RetrogeneDB ID: | retro_xtro_7 | ||
Retrocopy location | Organism: | Xenopus (Xenopus tropicalis) | |
| Coordinates: | GL172944.1:269539..270814(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSXETG00000016386 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | bmp7.1 | ||
| Ensembl ID: | ENSXETG00000011272 | ||
| Aliases: | None | ||
| Description: | bone morphogenetic protein 7, gene 1 [Source:Jamboree;Acc:XB-GENE-486014] |
Retrocopy-Parental alignment summary:
>retro_xtro_7
ATGAATGCTTTGATAGTAAAGAGAAGATTGCCAGTGCTGCTTTTTCTTTTTTACATTTCCCTGAGTTCCATCTCATCAAA
TACCATATTGGAGAATGATTTTCACTCCAGTTTTGTCCAGAGGAGACTGAAAGGCCATGAACGCAGGGAGATTCAAAAAG
AGATCTTGACTATTTTAGGTTTGCAACACAGACCAAGGCCATATTTACCAGAAAAGAAGAAGTCTGCACCATTATTCATG
ATGGACTTGTACAATGCAGTAAATATTGAAGATTTGAATGCTGAAGATGTCTCCTACTTTAACAAGCCAGTCTCCTTAAA
TGAACATTCTTCACTGGCCACTGACCAAGAAAATGACTTTCTTGCACACGCCGACACAGTCATGAGTTTTGCTAATTTAG
TTGAAAATGACAACGAACTGTATAAAAATCGCCAAAAATTCAAGTTTGATTTAACTGATATCCCTCTTGGAGATGAACTG
ACAGCTGCTGAATTTCGCATTTATAAAGATTATGTAGAAAATAATGAGACATACCAAGTCACTGTCTACCAGGTGCTCCA
GAAACAATACGACAAAGAGCCTTATCTTTTCCAGGTAGACTCAAGAACTATCTGGGGCACAGAAAAGGGGTGGCTGACAT
TTGATATCACTGCGACCAGTAATCACTGGGTGATCAACCCACATTACAACCTTGGATTGCAGTTATCAATAGAGAGTATG
GATATGCAAAGTGTTAATCCCAGGCATGTTGGCCTTTTTGGAAGGAATGGACCTCAAGATAAACAGCCATTTATGGTAGC
TTTCTTTAAAACCTCAGAAATCCATCTCCGTAGTATCCGATCTACCAGCAATAAGCACTGGAACCAGGAAAGAGCCAAGA
CCTACAAGGAACAAGATAATTTCCCTCCAGCAAATATTTCCGATGGCATCATGCCCACTGCCAAACGTAGATTTTTTAAA
CAAGCTTGCAAGAAACATGAACTCTTTGTAAGCTTCCGTGATCTTGGTTGGCAAGACTGGATCATTGCACCAGAAGGATA
TGCTGCCTACTACTGTGATGGAGAATGCGCTTTCCCACTTAACTCTTTCATGAATGCCACAAACCATGCAATTGTACAGA
CTCTGGTACACTTCGTTAACCCAGAGACTGTCCCTAAGCCATGCTGTGCTCCAACTCAACTGAATGGTATTTCTGTTTTA
TATTTTGATGACAGTTCCAATGTTATATTAAAGAAATATAAAAATATGGTGGTTCAAGCATGTGGATGCCATTGA
ORF - retro_xtro_7 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.14 % |
| Parental protein coverage: | 73.65 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNVLQKNKTGSVLLWTYFLWRIILADFT-LDNEVHSSFIQRRLRGQERREMQREILSILGLPHRPRPHLY |
| MN.L.......VLL.............T.L.N..HSSF.QRRL.G.ERRE.Q.EIL.ILGL.HRPRP.L. | |
| Retrocopy | MNALIVKRRLPVLLFLFYISLSSISSNTILENDFHSSFVQRRLKGHERREIQKEILTILGLQHRPRPYLP |
| Parental | GKQNSAPMFMLDLYNAMTVDEEEAEGFSYPYKPIFTTQGPPLASQQDSNFLNDADMVMSFVNLVEHDKEF |
| .K..SAP.FM.DLYNA.......AE..SY..KP........LA..Q...FL..AD.VMSF.NLVE.D.E. | |
| Retrocopy | EKKKSAPLFMMDLYNAVNIEDLNAEDVSYFNKPVSLNEHSSLATDQENDFLAHADTVMSFANLVENDNEL |
| Parental | FHQRRHHREFRFDIAKIPEGEAVTAAEFRIYKDYIRERFENETFQISVYQVLQEHQGRDSDLYELDSRTI |
| ...R.....F.FD...IP.G...TAAEFRIYKDY......NET.Q..VYQVLQ........L...DSRTI | |
| Retrocopy | YKNRQ---KFKFDLTDIPLGDELTAAEFRIYKDYVEN---NETYQVTVYQVLQKQYDKEPYLFQVDSRTI |
| Parental | WAAEEGWLVFDITTTSNHWVVNPQHNLGLQLSVESIDGQSINPKMAGLIGTNGPHNKQPFMVAFFKATEI |
| W..E.GWL.FDIT.TSNHWV.NP..NLGLQLS.ES.D.QS.NP...GL.G.NGP..KQPFMVAFFK..EI | |
| Retrocopy | WGTEKGWLTFDITATSNHWVINPHYNLGLQLSIESMDMQSVNPRHVGLFGRNGPQDKQPFMVAFFKTSEI |
| Parental | HLRSIRSAGGKHRNQNRSKAPKSQEALRVSNIAE |
| HLRSIRS...KH.NQ.R.K..K.Q......NI.. | |
| Retrocopy | HLRSIRSTSNKHWNQERAKTYKEQDNFPPANISD |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 31 .22 RPM |
| SRP007412_heart | 0 .00 RPM | 2 .53 RPM |
| SRP007412_kidney | 0 .00 RPM | 2 .53 RPM |
| SRP007412_liver | 0 .00 RPM | 5 .82 RPM |
| SRP007412_skeletal_muscle | 0 .00 RPM | 1 .05 RPM |
Xenopus tropicalis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_xtro_7 retrocopy.
Xenopus tropicalis was not studied using FANTOM5 data.
retro_xtro_7 was not experimentally validated.
Retrocopy orthology:
Xenopus tropicalis 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000025711 | 1 retrocopy | |
| Xenopus tropicalis | ENSXETG00000011272 | 1 retrocopy |
retro_xtro_7 ,
|