RetrogeneDB ID: | retro_dnov_2265 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_59803:2223..2755(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARL5A | ||
| Ensembl ID: | ENSDNOG00000013331 | ||
| Aliases: | None | ||
| Description: | ADP-ribosylation factor-like 5A [Source:HGNC Symbol;Acc:696] |
Retrocopy-Parental alignment summary:
>retro_dnov_2265
ATGGATCTCCTCTTCACGAAGCTGTGGAGCTTCTTCTGTTGCCAAGGACACAAAATGCTCATCATGTTACTGGATAATGT
AATAAAAACCACCATTCTCTATCAGTTTTTAATGTTAGAAGTGGTTCACACTTCTCCAACCATTGGAAGTCATATTGAAG
AAATCATGGTGAAGAGCACTCATTTCTTCACATGGGACATTGGAAGCCAGGAGTCCCTGTAGTCATCATGGAACACTAAT
TTCTCAAACACAGAATTCATCATTCTTGTTGACAATATTGACCGGGAGCAACTGGCTATTACAAAAAAAGAATTTTGCCC
AATGTTGGGCCATGAGCACATGCTGAAGGCTGCAGTTCTCATTATACCAACAAGCAGGACATAAAAGCATTCATGATAGT
GATCAAGATCTCCAAGGAGCTCACCATCAACTCCATCAATGGCCACTCATGACACATTCAGTCCTACTATGCCTCACAGG
GGAGGCATCATGCCAAGGACAGGAGCAGATGACTTTCCATATTGCCATGAGA
ORF - retro_dnov_2265 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.04 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MGILFTRIWRLFNHQEHKVIIVGLDNAGKTTILXXXSMNEVVHTSPTIGSNVEEIVVNNTRFLMWDIGGQ |
| M..LFT..W..F..Q.HK..I..LDN..KTTIL....M.EVVHTSPTIGS..EEI.V..T.F..WDIG.Q | |
| Retrocopy | MDLLFTKLWSFFCCQGHKMLIMLLDNVIKTTILYQFLMLEVVHTSPTIGSHIEEIMVKSTHFFTWDIGSQ |
| Parental | ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLI-FANKQDVKECMTVAEIS |
| ESL.SSWNT...NTEF.I..VD..DRE....T..E...ML.HE...KA..LI...NKQD.K..M.V..IS | |
| Retrocopy | ESL*SSWNTNFSNTEF-IILVDNIDREQLAITKKEFCPMLGHEHMLKAAVLI<YTNKQDIKAFMIVIKIS |
| Parental | QFLKLTSIKDHQWHIQACCA-LTGEGLCQGLEWMMSRLKIR |
| ..L...SI..H..HIQ...A.LTGE..CQG.E.M......R | |
| Retrocopy | KELTINSINGHS*HIQSYYA<LTGEASCQGQEQMTFHIAMR |
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 | 15 .56 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 6 .60 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .34 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .57 RPM |
| SRP012922_liver | 0 .00 RPM | 4 .18 RPM |
| SRP012922_lung | 0 .00 RPM | 10 .39 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 10 .73 RPM |
| SRP012922_spleen | 0 .00 RPM | 13 .05 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_2265 was not experimentally validated.