RetrogeneDB ID: | retro_pcap_65 | ||
Retrocopy location | Organism: | Hyrax (Procavia capensis) | |
| Coordinates: | GeneScaffold_3702:19385..20258(+) | ||
| Located in intron of: | ENSPCAG00000005059 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC35B3 | ||
| Ensembl ID: | ENSPCAG00000006201 | ||
| Aliases: | None | ||
| Description: | solute carrier family 35 (adenosine 3'-phospho 5'-phosphosulfate transporter), member B3 [Source:HGNC Symbol;Acc:21601] |
Retrocopy-Parental alignment summary:
>retro_pcap_65
ATAATATTTTCAGTGGAGGTCTTTAAGTCCTATGGCTGGTACCTTGTATTAGTACCGTTTGGGTTTTACTCTATCTGGCC
CAACAGAACTTCAGCTTATTCAGGACAAATGGAGTCTACCAGGAAAACCTACATGATAATAGCTTTCTATCCATTGGGTA
CTATGGGGTTACCAGACATTTCTTTGGATGATCTGAATTACTGTACCCAAATCATCTTCAAGCATTGCACACTGATTTCT
GTTATGCTGGGAGGAGTTTTTTTCCAAGGAAAGCAATAGGACATTACAGATACGTCTGCTGCAGCATAGATGAGCCTTGG
CCTGATGTGGTTTAACCCAGCTGACAGCACTGTTGCTCCAAATTTCACCCCGATAGGGGTGATCCTTCTTATCTCACTGG
CACTGTGTGCAGATGGTGTTGCTAGAACTATCCAAGAGAAAGCTAGGAAACTGCATGATGCTTCTAATTAAGAAACGCGT
CTGAATTTGTATTCTGTAGGTTTTGTGTTCATTTTATCAGGGTGTGCACTTGTGGATTGTGCCCTGCAATAACGTTTTGT
TCAAAGAACCCAATTTGGACCTGCAGTTATGCTGTTTTTTCCCCCTCACTGAGTAGGTTGAAATCTTCTTTGTTCTGGCT
TTGTTTGAAAATTTGGACCACTTCTTGCTGTAACAGTGACAACAGGAAGAAAAGCCATGACTGCTGAGCTTTCATTTATG
TTTTTTGCTAAACCAGTCACATGTCAGTATGTCTGGTCTGATCTGTTAGTTGTTCTTGGTCTGTTTCTCAGTGTTTAGAG
CAAAAATACGGACAAAATAAGACTACCATCATTACAAGATAAATCAGTGGGTGAGAAAAAGTCAGAAATGTTG
ORF - retro_pcap_65 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.7 % |
| Parental protein coverage: | 98.34 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | LIFSVEGFKPYGWYLTLVQF-GFYSIFGLIELQLIQDKRRRIPGQ-TYMIIAFLTVGTMGLSNTSLGYLN |
| .IFSVE.FK.YGWYL.LV.F.GF....G..ELQLIQDK....PG..TYMIIAF...GTMGL...SL..LN | |
| Retrocopy | IIFSVEVFKSYGWYLVLVPF>GF-TLSGPTELQLIQDKWS-LPGK<TYMIIAFYPLGTMGLPDISLDDLN |
| Parental | YPTQVIFKCCKLIPVMLGGVFIQGKRYNIADVSAAVCMSLGLIWFTLADSTVAPNFNLTGVVL-ISLALC |
| Y.TQ.IFK.C.LI.VMLGGVF.QGK...I.D.SAA..MSLGL.WF..ADSTVAPNF...GV.L.ISLALC | |
| Retrocopy | YCTQIIFKHCTLISVMLGGVFFQGKQ*DITDTSAAA*MSLGLMWFNPADSTVAPNFTPIGVILLISLALC |
| Parental | ADAVIGNVQEKAMKLHNASNSEMVLYSYSIG-FVYIFLGLTCTSGLRPAVAFCSKNPVRTYGYAFL-FSL |
| AD.V....QEKA.KLH.ASN.E..L..YS.G.F...F....CT.GL.PA..FCSKNP..T..YA...F.L | |
| Retrocopy | ADGVARTIQEKARKLHDASN*ETRLNLYSVG<FCVHFIRV-CTCGLCPAITFCSKNPIWTCSYAVF<FPL |
| Parental | TGYFGISFVLALIKI-FGALLAVTVTTGRKAMTIILSFLFFAKPFTFQYVWSGLLVVLGIFLNVYSKNMD |
| T....I.FVLAL....FG.LLAVTVTTGRKAMT..LSF.FFAKP.T.QYVWS.LLVVLG.FL.V.SKN.D | |
| Retrocopy | TE*VEIFFVLALFEN<FGPLLAVTVTTGRKAMTAELSFMFFAKPVTCQYVWSDLLVVLGLFLSV*SKNTD |
| Parental | KIRLPSLQGLINRWVDERKSRTL |
| KIRLPSLQ......V.E.KS..L | |
| Retrocopy | KIRLPSLQ---DKSVGEKKSEML |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Procavia capensis was not studied using RNA-Seq expression data.
Procavia capensis was not studied using ChIP-Seq data.
Procavia capensis was not studied using EST data.
Procavia capensis was not studied using FANTOM5 data.
retro_pcap_65 was not experimentally validated.
Retrocopy orthology:
Procavia capensis 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 | |
|---|---|---|---|
| Loxodonta africana | ENSLAFG00000002579 | 1 retrocopy | |
| Procavia capensis | ENSPCAG00000006201 | 1 retrocopy |
retro_pcap_65 ,
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