coverage: 60.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MSAYVKK-IQFKLHESYGNPLRVVTKPPYEITETGWGEF-EIIIKI-FFIDPNERPVTLYHLLKLFQSDT
          MSAYVKK..Q.K..ES...P.R...KPPY.ITETGWGE..EII..I.FF.DP...PV.L..LL.LF..DT
Retrocopy MSAYVKK<TQLKVQES*VGPQRIAAKPPYKITETGWGEL<EIILRI>FFTDPKKKPVSLCRLLQLFRLDT

Parental  NAMLGKKTVVSEFYDEMIFQD-PTAMMQQLLTTSRQLTLGAYKHETEFAELEVKTREKLEAAKKKTSFEI
          .AMLGKKT..SEF.DE.I..D.PTA...QLLTTS.Q.......H.TEF.EL.V.TRE.LEAAKK.T.FE.
Retrocopy QAMLGKKTAASEFPDEAISAD<PTALTGQLLTTSCQPARAGCGHLTEFVELGVSTRENLEAAKKNTRFEA

Parental  A
          A
Retrocopy A

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_836 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000010793	1 retrocopy	retro_etel_836 ,
Microcebus murinus	ENSMICG00000002467	1 retrocopy	retro_mmur_1433,
Monodelphis domestica	ENSMODG00000020377	1 retrocopy	retro_mdom_1545,
Nomascus leucogenys	ENSNLEG00000003837	1 retrocopy	retro_nleu_816,
Oryctolagus cuniculus	ENSOCUG00000011552	1 retrocopy	retro_ocun_1414,
Tursiops truncatus	ENSTTRG00000013951	2 retrocopies	retro_ttru_226, retro_ttru_295,