RetrogeneDB ID: | retro_gacu_8 | ||
Retrocopy location | Organism: | Stickleback (Gasterosteus aculeatus) | |
| Coordinates: | groupXXI:11642787..11643768(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGACG00000005570 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | mc5ra | ||
| Ensembl ID: | ENSGACG00000003733 | ||
| Aliases: | None | ||
| Description: | melanocortin 5a receptor [Source:ZFIN;Acc:ZDB-GENE-021223-3] |
Retrocopy-Parental alignment summary:
>retro_gacu_8
ATGAACAGCACGCAGAGCGGTGGGTTGATCCAAGGCTACCACAACAGGAGCGCCTCAGGCGTCTCGCCACCCGACAACGA
TCTAGCGGCCGAGGGGAAAGACGCGTCGGCGGGATGCTACGAGCAGCTGCTCATTTCCACGGAGGTCTTCCTCACTCTGG
GCATCATCAGCCTGCTGGAGAACATCCTGGTCGTCGCCGCCATCGTCAAAAACAAGAACCTCCACTCGCCCATGTACTTC
TTCATCTGCAGCCTGGCCGTCGCCGACATGCTCGTCAGCGTCTCCAACGCCTCCGAGACCATCGTCATCGCGCTCATCGC
CGGCGGCACCCTGACCATCCCGGTGGCTCTGATCCGGAACATGGACAACGTGTTTGACTCGATGATCTGCAGCTCTCTGC
TGGCCTCCATCTGCAGCCTGCTGGCCATCGCCGTGGACCGCTACATCACCATCTTCTACGCGCTGCGCTACCACAACATC
GTCACCCTGCGGCGCGCCACGCTGGTCATCGGCAGCATCTGGACGTGCTGCACGGTGTCCGGCATCCTCTTCATCATCTA
CTCGGAGAGCACCTCGGTGCTCATCTGCCTCATCACCATGTTCTTCACCATGCTGGTGCTCATGGCGTCGCTGTACGTCC
ACATGTTCCTGCTGGCCCGTCTGCACATCAAGCGGATCGCGGCGCTGCCGGGCCACGCGCCCATCCACCAGCGCGCCAAC
ATGAAGGGCGCCATCACCCTCACCATCCTCCTCGGGGTGTTTGTGGTGTGCTGGGCGCCTTTCTTCCTCCACCTCATCCT
CATGATCACCTGCCCCAGGAACCCCTACTGCACCTGCTTCATGTCCCACTTCAACATGTACCTCATCCTCATCATGTGCA
ACTCCGTCATCGACCCCATCATCTACGCCTTCCGCAGCCAGGAAATGAGGAAGACCTTCAGAGAAATCTTCTGCTGCTCG
CACGCGCTGCTCTTCGTGTGA
ORF - retro_gacu_8 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.35 % |
| Parental protein coverage: | 89.53 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LAYSYHHQNYTPVPPLHPDKTGTSKPAAC---EQVHIAIEVFLILGIISLLENILVITAIVKNKNLHSPM |
| L...YH......V.P...D.....K.A.....EQ..I..EVFL.LGIISLLENILV..AIVKNKNLHSPM | |
| Retrocopy | LIQGYHNRSASGVSPPDNDLAAEGKDASAGCYEQLLISTEVFLTLGIISLLENILVVAAIVKNKNLHSPM |
| Parental | YFFVCSLAVADMLVSVSNAWETIVIYLLNNRQLVVEDHFIRQMDNVFDSMICISVVASMCSLLAIAVDRY |
| YFF.CSLAVADMLVSVSNA.ETIVI.L.....L......IR.MDNVFDSMIC.S..AS.CSLLAIAVDRY | |
| Retrocopy | YFFICSLAVADMLVSVSNASETIVIALIAGGTLTIPVALIRNMDNVFDSMICSSLLASICSLLAIAVDRY |
| Parental | VTIFYALRYHNIMTVRRAGCIIGGIWTFCTGCGIIFIIYSDTTPVIICLVSMFFAMLVIMASLYSHMFML |
| .TIFYALRYHNI.T.RRA...IG.IWT.CT..GI.FIIYS..T.V.ICL..MFF.MLV.MASLY.HMF.L | |
| Retrocopy | ITIFYALRYHNIVTLRRATLVIGSIWTCCTVSGILFIIYSESTSVLICLITMFFTMLVLMASLYVHMFLL |
| Parental | ARSHVKRIAALPGYNSIHQRTSMKGAITLTILLGIFIVCWAPFFLHLILMISCPRNLYCVCFMSHFNMYL |
| AR.H.KRIAALPG...IHQR..MKGAITLTILLG.F.VCWAPFFLHLILMI.CPRN.YC.CFMSHFNMYL | |
| Retrocopy | ARLHIKRIAALPGHAPIHQRANMKGAITLTILLGVFVVCWAPFFLHLILMITCPRNPYCTCFMSHFNMYL |
| Parental | ILIMCNSVIDPLIYAFRSQEMRKTFKEIICC |
| ILIMCNSVIDP.IYAFRSQEMRKTF.EI.CC | |
| Retrocopy | ILIMCNSVIDPIIYAFRSQEMRKTFREIFCC |
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_8 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_gacu_8 has 1 orthologous retrocopies within teleost group .| Species | RetrogeneDB ID |
|---|---|
| Tetraodon nigroviridis | retro_tnig_17 |
Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gasterosteus aculeatus | ENSGACG00000003733 | 1 retrocopy |
retro_gacu_8 ,
|
| Oreochromis niloticus | ENSONIG00000006909 | 1 retrocopy | |
| Tetraodon nigroviridis | ENSTNIG00000013316 | 1 retrocopy |