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 summary: | ||
| Parental gene symbol: | CA10 | ||
| Ensembl ID: | ENSDNOG00000010755 | ||
| Aliases: | None | ||
| Description: | carbonic anhydrase X [Source:HGNC Symbol;Acc:1369] |
Retrocopy-Parental alignment summary:
>retro_dnov_512
AGATCCAGCTTTGGAAGGGAGGACAGCCAAGGGCTGGGGCACCTCCTCAGTGGACAGGCCTTGCCTGGGGAGGTGCAGCT
CATCCACTATAGCCATGCCTTACATACAAATGTCACAGAGAGTCCAAATGGGTTGGTGGTACTTTCCGTATTTATAAAAG
TTTATTATTCATCAAATCCATTTCTTAATGGAATGCTCAACAGAGATACTGTCACAAGAATAACATATAAAAACAATGCA
TATTTACTGCAGGTACTTAATGTAGAGGAACTGTATCCAGAGACCTCTAGTTTCATTACTTGTGGTGGGCCAATGATTAT
CCCACCTTGCTGTAAGCAGCAAGTAGGATAATAATGAACAAACCTGTCTAGATAACCAGGATGCAGATGCATTCCTTATG
CTTACTTAGCCAGAATCAGCCATCTCAGATCTTTCTGAACATGAATGACACCTTCAGGCCTGTCCAGCCACTCAACAACA
GCTGCATCTGCACCAACCACAGCTTCAGTTTACAGGGAAGGGCTGTCCAAACCACCGAGCCCAGAAATTTCAGTGGAGAG
TAAACGAATGGCTCCTCAAG
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 |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
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 |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_512 was not experimentally validated.
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.Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000009007 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000005408 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000010755 | 1 retrocopy |
retro_dnov_512 ,
|
| Monodelphis domestica | ENSMODG00000012548 | 1 retrocopy |