RetrogeneDB ID: | retro_vpac_372 | ||
Retrocopy location | Organism: | Alpaca (Vicugna pacos) | |
| Coordinates: | scaffold_13232:6963..7466(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DSN1 | ||
| Ensembl ID: | ENSVPAG00000003601 | ||
| Aliases: | None | ||
| Description: | DSN1, MIS12 kinetochore complex component [Source:HGNC Symbol;Acc:16165] |
Retrocopy-Parental alignment summary:
>retro_vpac_372
AGTCTTGAAAGTTTTAGAAGCAAAGCATTTTCTCTTTCTGAAGAATTTAAATATTTGCAGTCAGTGGAAAATGATGGAAG
CCTACGAAAATGTTCTGACAATCCAAAGGAAAAGCATCGTATTTGTCTCCAGAAACATCAGTGGCTGAGATGAAGGAATG
CACAGCCAAGCTTTCTTTAGAATGCCAAAGCTGAGGTCAGGACTTGCTGCACCATCACAATGGATGTGACTTATTACATG
ATACAGGGATCAACCAAAGCCAAAATGACTCATATTGAAGTGGAACCAGTGATGTATCTTGATCTTTCCAGTGCAAAGTT
CTTCACTCAAATCCTGACCACCGGAAGGTATTACAGAACCAGCGCAAGGTCTCTGATGGTACGCAGTTTGTGATAGATGG
ACCGCAGTGATCAGTGGGGCACCTGCAGGTCTTTACGGGCAAAAGTACTCAGTGTTTCCAGAAGGGGTCAGTACAGCTTG
GGAAGAGAAGCAGCAAACAGATC
ORF - retro_vpac_372 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.58 % |
| Parental protein coverage: | 71.91 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | NLESYKAKASSLSEELKHFADSLEGNGALQKCFEDPE-GRASDLSLETSVAEMKEYITKFSLERQSWDQL |
| .LES...KA.SLSEE.K....S.E..G.L.KC...P..G.AS.LS.ETSVAEMKE...K.SLE.QS..Q. | |
| Retrocopy | SLESFRSKAFSLSEEFKYL-QSVENDGSLRKCSDNPK<GKASYLSPETSVAEMKECTAKLSLECQS*GQD |
| Parental | LLRYQEEAEKI-ISRGSTETKNTEVEVGPTTYLR-SSQSEVLNTKPDYQKILQNQNKVFDCMELVMDELQ |
| LL.............GST..K.T..EV.P..YL..S.Q..VL...PD..K.LQNQ.KV.D....V.D..Q | |
| Retrocopy | LLHHHNGCDLL>MIQGSTKAKMTHIEVEPVMYLD<SFQCKVLHSNPDHRKVLQNQRKVSDGTQFVIDGPQ |
| Parental | GSVKQLHTFMDESTQCLQKVSVQLGKRSTQQL |
| .SV..L..F...STQC.QK.SVQLGKRS..Q. | |
| Retrocopy | *SVGHLQVFTGKSTQCFQKGSVQLGKRSSKQI |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Vicugna pacos was not studied using RNA-Seq expression data.
Vicugna pacos was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_vpac_372 retrocopy.
Vicugna pacos was not studied using FANTOM5 data.
retro_vpac_372 was not experimentally validated.
Retrocopy orthology:
Vicugna pacos 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 | |
|---|---|---|---|
| Tupaia belangeri | ENSTBEG00000002396 | 1 retrocopy | |
| Vicugna pacos | ENSVPAG00000003601 | 1 retrocopy |
retro_vpac_372 ,
|