RetrogeneDB ID: | retro_itri_1056 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393365.1:471004..471944(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | WNT8A | ||
| Ensembl ID: | ENSSTOG00000007249 | ||
| Aliases: | None | ||
| Description: | wingless-type MMTV integration site family, member 8A [Source:HGNC Symbol;Acc:12788] |
Retrocopy-Parental alignment summary:
>retro_itri_1056
CATCTCACCCCTACTACCAATGTGGGCTTGAGTACCCAGAGTGGCATTGAGCAGTATAAGTTCCTTTTTTTTTGTTATCA
TTGGAACTGCCCTGAAAACACTCTCCAGCTCACCACCCACAACAGGCTGAGAAATGCCAACAGAGAGATTTCCTTCATTC
ATGCCATCAGCTCTGCCTGAGTCATGTACACCATCACTAAATACTGTAGCATGGGTGACTTTGAAAACTGTGACTGTGAT
GAGTCAAAAACAGAAAAACAGGAGGCCATAACTGGATCTAGCGAGGCTGCAGCGACAATGTGGAATTTGGGGAAAGGATC
TCCAAACTATTTGTGAACAATCTGGAGAAGGGGAAGGATGCCAAAGCCCTGATGAGTCTTCACAACAGGGCCGGCTGGCA
GGCAGTAAGAGTCACCGTGGAAAGAATCTGCAAATGCCATAATATCTCAGAGAGCTGCAGCATCCAGACATGCTGGCTGC
AGCTGGCTCACTGCTGGGAGATGGGAGACTACCTAAAGGACAAGCATGACCAGTCACTGAAAATTGAGAAGGATAAGCAG
CAGCTAAGGGCTGGGAACAACGCCGAGGGTTGCTGAGCTCCCACTGAGGCTCTTCCTCCTAGCATAGAAGCTAAGATAAT
CATTTTAGAGAAATCTCCAGACTACATACCTGCAGTTCCAGCCTGGGCATTTATGACACAAAGGGTCGAAAGTGCCTGCA
GACCAGCTGCAATACATTCAAGTAGGAGCTTGAACACAGCTGTGGGCACCTGTGCACTGAGTGTGAGCTACAGGTGGAAG
AGAGGAAGACTGAAGCCAAGAACAGCTGTAACAGCAAATTTCAATGGGGCTGCATGATCAAGTACCACCAGCTTAGGCAT
GTGGTGAACAAGTACTACTGCATGCACTCCCCAGACAGTGCCCAGGCCTGATGCAACAGG
ORF - retro_itri_1056 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.56 % |
| Parental protein coverage: | 89.71 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | YLTYTTSVALGAQSGIEECKFQFAWERWNCPENALQLSTHNRLRSATRETSFIHAISSAGVMYTITKNCS |
| .LT.TT.V.L..QSGIE..KF......WNCPEN.LQL.THNRLR.A.RE.SFIHAISSA.VMYTITK.CS | |
| Retrocopy | HLTPTTNVGLSTQSGIEQYKFXXXXYHWNCPENTLQLTTHNRLRNANREISFIHAISSA*VMYTITKYCS |
| Parental | MGDFENCGCDESK-NGKTGGHGWIWGGCSDNVEFGERISKLFVDSLEKGKDARALMNLHNNRAGRLAVRA |
| MGDFENC.CDESK.N.KTGGH.WI..GCSDNVEFGERISKLFV..LEKGKDA.ALM.LHN.RAG..AVR. | |
| Retrocopy | MGDFENCDCDESK<NRKTGGHNWI*RGCSDNVEFGERISKLFVNNLEKGKDAKALMSLHN-RAGWQAVRV |
| Parental | TMKRICKCHGISGSCSIQTCWLQLADFREMGNYLKAKYDQALKIEMDKRQLRAGNSAEGCWAPTEAFLPS |
| T..RICKCH.IS.SCSIQTCWLQLA...EMG.YLK.K.DQ.LKIE.DK.QLRAGN.AEGC.APTEA..PS | |
| Retrocopy | TVERICKCHNISESCSIQTCWLQLAHCWEMGDYLKDKHDQSLKIEKDKQQLRAGNNAEGC*APTEALPPS |
| Parental | IEAELIFLEESPDYC-TRNSSLGIYGTEGRECLQNSHNTSKRE-QRSCGHLCTECGLQVEERRTEAVSSC |
| IEA..I.LE.SPDY..T..SSLGIY.T.GR.CLQ.S.NT.K.E...SCGHLCTEC.LQVEER.TEA..SC | |
| Retrocopy | IEAKIIILEKSPDYI<TCSSSLGIYDTKGRKCLQTSCNTFK*ELEHSCGHLCTECELQVEERKTEAKNSC |
| Parental | NCKFQWCCTVKCDQCRHVVNKYYCMRSPGSARGRGNR |
| N.KFQW.C..K..Q.RHVVNKYYCM.SP.SA....NR | |
| Retrocopy | NSKFQWGCMIKYHQLRHVVNKYYCMHSPDSAQA*CNR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_1056 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_1056 was not experimentally validated.
Retrocopy orthology:
Ictidomys tridecemlineatus 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 | |
|---|---|---|---|
| Ictidomys tridecemlineatus | ENSSTOG00000007249 | 1 retrocopy |
retro_itri_1056 ,
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