RetrogeneDB ID: | retro_acar_27 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 3:127025686..127026817(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000013643 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000017497 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_27
ATGAAGGACGTCCCTGGCTACCTGCAGCAGTCTCAGAGCTCGGGGCCAGGCCAGGCCGCCGTGTGCCACCGCCTGGAGGA
GCTCTACAACAAAAAACTCTGGCACCAACTGACTCTCCAGGTTTTGGACTTTGTTCAGGACCCCTGCTTTGCCCAAGGAG
ATGGGCTTATCAAGTTATATGAGAACTTCATCAGTGAATTTGAACACAGGGTGAACCCTTTGTCCCTTGTAGAAATTATT
CTTCATGTAGTACGACAGATGACAGATCCTAATGTGGCCCTTACTTTTCTGGAAAAGACCCGAGAAAAGGTGAAAAGCAG
TGATGAAGCTGTGATTCTTTGTAAAACAGCAATTGGGGCTCTGAAATTAAATATTGGTGACCTGCAAGTCACAAAGGAAA
CCATAGAAGAAGTTGAGGAGATGCTGAATAATCTGCCTGGTGTGACATCTATTCATAGCCGCTTTTATGACCTCTCCAGC
AAGTATTATCAGACAATCGGGAATCATGCCTCTTACTATAAGGATGCTCTAAGGTTTCTGGGATGTATAGATGTCAGAGA
TCTACCAGTGGCAGACCAGCAGGAGAGAGCCTTTACATTGGGCCTGGCAGGACTCCTTGGGGAAGGAGTCTATAACTTTG
GCGAACTGCTTATGCATCCAGTGCTGGAGTCTTTGAGGGACACTGACAGACAGTGGCTGATTGACACTCTTTATGCCTTC
AACAGTGGCAATGTGGAAAAATTCCAGGCTTTGAAGTCAGCATGGGGCCAGCAGCCAGACCTGGCTGCAAATGAAGCTCT
TCTGCTGCAAAAGATCCAGTTGCTTTGCCTCATGGAGATGACCTTCACCCGACCAGCTAACCACTGGCAACTCACTTTTG
AAGAGATTGCTAAAAGTGCCAAAGTCACTGTAAATGAGGTAGAGCTGCTAGTGATGAAAGCGCTTTCAGTAGGTTTGGTA
AAAGGCAGTATTGACGAAGTGGACAAAAAGGTTCACATGACTTGGGTCCAACCACGGGTGCTGGATTTACAACAGATAAA
GGGCATGAAAGTCCGCCTGGAGTTCTGGTGCACAGATGTTAAGAGCATGGAGATGTTGGTGGAGCACCAAGCCCATGATA
TCCTAACATAA
ORF - retro_acar_27 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.94 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MKDVPGYLQQSQSSGPGQAAVWHRLEELYNKKLWHQLTLQVLDFVQDPCFAQGDGLIKLYENFISEFEHR |
| MKDVPGYLQQSQSSGPGQAAV.HRLEELYNKKLWHQLTLQVLDFVQDPCFAQGDGLIKLYENFISEFEHR | |
| Retrocopy | MKDVPGYLQQSQSSGPGQAAVCHRLEELYNKKLWHQLTLQVLDFVQDPCFAQGDGLIKLYENFISEFEHR |
| Parental | VNPLSLVEIILHVVRQMTDPNVALTFLEKTREKVKSSDEAVILCKTAIGALKLNIGDLQVTKETIEEVEE |
| VNPLSLVEIILHVVRQMTDPNVALTFLEKTREKVKSSDEAVILCKTAIGALKLNIGDLQVTKETIEEVEE | |
| Retrocopy | VNPLSLVEIILHVVRQMTDPNVALTFLEKTREKVKSSDEAVILCKTAIGALKLNIGDLQVTKETIEEVEE |
| Parental | MLNNLPGVTSVHSRFYDLSSKYYQTIGNHASYYKDALRFLGCIDVRDLPVADQQERAFTLGLAGLLGEGV |
| MLNNLPGVTS.HSRFYDLSSKYYQTIGNHASYYKDALRFLGCIDVRDLPVADQQERAFTLGLAGLLGEGV | |
| Retrocopy | MLNNLPGVTSIHSRFYDLSSKYYQTIGNHASYYKDALRFLGCIDVRDLPVADQQERAFTLGLAGLLGEGV |
| Parental | YNFGELLMHPVLESLRDTDRQWLIDTLYAFNSGNVEKFQALKSAWGQQPDLAANEALLLQKIQLLCLMEM |
| YNFGELLMHPVLESLRDTDRQWLIDTLYAFNSGNVEKFQALKSAWGQQPDLAANEALLLQKIQLLCLMEM | |
| Retrocopy | YNFGELLMHPVLESLRDTDRQWLIDTLYAFNSGNVEKFQALKSAWGQQPDLAANEALLLQKIQLLCLMEM |
| Parental | TFTRPANHRQLTFEEIAKSAKVTVNEVELLVMKALSVGLVKGSIDEVDKKVHMTWVQPRVLDLQQIKGMK |
| TFTRPANH.QLTFEEIAKSAKVTVNEVELLVMKALSVGLVKGSIDEVDKKVHMTWVQPRVLDLQQIKGMK | |
| Retrocopy | TFTRPANHWQLTFEEIAKSAKVTVNEVELLVMKALSVGLVKGSIDEVDKKVHMTWVQPRVLDLQQIKGMK |
| Parental | DRLEFWCTDVKSMEMLVEHQAHDILT |
| .RLEFWCTDVKSMEMLVEHQAHDILT | |
| Retrocopy | VRLEFWCTDVKSMEMLVEHQAHDILT |
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 |
|---|---|---|
| SRP009831_adrenal | 0 .13 RPM | 26 .16 RPM |
| SRP009831_brain | 0 .14 RPM | 37 .49 RPM |
| SRP009831_dewlap | 0 .30 RPM | 64 .76 RPM |
| SRP009831_embryo | 0 .77 RPM | 98 .67 RPM |
| SRP009831_heart | 0 .00 RPM | 40 .88 RPM |
| SRP009831_liver | 0 .00 RPM | 27 .32 RPM |
| SRP009831_lung | 0 .00 RPM | 28 .06 RPM |
| SRP009831_ovary | 0 .12 RPM | 73 .93 RPM |
| SRP009831_skeletal_muscle | 0 .04 RPM | 33 .14 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_27 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_27 was not experimentally validated.
Retrocopy orthology:
Anolis carolinensis 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000017497 | 1 retrocopy |
retro_acar_27 ,
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