RetrogeneDB ID: | retro_chof_1924 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_42405:9647..11005(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GPR128 | ||
| Ensembl ID: | ENSCHOG00000009379 | ||
| Aliases: | None | ||
| Description: | G protein-coupled receptor 128 [Source:HGNC Symbol;Acc:19241] |
Retrocopy-Parental alignment summary:
>retro_chof_1924
AACACTAAGGCATTTGGCTTTGTAGTGTTTCAAAACAACAAGCTTTTCCAATCAAAAACTTTCACAACTAAATCAAATTT
TAGTCAAAGAATTATCTCAAGCAGCATTGAGACAAATGCTTCTGGTAAGAGTTCTTCTGTTGAAATGGTCTTTAATCCAA
AGCACAACCAATTGCAATTTGATCTCCATTCCTTTGCCTGTGTCTTTTGGAATTTTTCAAAGAAGGATTGAAGCACAAAT
GGCTGTCTCAAAGAGAGGCGCACTGATGGATTCCTGCACTGCCACTATAATAATGCCACTAACTTTGCTGTATTAATGCA
TTTCAGAAAGAAATATCAATATCCTGAATCACTAGACATATTATCAACTGTTGGTTGTGCACTGTCCATTGCTGGTCTGG
CTCTCATGATTATATTTCAGGAAAATCAGAAAAACTTCAGTAACCTGGGTGTTGGTTGGTCTGTGCACATCGATGTTGAT
TTTCAACCTCCTCTTTGTGTTCGGAATTGAAAACTCCAATAAGAACTTAAAGATGAGTGACATCAGTACCAACAATACTG
GCACTGACAATGATGAGATCCCCACAACAGACACTAACAGCCCGAATGCCACATGCACTGTGATGGCAGCCTTACTGCAC
TATTTTCTGTTAGCGACATTTACCTGGACTGGGCTCAGTGCTGCACAGCTCTATTTCCTTCTAATTAGGACCATGAAACC
CCTTCCAACACATTTCATTCTCTTCATATCTTTAATTGGATGGAGCTTCCTGGATATAGTGGTGGCTTTATCAGTGGGAA
TTCTTTATTCTCAGAATGGGAGCAATTCACAGCTGGGGTTAGACTACCGACAAGAGGAGATCTGCTGGCTGGCAGTTCCA
GAAAGCAATGTTTTTATAACAAGTCCATGTTTGTGGTCATTCATCATACCTGTGACCATCATCCTAATCAGCAATGTTGT
TATATTTGTTGTCATCACAGTCAAAGTGTTGTGGAAGAATAACCAGAATCTGACAAGCCCCAAAAAAGTTTTCATCCATG
AAGAAAGTCCTTAGTACATTATCTATTGCAGTCATTTTTGAAATTAGCTGGATTCTGGCATTCCTTATGGTAGTTGCTAA
TGGTGATATCAGGATCATCTTAAACTACATATTCTGCCTTTTCAGTACTACCCAGGGATTGCAAATTTTTATCCTTTACA
CTGTTAGAACAGAAATCTTTCAGAGCGAGGCTTCCAAAGTGTTGAAGTCCCTCTTGTCATCTGCTGGGAGACTGAAGTCA
ATACCATCGTTCACTCAACCAAAGCTGCGTATCAGGATGTATAATATGCTCAGATCCTTTCCAACCCTAAGTGAACAC
ORF - retro_chof_1924 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.38 % |
| Parental protein coverage: | 57.27 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | DTTACGFVMFQNNKLFQSKIFRPRSNFNHRVISRSIETSDSEKRASVEMVFNPKHNQKQFDLHSYACVFW |
| .T.A.GFV.FQNNKLFQSK.F...SNF..R.IS.SIET..S.K..SVEMVFNPKHNQ.QFDLHS.ACVFW | |
| Retrocopy | NTKAFGFVVFQNNKLFQSKTFTTKSNFSQRIISSSIETNASGKSSSVEMVFNPKHNQLQFDLHSFACVFW |
| Parental | NVTKEDWSTVGCFKERRTDGFLHCHCNHTTNFAVLVSFRKIYKYPASLDVLSTVGCALSIAGLALTIIFQ |
| N..K.D.ST.GC.KERRTDGFLHCH.N..TNFAVL..FRK.Y.YP.SLD.LSTVGCALSIAGLAL.IIFQ | |
| Retrocopy | NFSKKD*STNGCLKERRTDGFLHCHYNNATNFAVLMHFRKKYQYPESLDILSTVGCALSIAGLALMIIFQ |
| Parental | IVTRKVRKTSVTW-VLVSLCTSMLIFNLLFVLGIENSNKNLKMSDINTNNTGTDNDEIPTTDIVNTPNPM |
| ..........V.W....S.....L.F...F.....N.N..LKMSDI.TNNTGTDNDEIPTTD..N.PN.. | |
| Retrocopy | ENQKNFSNLGVGW>LCTSMLIFNLLF--VFGIENSNKN--LKMSDISTNNTGTDNDEIPTTD-TNSPNAT |
| Parental | CTVMAALLHYFLLATFTWTGLSAAQLYFLLIRTMKPLPPHFILFISVIGWGVPAIVVSLTVGILYSQNGS |
| CTVMAALLHYFLLATFTWTGLSAAQLYFLLIRTMKPLP.HFILFIS.IGW....IVV.L.VGILYSQNGS | |
| Retrocopy | CTVMAALLHYFLLATFTWTGLSAAQLYFLLIRTMKPLPTHFILFISLIGWSFLDIVVALSVGILYSQNGS |
| Parental | NSQWELDYRQEEICWLAVPESNGFITSPFLWSFIIPVAIILISNVVIFVIITVKVLWKNNQNLTSTKKV- |
| NSQ..LDYRQEEICWLAVPESN.FITSP.LWSFIIPV.IILISNVVIFV.ITVKVLWKNNQNLTS.KKV. | |
| Retrocopy | NSQLGLDYRQEEICWLAVPESNVFITSPCLWSFIIPVTIILISNVVIFVVITVKVLWKNNQNLTSPKKV> |
| Parental | SSIKKILSTLSIAVIFGITWILAFLMLVDNDDIRIILSYVFCLFNTTQGLQIFILYTVRTGIFQREASKV |
| SS.KK.LSTLSIAVIF.I.WILAFLM.V.N.DIRIIL.Y.FCLF.TTQGLQIFILYTVRT.IFQ.EASKV | |
| Retrocopy | SSMKKVLSTLSIAVIFEISWILAFLMVVANGDIRIILNYIFCLFSTTQGLQIFILYTVRTEIFQSEASKV |
| Parental | MKSLSSSAERVKSVPLFRKPKLRVRMYNMIRSFPTPKEH |
| .KSL.SSA.R.KS.P.F..PKLR.RMYNM.RSFPT..EH | |
| Retrocopy | LKSLLSSAGRLKSIPSFTQPKLRIRMYNMLRSFPTLSEH |
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_1924 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000009379 | 1 retrocopy |
retro_chof_1924 ,
|