RetrogeneDB ID: retro_dnov_2028

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_43047:3394..3976(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDOB
• Ensembl ID: ENSDNOG00000014816
• Aliases: None
• Description: aldolase B, fructose-bisphosphate [Source:HGNC Symbol;Acc:417]

Sequence

>retro_dnov_2028
CACAAAGAAACCACTATTCAAGGGCTCGGCAGCATCTCTGAGTGCTGTTCTCATACAAGAATGATGGTGCTGACTTGGGG
AGGTGGCATGCTGTGCTAAGGATTGCCGACCAGCGTTCAGCCAACCTTGGTATCCAGGAGAACACTTACACCCTGGCCTG
CTACGCCAGCATCTGCCTGCAGAATGGATCGGTGCCCACTGTTGAACCAGAGGTCATTCCCAATGGAGACCATGGCATGG
AACATCGCCAATATGTTACTGAGAAGGTCCTGGCTGTTGTCTGCAAGGCCTTGAATGATGATCCTGTTTGTCTGGAAGAC
ACCCTGCCAAAGCCCAACCTGATGACCGCTGGACATGCCTGCGCCAAGACGCACACTCCAGGGCAAGTGGCTATGGCCAC
TGACGCAGCTCTTCACCGCACCATTCCTGCTGCTGTTCCTGGCATCTGCTTTTCGTCTAGTGGCATGAGTGAAGAGGATG
CCACCTCAACCTCAGTGCTATCAACTTTTGCCCTCTACCAAGACCCTGGAAACTAAGTGTCTCATATGGATGGGCCCTGT
AGCCAGTGCACTTGCTGTCTGG

Alignment

ORF - retro_dnov_2028 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.24 %
• Parental protein coverage: 59.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  NKETTIQGLDGLSERCAQ-YKKDGADFGKWRAVLRIADQCPSNLAIQENAYTLARYASICQQNGLVPIVE
          .KETTIQGL...SE.C...YK.DGAD.G.W.AVLRIADQ...NL.IQEN.YTLA.YASIC.QNG.VP.VE
Retrocopy HKETTIQGLGSISECCSH<YKNDGADLGRWHAVLRIADQRSANLGIQENTYTLACYASICLQNGSVPTVE

Parental  PEVIPDGDHDMEHCQYVTEKVLAAMYKALNDHHVYLEGTLLKPNMVTAGHACTKKYTPEQVAMATVTALH
          PEVIP.GDH.MEH.QYVTEKVLA...KALND..V.LE.TL.KPN..TAGHAC.K..TP.QVAMAT..ALH
Retrocopy PEVIPNGDHGMEHRQYVTEKVLAVVCKALNDDPVCLEDTLPKPNLMTAGHACAKTHTPGQVAMATDAALH

Parental  RTVPAAVPGICFLSGGMSEEDAT-LNLNAINLCPLPRPWKLSFSYGRAL-QASALAAW
          RT.PAAVPGICF.S.GMSEEDAT.LNL.AIN.CPLPRPWKLS.SYG.AL..ASALA.W
Retrocopy RTIPAAVPGICFSSSGMSEEDAT<LNLSAINFCPLPRPWKLSVSYGWAL<VASALAVW

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	0.00 RPM	20.03 RPM
SRP012922_cerebellum	0.00 RPM	3.16 RPM
SRP012922_heart	0.00 RPM	1.86 RPM
SRP012922_kidney	0.00 RPM	2862.53 RPM
SRP012922_liver	0.00 RPM	2041.13 RPM
SRP012922_lung	0.00 RPM	91.63 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.94 RPM
SRP012922_spleen	0.00 RPM	3.89 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_2028 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 4 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014816	5 retrocopies	retro_dnov_1625, retro_dnov_1631, retro_dnov_2028 , retro_dnov_2152, retro_dnov_547,
Echinops telfairi	ENSETEG00000017395	2 retrocopies	retro_etel_2089, retro_etel_945,
Monodelphis domestica	ENSMODG00000014418	2 retrocopies	retro_mdom_1752, retro_mdom_393,
Tupaia belangeri	ENSTBEG00000009298	1 retrocopy	retro_tbel_3244,