RetrogeneDB ID: | retro_dnov_2617 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_91115:310..945(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BCAS2 | ||
| Ensembl ID: | ENSDNOG00000018484 | ||
| Aliases: | None | ||
| Description: | breast carcinoma amplified sequence 2 [Source:HGNC Symbol;Acc:975] |
Retrocopy-Parental alignment summary:
>retro_dnov_2617
ATGGTAGGCACAGGCTTGATCACTGGAGCGATTGTGGTGGATGTGATGCCCTGTTTTGATCAAGGTTTTGAAGTACCTGG
TGGGTAGGAAGTGGCGGTAGCACTGGTGGAGGAAGAAACTCACAGATACCGACCTACTAAGAACTACCCGAGCTACCTCA
CAGCCCCGGATTATTATGCTCTTGAAACTGACATAACGAGAAATGAATTTGAAAGACTGGCTGCCCAACAACCAATTGAA
TTGCTCAGTATGAAATGATAGGAGATCCCAGCTCCTTTCTCAGGTCAGAAAAATGATATGACTGCATGGCAAAAATGTGT
AAACAATTCTATGTCCAGTTAGAGCATCATGCTGTTTGAATTGAGAATCTGGAACTGATGTTACAGCATGAAAGCAATGC
CTAGAAGGTATATAATGAAAATCTAGTTCATATGATTGAATATGACCAGAAAGGCCTCTACAAGTTAAGGAAACACATTC
AAGATTTAAACTGGCAGCAAAAGAACATGCAGCTAGTGGCTGGATCTAAATGGAAGGAAATGGAGTCAATTTGGGTATCC
CTGGTTAGTAAGAATTGTGAGATTGAATGGACTATTGTACAACTAACAAATGAAATCTATCAAATTAAACCCCAG
ORF - retro_dnov_2617 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.93 % |
| Parental protein coverage: | 94.22 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAGTGLVAGEVVVDALPYFDQGYEAPGVREAAAALVEEETRRYRPTKNYLSYLTAPDYSAFETDIMRNEF |
| M.GTGL..G..VVD..P.FDQG.E.PG..E.A.ALVEEET.RYRPTKNY.SYLTAPDY.A.ETDI.RNEF | |
| Retrocopy | MVGTGLITGAIVVDVMPCFDQGFEVPGG*EVAVALVEEETHRYRPTKNYPSYLTAPDYYALETDITRNEF |
| Parental | ERLAARQPIELLSMKRYELPAPSSGQKNDITAWQECVNNSMA-QLEHQAVRIENLELMSQHGCNAWKVYN |
| ERLAA.QPIELLSMK..E.PAP.SGQKND.TAWQ.CVNNSM..QLEH.AV.IENLELM.QH..NA.KVYN | |
| Retrocopy | ERLAAQQPIELLSMK**EIPAPFSGQKNDMTAWQKCVNNSMS<QLEHHAV*IENLELMLQHESNA*KVYN |
| Parental | ENLVHMIEHAQKELQKLRKHIQDLNWQRKNMQLTAGSKLREMESTWVSLVSKNYEIERTIVQLENEIYQI |
| ENLVHMIE..QK.L.KLRKHIQDLNWQ.KNMQL.AGSK..EMES.WVSLVSKN.EIE.TIVQL.NEIYQI | |
| Retrocopy | ENLVHMIEYDQKGLYKLRKHIQDLNWQQKNMQLVAGSKWKEMESIWVSLVSKNCEIEWTIVQLTNEIYQI |
| Parental | KQQ |
| K.Q | |
| Retrocopy | KPQ |
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 | 43 .17 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 46 .19 RPM |
| SRP012922_heart | 0 .00 RPM | 21 .58 RPM |
| SRP012922_kidney | 0 .00 RPM | 35 .59 RPM |
| SRP012922_liver | 0 .00 RPM | 24 .77 RPM |
| SRP012922_lung | 0 .00 RPM | 41 .08 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 24 .58 RPM |
| SRP012922_spleen | 0 .00 RPM | 47 .04 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_2617 was not experimentally validated.