RetrogeneDB ID: retro_dnov_617

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_6850:2222..2835(-)
• Located in intron of: ENSDNOG00000024151

Retrocopy information

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

Parental gene information

• Parental gene symbol: SULT1C4
• Ensembl ID: ENSDNOG00000019282
• Aliases: None
• Description: sulfotransferase family, cytosolic, 1C, member 4 [Source:HGNC Symbol;Acc:11457]

Sequence

>retro_dnov_617
GCCTTAAACAAGATGGAGGATTTGAGAATTAAGGAAATGGAGCGCATAACTGTGGACTATGTGGGGGGGAATTCTTTGAC
CACACCCACCTGTGAAACCTGGGATCAGATCTGGAACTTCCAAGCAAAGCCTGATGATTTGCTGATTTCTACCTATCCTA
AAGCAGGAACAACACGGACTCAGGGGATAGCAGACATAATACAAAATGGAGGTGAGGTTGAGAAAAGCAAATGAGCGCCT
ACTCATGTACGATTTCCCTTCGTCAAATGCATAATCTCATCCATTGGATCTGGTTTGGAACAAGCTAATGCAATGTCCTC
ACCCCAGACCCTGAAAACTCATCTTCCCATCCACCTGCTGCCCTCATCCTTCCTAGAGAACAATTGTTAAGATAATCTAT
GTAGCAAGAAATTCCAAGGACAATGTGATACCCTACTACCATTTCCAAAGGATGCATAAACCACTTCCTGCTCCAGGAAC
CTGGGAAGAGTATTTTGAGACTTTTCTGTCAGGTAAAGTGTTCTGGGGCTCATGGCATGACCATGTGAAAGGATGGTGGG
AAGCCAAAGTCCATCACTGCATTCTCTCTCTCTTCTATGAAGACACAAAGGAG

Alignment

ORF - retro_dnov_617 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.02 %
• Parental protein coverage: 68. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ALNKMEDLKIKEMERITVDYVEGILQPTPTCEIWDQIWNFQAKPDDLLISTYPKAGTTWTQEIVDLIQNG
          ALNKMEDL.IKEMERITVDYV.G....TPTCE.WDQIWNFQAKPDDLLISTYPKAGTT.TQ.I.D.IQNG
Retrocopy ALNKMEDLRIKEMERITVDYVGGNSLTTPTCETWDQIWNFQAKPDDLLISTYPKAGTTRTQGIADIIQNG

Parental  GEVEKSKRAPTHVRFPFIEWIIPSIGSGLEQANAMPSPRILKTHLPIHLLPPSFLEKNC-KIIYVARNPK
          GEVEKSK.APTHVRFPF...II.SIGSGLEQANAM.SP..LKTHLPIHLLP.SFLE.NC.KIIYVARN.K
Retrocopy GEVEKSK*APTHVRFPFVKCIISSIGSGLEQANAMSSPQTLKTHLPIHLLPSSFLENNC>KIIYVARNSK

Parental  DNMISYYHFHRMNKALPAPGTWEEYFETFLSGKVCWGSWXXXXXXXXXAKAHHRILYLFYEDMKK
          DN.I.YYHF.RM.K.LPAPGTWEEYFETFLSGKV.WGSW.........AK.HH.IL.LFYED.K.
Retrocopy DNVIPYYHFQRMHKPLPAPGTWEEYFETFLSGKVFWGSWHDHVKGWWEAKVHHCILSLFYEDTKE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP012922_ascending_colon	0.78 RPM	28.00 RPM
SRP012922_cerebellum	0.00 RPM	3.71 RPM
SRP012922_heart	0.23 RPM	6.73 RPM
SRP012922_kidney	0.55 RPM	31.49 RPM
SRP012922_liver	2.17 RPM	48.76 RPM
SRP012922_lung	0.46 RPM	16.95 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.90 RPM
SRP012922_spleen	0.23 RPM	12.02 RPM

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_617 was not experimentally validated.

Homology

Retrocopy orthology:

Dasypus novemcinctus 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000019282	1 retrocopy	retro_dnov_617 ,
Tupaia belangeri	ENSTBEG00000011091	1 retrocopy	retro_tbel_3210,