RetrogeneDB ID: | retro_dnov_2188 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_54102:946..1427(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DTWD2 | ||
| Ensembl ID: | ENSDNOG00000014789 | ||
| Aliases: | None | ||
| Description: | DTW domain containing 2 [Source:HGNC Symbol;Acc:19334] |
Retrocopy-Parental alignment summary:
>retro_dnov_2188
AGAGATCCTGAAATTCAACTACTTACCCAAAGTCTGGTACATTAATATTATACCAGAGGCTACAGCTTCCAATTTGAAAG
CATTTATATTACATTGCCCTATTCATCTTTCACAAACATCATTGATAATGTGTCGGGCTAGGAACATTTTCTATAAGAAT
TCCTTTTTTGACTTCCCAAACAGGAGCAATTAAAAACTAGCATTTCCAGTAAGTATGTAATTTGTATGCAACCAACTAAT
AGATGCTTTTCTACACTGGAGTGTGCAGATATTGCTCTTTCCATCTTGGAGAAAAATAATTACATACAAAAGACTTTACT
TCAACCTTCTTCAAGCGTTATGCTCCTTCCAGCTTCAGCATGGTACTCAAATTCACCTCAGCATGCAGCACCTTCTGAAA
AATGGATTATATGCTAAGTCCATGCCAAAGAACAAATGCAAACTCAGGAAAATGGAACTGTTAATGAACAGTATTAAAAT
T
ORF - retro_dnov_2188 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.62 % |
| Parental protein coverage: | 55.03 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | RDPEL-STICRKSGTLVLY-PGAEAANLEEFILDSPIYPSTIIIIDGTWSQAKDIFYKNS-LFRLPKQVQ |
| RDPE..ST...KSGTL.LY.P.A.A.NL..FIL..PI..S....I......A..IFYKNS.LF.LPKQ.Q | |
| Retrocopy | RDPEI<STTYPKSGTLILY<PEATASNLKAFILHCPIHLSQTSLI---MCRARNIFYKNS<LF*LPKQEQ |
| Parental | LKTSISSQYVIRMQPTNRCLSTLECAAVALSILEKNNYIQKTLLRP-LQALCSFQLQHGAQIRLSKEHLL |
| LKTSISS.YVI.MQPTNRC.STLECA..ALSILEKNNYIQKTLL.P.LQALCSFQLQHG.QI.LS..HLL | |
| Retrocopy | LKTSISSKYVICMQPTNRCFSTLECADIALSILEKNNYIQKTLLQP>LQALCSFQLQHGTQIHLSMQHLL |
| Parental | RNGLYPKPMPKNKRKLRKMELLMNSIKI |
| .NGLY.K.MPKNK.KLRKMELLMNSIKI | |
| Retrocopy | KNGLYAKSMPKNKCKLRKMELLMNSIKI |
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 | 6 .22 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 2 .89 RPM |
| SRP012922_heart | 0 .00 RPM | 4 .18 RPM |
| SRP012922_kidney | 0 .00 RPM | 2 .74 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .39 RPM |
| SRP012922_lung | 0 .00 RPM | 2 .44 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 5 .02 RPM |
| SRP012922_spleen | 0 .00 RPM | 2 .86 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_2188 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 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000014789 | 1 retrocopy |
retro_dnov_2188 ,
|
| Gorilla gorilla | ENSGGOG00000009599 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000015707 | 2 retrocopies | |
| Pan troglodytes | ENSPTRG00000017164 | 1 retrocopy |