RetrogeneDB ID: | retro_chof_782 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_14779:18337..19660(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PFKP | ||
| Ensembl ID: | ENSCHOG00000010287 | ||
| Aliases: | None | ||
| Description: | phosphofructokinase, platelet [Source:HGNC Symbol;Acc:8878] |
Retrocopy-Parental alignment summary:
>retro_chof_782
ATGAATGCTGCTGTCAGGGCTGTGGTTCGAGTTGGTATCTTTATCAGTGTCCATGTCTTCTTTGTCCATGAGGATTATGA
AGGCCTGGTGGATGGTGGAGATAGCATCAGGGAAGCCACCTGGGAGAGTGTTTCGATGATGTTTCAGCTGGGAGGCACAG
TGATTGGAAGTGCTCGGTGCAAGGACTTTCGCGAGCGAGAGGGACGACTCCAAGCTGCCCTCAACCTGGTGAAGCGTGGG
ATCACCAACCTGTGTGTCATTGGGGGTGATGGCAGCCTCACTGGGGCTGACACCTTCCTTTCTGAGTGGAGTGACTTGTT
GAGTGAACTCCAGAAAGCGGGTAAGATCACAGCTGAGGAAGTTAAGAATTCCAGGTACCTGAACATCGTGGGCCTGGTTG
GCTCTATTGACAATGACTTCTGCGGCACCGATATGACCATTGGCACTGACTCTGCCCTGCACCGGATCATAGAGATTGTA
GATGCCATCACAACCACTTCTCAGAGCCACCAGAGGATATTTGTGTTAGAAGTGATGGGCCGGCACTGTGGATACCTGGC
CCTTGTTACCTCTCTCTCCTGTGGGGCCGACTGAGTTTTTATTCCTGAATGTCCACCAGGTGATGACTGGGAGGAACACC
TTTGCTGTCGGCTCACTGAGACAAGGACCCGTGGTTCTCGTCTCAACATCATCATTGTGGCTGAGGGTGCAATTGATAGG
AATGGGAAACCAATCACCTCAGAAGACATGAAGAATCTGGTGGTAAAGCGTCTGGGATATGACACCCGGGTCACTGTCTT
GGGGCATGTGCAGCGGGGTGGGACGCCGTCAGCTTTTGACCAAATCCTGGGCAGCAGGATGGGTGTGGAAGCAGTGATGG
CACTTTTAGAAGGGACCCCAGACACCCCAGCCTGTGTGGTGAGCCTCTCGGGTAACCAGGCAGTGCGACTGCCCCTCATG
GAGTGTGTCCAAGTGACCAAAGATGTGACCAAGGCCATGAGCGAGAAGAAATTTGATGAAGCCCTGAAGCTAAGAAGCTG
GAGCTTCATGAACAACTGGGAAGTATACAAGCTTCTAGCTCATGTCCAACCCCCAGTGGCTAAGACTGATTCACGTACAG
TGGCTATGATGAACGTGGGTGCCCCAGCTGCAGGCATGAATGCTGCTGTCCGCTCCACTGTGAGGATTGGTGTCATCCAG
GGCAACCGAATGCTGGTTGTGCATGAGGGCTTCGAGGGCCTGGCCAAGGGTCAGGTTGAGGAAGCTGGCTGGAGCTATGT
TGGGGGCTGGACTGGGCAAGGTGGTTCTAAACTTGGAACTAAA
ORF - retro_chof_782 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.16 % |
| Parental protein coverage: | 59.12 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNAAVRAVVRMGIYVGAKVYFIYEGYQGMVDGGSNIVEASWESVSSILQVGGTIIGSARCQAFRTREGRL |
| MNAAVRAVVR.GI.....V.F..E.Y.G.VDGG..I.EA.WESVS...Q.GGT.IGSARC..FR.REGRL | |
| Retrocopy | MNAAVRAVVRVGIFISVHVFFVHEDYEGLVDGGDSIREATWESVSMMFQLGGTVIGSARCKDFREREGRL |
| Parental | KAAHNLVQLRITNLCVIGGDGSLTGANIFRKEWSGLLEELAENGKIDADTMKEYSYLNVVGMVGSIDNDF |
| .AA.NLV...ITNLCVIGGDGSLTGA..F..EWS.LL.EL...GKI.A...K...YLN.VG.VGSIDNDF | |
| Retrocopy | QAALNLVKRGITNLCVIGGDGSLTGADTFLSEWSDLLSELQKAGKITAEEVKNSRYLNIVGLVGSIDNDF |
| Parental | CGTDMTIGTDSALHRIIEVVDAIMTTAQSHQRTFVLEVMGRHCGYLAVVSALACGADWVFLPEYPPKEGW |
| CGTDMTIGTDSALHRIIE.VDAI.TT.QSHQR.FVLEVMGRHCGYLA.V..L.CGAD.VF.PE.PP...W | |
| Retrocopy | CGTDMTIGTDSALHRIIEIVDAITTTSQSHQRIFVLEVMGRHCGYLALVTSLSCGAD*VFIPECPPGDDW |
| Parental | EEEMCLKLSENRARKKRLNIIIVAEGAIDTQNRPITSEEVKELVVKQLGYDTRVTILGHVQRGGTPSAFD |
| EE..C..L.E.R.R..RLNIIIVAEGAID....PITSE..K.LVVK.LGYDTRVT.LGHVQRGGTPSAFD | |
| Retrocopy | EEHLCCRLTETRTRGSRLNIIIVAEGAIDRNGKPITSEDMKNLVVKRLGYDTRVTVLGHVQRGGTPSAFD |
| Parental | RILASRMGVEAVIALLEATPETPACVVSLSGNHAMRLPLMECVQMTQEVQKAMDERRFQAAVQLRGRNFE |
| .IL.SRMGVEAV.ALLE.TP.TPACVVSLSGN.A.RLPLMECVQ.T..V.KAM.E..F..A..LR...F. | |
| Retrocopy | QILGSRMGVEAVMALLEGTPDTPACVVSLSGNQAVRLPLMECVQVTKDVTKAMSEKKFDEALKLRSWSFM |
| Parental | SNLNTYKQLSSKLPDDQIVKSNCNVAIINVGAPAAGMNAAVRSAVRVGISNGHKMFAVYDSFEGFSQGHX |
| .N...YK.L....P......S...VA..NVGAPAAGMNAAVRS.VR.G...G..M..V...FEG...G.. | |
| Retrocopy | NNWEVYKLLAHVQPPVAKTDSR-TVAMMNVGAPAAGMNAAVRSTVRIGVIQGNRMLVVHEGFEGLAKGQV |
| Parental | XXXXXXXXXXXXAQGGCS-GTK |
| .............QGG...GTK | |
| Retrocopy | EEAGWSYVGGWTGQGGSKLGTK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_782 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000010287 | 1 retrocopy |
retro_chof_782 ,
|
| Callithrix jacchus | ENSCJAG00000020417 | 1 retrocopy |