RetrogeneDB ID: | retro_gacu_11 | ||
Retrocopy location | Organism: | Stickleback (Gasterosteus aculeatus) | |
| Coordinates: | scaffold_47:436205..437216(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGACG00000000775 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SSTR5 (1 of 2) | ||
| Ensembl ID: | ENSGACG00000018944 | ||
| Aliases: | None | ||
| Description: | somatostatin receptor 5 [Source:HGNC Symbol;Acc:11334] |
Retrocopy-Parental alignment summary:
>retro_gacu_11
GCCAGTAAAATCATCATTCCATCCATCTATGCTCTTGTCTGCTGTGTAGGTCTAACTGGCAATGCCATGGTCATCTATGT
CATACTGAAATATGCCAAAATGAAAACAGCCACTAACATTTACATCCTAAACCTAGCGATTGCTGATGAGTTGTTTATGT
TAAGTGTTCCTTTTCTGGCCACTTCAGCTGCCATCCGTCATTGGCCCTTCGGGTCGCTGATGTGTAGGCTGGTGCTGAGT
GTAGACGGTATCAACATGTTTACATCAATCTTCTGCCTGACTGTGTTGAGTGTTGACCGATACGTAGCAGTTGTACACCC
TATAAAGGCTGCCCGCTACCGCAGACCGACAGTCGCGAAAGTAGTCAATGTGTGTGTATGGGGGCTCTCACTCATAGTCA
TCCTGCCCATCATCATCTTCGCAGACACTGTCCCTGCGCAGGACGGTGGTGTGGATTGTAACTTCTTGTGGCCTGAATCA
GCGTGGTCACAAGCATTTATGGTCTATACCTTTCTGTTGGGGTTTCTTCTGCCGGTTGGAGCAATATGCTTATGCTACTG
TTTAATGGTGGCCAGGATGCGAGCAGTGGGGCTGAAAGCAGGCTGGCTCCAACGGCGGCGCTCGGAGAAGAAGATAACCC
GCATGGTGCTGCTAGTCGTTGCAGTGTTTGTTCTCTGCTGGATGCCCTTCTATATTGTCCAGCTTGTCACCGTTTTCCAC
CGGCCCCCAGACCCAATGGTCACTCAGCTTTTTGTCATCCTCAGCTACGCCAACAGTGGCGCCAATCCTATTCTGTACGG
CTTTGTGTCTGACAATTTCCGCCGTTCGTTCCAGCGCATTGTGTGTTTCCGGTGGGTGGAGTCTGGGTTGGATGCGGAAC
AGGTGGATTACTGTGCTGTAGCTTTAAAGAGACAAGAAACTTGTAGCCCTCTGGATTTTCCCAAGGACTGTATGGCTTCT
GATATTGTGTTTCGCAATGGGACATGTACCTCTCGTACAACCACTGTGTAA
ORF - retro_gacu_11 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.71 % |
| Parental protein coverage: | 84.01 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SSTLMTAVVSLSVFVVGLTGNTLAIYVVLRHAKMKTVTNIYILNLAVADELYIIGLPFLTTQNVLSYWPF |
| .S..........V..VGLTGN...IYV.L..AKMKT.TNIYILNLA.ADEL.....PFL.T......WPF | |
| Retrocopy | ASKIIIPSIYALVCCVGLTGNAMVIYVILKYAKMKTATNIYILNLAIADELFMLSVPFLATSAAIRHWPF |
| Parental | GSFLCRVVMTADSMNQFTSIFCLTIMSIDRYLAVVHPISSTKWRHPRVAKVVSAAVWVVSFVVVLPVVIF |
| GS..CR.V...D..N.FTSIFCLT..S.DRY.AVVHPI.....R.P.VAKVV...VW..S..V.LP..IF | |
| Retrocopy | GSLMCRLVLSVDGINMFTSIFCLTVLSVDRYVAVVHPIKAARYRRPTVAKVVNVCVWGLSLIVILPIIIF |
| Parental | SD---VQDTFNSCNMNWPEPKHVWSTAFILYTATVGFFGPLLIICLCYLLIVIKIKSSGARAGFTKRRRS |
| .D....QD....CN..WPE....WS.AF..YT...GF..P...ICLCY.L.V......G..AG...RRRS | |
| Retrocopy | ADTVPAQDGGVDCNFLWPE--SAWSQAFMVYTFLLGFLLPVGAICLCYCLMVARMRAVGLKAGWLQRRRS |
| Parental | ERKVTRMVVVIVVVFVLCWLPFFIINIVNLVVIIPESSVTAGIYFFAVILSYANSCANPVLYGFLSDNFR |
| E.K.TRMV...V.VFVLCW.PF.I...V......P...VT.....F....SYANS.ANP.LYGF.SDNFR | |
| Retrocopy | EKKITRMVLLVVAVFVLCWMPFYIVQLVTVFHRPPDPMVT---QLFVIL-SYANSGANPILYGFVSDNFR |
| Parental | QSFRKVLCVRSV |
| .SF....C.R.V | |
| Retrocopy | RSFQRIVCFRWV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Gasterosteus aculeatus was not studied using RNA-Seq expression data.
Gasterosteus aculeatus was not studied using ChIP-Seq data.
Gasterosteus aculeatus was not studied using EST data.
Gasterosteus aculeatus was not studied using FANTOM5 data.
retro_gacu_11 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_gacu_11 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gasterosteus aculeatus | ENSGACG00000018944 | 2 retrocopies |
retro_gacu_1, retro_gacu_11 ,
|
| Gadus morhua | ENSGMOG00000018538 | 1 retrocopy | |
| Oreochromis niloticus | ENSONIG00000017693 | 1 retrocopy | |
| Tetraodon nigroviridis | ENSTNIG00000014076 | 1 retrocopy | |
| Xiphophorus maculatus | ENSXMAG00000012731 | 1 retrocopy |