RetrogeneDB ID: | retro_ggor_1850 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 3:53712403..53713879(+) | ||
| Located in intron of: | ENSGGOG00000015852 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ENSG00000078304 | ||
| Ensembl ID: | ENSGGOG00000010878 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_1850
AAAGAATCACCAAAAGCAGGGAAGAGTGGAAAAAGTTCAAAAGAAGGACAAGACACAGTAGAATCAGAGCAAATTTCCGT
CAGGAAAAACAGCCTTGTTGCTGTCCCGTCTACAGTGTCTGCTAAAATAAAAGTACCCGTCTCTCAGCCCACAGTGAAGA
AAGACAAACGGCAAAATTCTTCAAGGTTTAGCGCAAGCAATAATAGAGAACTTCAAAAACTACCATCCTTAAAAGATGTT
CCTCCTGCTGATCAAAAGAAGTTTTTTATCCAGAAGTTATGTCAGTGTTGCGTCCTTTTTGACTTTGTTTCTGATCCACT
AAGTGAACTAAAGTAGAAGGAATTAAAACGAGCTGCTTTAAGTGAAATGGTAGAATATATCACCCATAATTGGAATGTGA
TCACGGAGCCTATTTACCCAGAAGTAGTCCATATGTTTGCAGTTAACATGTTTCGAATATTACCACCTTCCTCCAATCCT
ACGGGAGCAGAATTTGACCCAGAGGAAGATGAACCAACGTTAGAAGCAGCCTGGCTTCATCTACACTTATTTATGAATTT
TTCTTAAGATTTTTAGAGTCTGCAGATTTCCAATCTAATATAGCGAAGAAATATATTGATCAGAAGTTTGTATTGCAGCT
TTTAAAGCTCTTTGACAGTGAAGATCCTCGGGAGAGAGATTTTCTTAAAACCACCCCTCACAGAATCCATGGGAAATTCC
TAGGCTTGAGAGCTTACATCTGAAAACAGATAAATAATATATTTTATAGGTTTATTTATGAAACAGAGCATCATAATGGC
ATAGCAGAGTTACTGGAAATATTGGGAAGTATAATTAATGGATTTGCCTTACCACTAAAAGAAGAACACAAGATTTTCTT
ATTGAAGGTGCTACTACCTTTGCACAAAGTGAAATCTCTTGAGTGTCTACCACCCCCAGCTGGCATACTGTGGAGTGCAG
TTTTTAGAAAAGGACAGCACCCCCACAGAACCAGTGGTGATGGCACTTCTCAAATGCTGGCCAAAGACTCACAGTCCAAA
AGAAGTAATGTTCTTAAACAAATTAGAAGCGATTTTAGATGTCATTGAACCATCAGAATTTGTGAAGACCATGGAGCCCC
TCTTCCGGCAGTTGGCCAAATGTGTCTCCAGCCCACACTTCCAGGTGACAGAGCGAGCTCTCTATTACTGGAATAATGAA
TACATCATGAGTTTAATCAGTGACAGTGCAGCGAAGATTCTGCCCGTCATGTTTCCTTCCTTGTACCGCAACTCAAAGAC
CCATTGGAACAAGATAATACATGGCTTGATATACAACGCCCTGAAGCTGTTCATAGAGATTAAACAAAAGCTGTTTGATG
ACTGTACACAACAGTCCAAAGCAGAGAAACTAAAAGAGAAGCTAAAAATGGAAGTACGGGAAGAAGCATGGGTTAAAATA
GAAAATCTAGCCAAAGCCAATCCCCAGGTACTAAAA
ORF - retro_ggor_1850 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.11 % |
| Parental protein coverage: | 92.48 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | QESPKAGKSGKSSKEGQDTVESEQISVRKNSLVAVPSTVSAKIKVPVSQPIVKKDKRQNSSRFSASNNRE |
| .ESPKAGKSGKSSKEGQDTVESEQISVRKNSLVAVPSTVSAKIKVPVSQP.VKKDKRQNSSRFSASNNRE | |
| Retrocopy | KESPKAGKSGKSSKEGQDTVESEQISVRKNSLVAVPSTVSAKIKVPVSQPTVKKDKRQNSSRFSASNNRE |
| Parental | LQKLPSLKDVPPADQEKLFIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYP |
| LQKLPSLKDVPPADQ.K.FIQKL.QCCVLFDFVSDPLS.LK.KE.KRAALSEMVEYITHN.NVITEPIYP | |
| Retrocopy | LQKLPSLKDVPPADQKKFFIQKLCQCCVLFDFVSDPLSELK*KELKRAALSEMVEYITHNWNVITEPIYP |
| Parental | EVVHMFAVNMFRTLPPSSNPTGAEFDPEEDEPTLEAAWPHLQL-VYEFFLRFLESPDFQPNIAKKYIDQK |
| EVVHMFAVNMFR.LPPSSNPTGAEFDPEEDEPTLEAAW.HL.L..YEFFLRFLES.DFQ.NIAKKYIDQK | |
| Retrocopy | EVVHMFAVNMFRILPPSSNPTGAEFDPEEDEPTLEAAWLHLHL<IYEFFLRFLESADFQSNIAKKYIDQK |
| Parental | FVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELLEILGSII |
| FVLQLL.LFDSEDPRERDFLKTT.HRI.GKFLGLRAYI.KQINNIFYRFIYETEHHNGIAELLEILGSII | |
| Retrocopy | FVLQLLKLFDSEDPRERDFLKTTPHRIHGKFLGLRAYI*KQINNIFYRFIYETEHHNGIAELLEILGSII |
| Parental | NGFALPLKEEHKIFLLKVLLPLHKVKSL-SVYHPQLAYCVVQFLEKDSTLTEPVVMALLKYWPKTHSPKE |
| NGFALPLKEEHKIFLLKVLLPLHKVKSL.SVYHPQLAYC.VQFLEKDST.TEPVVMALLK.WPKTHSPKE | |
| Retrocopy | NGFALPLKEEHKIFLLKVLLPLHKVKSL>SVYHPQLAYCGVQFLEKDSTPTEPVVMALLKCWPKTHSPKE |
| Parental | VMFLNELEEILDVIEPSEFVKIMEPLFRQLAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMF |
| VMFLN.LE.ILDVIEPSEFVK.MEPLFRQLAKCVSSPHFQV.ERALYYWNNEYIMSLISD.AAKILP.MF | |
| Retrocopy | VMFLNKLEAILDVIEPSEFVKTMEPLFRQLAKCVSSPHFQVTERALYYWNNEYIMSLISDSAAKILPVMF |
| Parental | PSLYRNSKTHWNKTIHGLIYNALKLFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENLAKANP |
| PSLYRNSKTHWNK.IHGLIYNALKLF.E..QKLFDDCTQQ.KAEKLKEKLKM..REEAWVKIENLAKANP | |
| Retrocopy | PSLYRNSKTHWNKIIHGLIYNALKLFIEIKQKLFDDCTQQSKAEKLKEKLKMEVREEAWVKIENLAKANP |
| Parental | QAQK |
| Q..K | |
| Retrocopy | QVLK |
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_prefrontal_cortex | 2 .06 RPM | 53 .37 RPM |
| SRP007412_cerebellum | 0 .95 RPM | 25 .33 RPM |
| SRP007412_heart | 0 .66 RPM | 11 .54 RPM |
| SRP007412_kidney | 0 .65 RPM | 26 .95 RPM |
| SRP007412_liver | 0 .42 RPM | 20 .65 RPM |
| SRP007412_testis | 1 .45 RPM | 106 .19 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_1850 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_1850 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_2649 |
| Pan troglodytes | retro_ptro_1784 |
| Pongo abelii | retro_pabe_2322 |
Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000010878 | 2 retrocopies |
retro_ggor_1850 , retro_ggor_7,
|
| Otolemur garnettii | ENSOGAG00000006274 | 1 retrocopy |