RetrogeneDB ID: | retro_opri_631 | ||
Retrocopy location | Organism: | Southern American pika (Ochotona princeps) | |
| Coordinates: | scaffold_20365:18113..19013(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AHCYL1 | ||
| Ensembl ID: | ENSOPRG00000004009 | ||
| Aliases: | None | ||
| Description: | adenosylhomocysteinase-like 1 [Source:HGNC Symbol;Acc:344] |
Retrocopy-Parental alignment summary:
>retro_opri_631
GTCGCGGACATCGGCTTGGCTGCATGGGGACGCAAGGCCCTGGACATTGCCGAGAACGAGATGCCAGGCCTGATGCGCAT
GCGGGAGATGTACTCGGCATCCAAGCCACTGAAGGGTGCCCGCATTGCCGGCTGCTTGCACATGACTGTGGAGACTGCTG
TCCTCATCGAGACCCTTGCTGCCCTGGGTGCTGAGGTACAGTGGTCTAGCTGCAATATCTTTTTCACCCAGGACCATGCA
GCGGCTGCCGTTGCCAAGGCTGGCATTCCAGTGTACTCCTGGAAGGGCGAAACAGACGAGGAGTGCCTGTGGTGCATTGA
GCAGACACTCTACTTTAAGGACGGGCCCCTCAACATGATCCTGGATGATGGTGGCGACCTCACCAACCTTATCCACACCA
AGTACCCCCAGCTCCTGTCAGGCATCAGAGGCATCTCTGAGGAGACCACGACTGGGGTCCACAACCTCTACAAGATGATG
GCTAATGGGGTTCTGAAGGTGCCCGCCATCAATGTCAATGACTCTGTTACCAAGAGCAAGTTTGACAACCTGTACGGCTG
CCGGGAGTCCCTCATAGATGGCATCAAACGGGCTACAGATGTGATGATCGAAGGCAAGGTGGCAGTGGTAGCAGGCTATG
GAGATGTGGGCAAAGGCTGTACCCAGGCCCTGAGGGGTTTTGGGGCCCATGTCATCATCACCGAGATCGACCCCATCAAC
GCACTGCAGGCTGCCATGGAGGGCTATGAAGTGACCACCATGGATGAAGCCTGTAAAGAGGGCAACATCTTTGTCACCAC
CACAGGCTGTGTGGACATCATCCTTGGGCGGCACTTTGAGCAGATGAAAGATGATGCCATTGTGTGTAACATCGGACACT
TCGATGTGGAGATTGATGTC
ORF - retro_opri_631 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.0 % |
| Parental protein coverage: | 56.6 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VKNIKQAEFGRREIEIAEQDMSALISLRKRAQGEKPLAGAKIVGCTHITAQTAVLIETLCALGAQCRWSA |
| V..I..A..GR....IAE..M..L...R......KPL.GA.I.GC.H.T..TAVLIETL.ALGA...WS. | |
| Retrocopy | VADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLAALGAEVQWSS |
| Parental | CNIYSTQNEVAAALAEAGVAVFAWKGESEDDFWWCIDRCVNMDGWQANMILDDGGDLTHWVYKKYPNVFK |
| CNI..TQ...AAA.A.AG..V..WKGE......WCI...........NMILDDGGDLT.....KYP.... | |
| Retrocopy | CNIFFTQDHAAAAVAKAGIPVYSWKGETDEECLWCIEQTLYFKDGPLNMILDDGGDLTNLIHTKYPQLLS |
| Parental | KIRGIVEESVTGVHRLYQLSKAGKLCVPAMNVNDSVTKQKFDNLYCCRESILDGLKRTTDVMFGGKQVVV |
| .IRGI.EE..TGVH.LY.....G.L.VPA.NVNDSVTK.KFDNLY.CRES..DG.KR.TDVM..GK..VV | |
| Retrocopy | GIRGISEETTTGVHNLYKMMANGVLKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIEGKVAVV |
| Parental | CGYGEVGKGCCAALKALGAIVYITEIDPICALQACMDGFRVVKLNEVIRQVDVVITCTGNKNVVTREHLD |
| .GYG.VGKGC..AL...GA.V.ITEIDPI.ALQA.M.G..V....E.........T.TG........H.. | |
| Retrocopy | AGYGDVGKGCTQALRGFGAHVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFE |
| Parental | RMKNSCIVCNMGHSNTEIDV |
| .MK...IVCN.GH...EIDV | |
| Retrocopy | QMKDDAIVCNIGHFDVEIDV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ochotona princeps was not studied using RNA-Seq expression data.
Ochotona princeps was not studied using ChIP-Seq data.
Ochotona princeps was not studied using EST data.
Ochotona princeps was not studied using FANTOM5 data.
retro_opri_631 was not experimentally validated.
Retrocopy orthology:
Ochotona princeps 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 | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000012519 | 1 retrocopy | |
| Ochotona princeps | ENSOPRG00000004009 | 1 retrocopy |
retro_opri_631 ,
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