RetrogeneDB ID: retro_dnov_512

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_554:2710..3290(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CA10
• Ensembl ID: ENSDNOG00000010755
• Aliases: None
• Description: carbonic anhydrase X [Source:HGNC Symbol;Acc:1369]

Sequence

>retro_dnov_512
AGATCCAGCTTTGGAAGGGAGGACAGCCAAGGGCTGGGGCACCTCCTCAGTGGACAGGCCTTGCCTGGGGAGGTGCAGCT
CATCCACTATAGCCATGCCTTACATACAAATGTCACAGAGAGTCCAAATGGGTTGGTGGTACTTTCCGTATTTATAAAAG
TTTATTATTCATCAAATCCATTTCTTAATGGAATGCTCAACAGAGATACTGTCACAAGAATAACATATAAAAACAATGCA
TATTTACTGCAGGTACTTAATGTAGAGGAACTGTATCCAGAGACCTCTAGTTTCATTACTTGTGGTGGGCCAATGATTAT
CCCACCTTGCTGTAAGCAGCAAGTAGGATAATAATGAACAAACCTGTCTAGATAACCAGGATGCAGATGCATTCCTTATG
CTTACTTAGCCAGAATCAGCCATCTCAGATCTTTCTGAACATGAATGACACCTTCAGGCCTGTCCAGCCACTCAACAACA
GCTGCATCTGCACCAACCACAGCTTCAGTTTACAGGGAAGGGCTGTCCAAACCACCGAGCCCAGAAATTTCAGTGGAGAG
TAAACGAATGGCTCCTCAAG

Alignment

ORF - retro_dnov_512 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.35 %
• Parental protein coverage: 59.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RLHFGSEDSQGSEHLLNGQAFSGEVQLIHYNHELYTNVTEAAKSPNGLVVVSIFIKVSDSSNPFLNRMLN
          R..FG.EDSQG..HLL.GQA..GEVQLIHY.H.L.TNVTE...SPNGLVV.S.FIKV..SSNPFLN.MLN
Retrocopy RSSFGREDSQGLGHLLSGQALPGEVQLIHYSHALHTNVTE---SPNGLVVLSVFIKVYYSSNPFLNGMLN

Parental  RDTITRITYKNDAYLLQGLNIEGTYPGTSSFINYDESMTIPPCYE-TAGWIIMN-PMCITRMQIHSLCLL
          RDT.TRITYKN.AYLLQ.LN.E..YP.TSSFI.....M.IPPC....A..IIMN.P..ITRMQ.HSLCLL
Retrocopy RDTVTRITYKNNAYLLQVLNVEELYPETSSFITCGGPMIIPPCCK<AASRIIMNKPV*ITRMQMHSLCLL

Parental  SQNQPSQIVPNMSDNFRPVRPLNNCCIHPNINFSLQ-GKDCPNNRAQELQYRINEWLLK
          SQNQPSQI..NM.D.FRPV.PLNN.CI..N..FSLQ.GK.CPN.RAQ..Q.R.NEWLLK
Retrocopy SQNQPSQIFLNMNDTFRPVQPLNNSCICTNHSFSLQ<GKGCPNHRAQKFQWRVNEWLLK

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	0.58 RPM
SRP012922_cerebellum	0.00 RPM	51.00 RPM
SRP012922_heart	0.00 RPM	0.93 RPM
SRP012922_kidney	0.00 RPM	0.27 RPM
SRP012922_liver	0.00 RPM	0.15 RPM
SRP012922_lung	0.00 RPM	0.61 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.00 RPM
SRP012922_spleen	0.00 RPM	0.00 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_512 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009007	1 retrocopy	retro_chof_855,
Dasypus novemcinctus	ENSDNOG00000005408	1 retrocopy	retro_dnov_51,
Dasypus novemcinctus	ENSDNOG00000010755	1 retrocopy	retro_dnov_512 ,
Monodelphis domestica	ENSMODG00000012548	1 retrocopy	retro_mdom_700,