RetrogeneDB ID: | retro_itri_89 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393602.1:718171..719665(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSTOG00000022216 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC2A1 | ||
| Ensembl ID: | ENSSTOG00000021861 | ||
| Aliases: | None | ||
| Description: | solute carrier family 2 (facilitated glucose transporter), member 1 [Source:HGNC Symbol;Acc:11005] |
Retrocopy-Parental alignment summary:
>retro_itri_89
ATGGGGACACAGAAGGTGACCCCATCTCTGATCTTTGCTGTCTCTGTTGCTACAATTGGCTCTTTCCAGTTTGGCTACAA
CACTGGAGTCATCAATGCTCCTGAGACTATCATAAAAGACTTTCTCAACTATACTTTGGAAGAGAGATTGGAAGACATTC
CTAGTAAAACATTGCTTACAACCCTCTGGTCCTTGTCTGTGGCCATCTTCTCTGTTGGTGGCATGATGGGCTCCTTTTCT
GTTGGACTCTTTGTCAACCGATTTGGCAGGCGCAATTCAATGCTTATAGTCAACCTGTTGGCTATTGCTGGTGGCTGCCT
CATGGGGTTCTGCAAGATTGCTGAGTCCGTTGAGATGTTAATCCTGGGCCGCTTGATTATTGGACTTTTCTGTGGACTCT
GTACAGGTTTTGTGCCCATGTACATTGGAGAAGTATCTCCTACTGCTCTGAGAGGTGCCTTTGGCACTCTCAACCAGCTG
GGGATCGTCATTGGGATTCTGGTGGCTCAGATATTTGGTCTGGGATTTATCCTGGGATCTGAAGATCTGTGGCCTGTGCT
GTTGGGCTTAACAATTATTCCAGCTATCCTACAAAGTATAGCCCTTCCATTTTGCCCTGAAAGTCCTAGATTCTTGCTCA
TTAATAGAAAAGAAGAGGAGAATGCTAAGAGGATCCTCCAACGGTTATGGGGCACACCAGATGTGAACCAGGATATCCTG
GAACTGAAAGAAGAGAGTGTTAGAATGTCACAAGAAAAGCAAGTCTCTGTGCTGCAGCTCTTTAAGTCACCCAACTACCA
ACAACCCCTCCTCATTTCCATTGTGCTTCAGCTCTCCCAGCAGCTCTCTGGGATCAATGCTGTGTTCTATTACTCAACAG
GAATCTTTAAGGAAGCAGGTGTTGATGAGCCAATATATGCTACCATTGGAGCCGGTGTTGTTAATACTATTTTCACTGTA
GTTTCTCTGTTTCTGGTGGAAAGGGCAGGAAGAAGGACTTTACATATGATAGGCCTTGGAGGAATGGCTATATGTTCCAT
CATCATGACTATTTCTTTGTTATTGAAGGATAACTATAATGCAATGAGCTTTGTCTGTATCACAGCTATCTTGATCTATG
TGGCCTTCTTTGAGATTGGACCAGGCCCTATTCCATGGTTTATTGTGGCTGAACTCTTTGAACAGGGACCACGCCCAGCA
GCCATGGCAGTAGCTGGTTGTTCTAACTGGACCTCCAACTTTTTGGTTGGACTGCTCTTTCTCTCAGCTGCAGCCTATTT
GGGAGCCTATGTTTTTCTTATCTTCGCCACTTTCCTCATTATCTTCCTGGTCTTCACCTTCTTCAAAGTCCCTGAGACCC
GAGGCAGGACTTTTGAGGATATCACACGGGCCTTTGAAGGGCATGGTAATGAGTCCAATAATAGAGCTGGGAAAGGCTCT
GTGGGGGAGATGAACAGCAGCCAGCCTGCTAAGGAGAATACCACCAATGTCTAG
ORF - retro_itri_89 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.89 % |
| Parental protein coverage: | 95.93 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KKVTGRLMLAVGGAVLGSLQFGYNTGVINAPQKVIEEFYNQTWIHRYGEPILPTTLTTLWSLSVAIFSVG |
| .KVT..L..AV..A..GS.QFGYNTGVINAP...I..F.N.T...R.......T.LTTLWSLSVAIFSVG | |
| Retrocopy | QKVTPSLIFAVSVATIGSFQFGYNTGVINAPETIIKDFLNYTLEERLEDIPSKTLLTTLWSLSVAIFSVG |
| Parental | GMIGSFSVGLFVNRFGRRNSMLMMNLLAFVSAVLMGFSKLGKSFEMLILGRFIIGVYCGLTTGFVPMYVG |
| GM.GSFSVGLFVNRFGRRNSML..NLLA.....LMGF.K...S.EMLILGR.IIG..CGL.TGFVPMY.G | |
| Retrocopy | GMMGSFSVGLFVNRFGRRNSMLIVNLLAIAGGCLMGFCKIAESVEMLILGRLIIGLFCGLCTGFVPMYIG |
| Parental | EVSPTALRGALGTLHQLGIVVGILIAQVFGLDSILGNEELWPLLLSIIFIPALTQCILLPFCPESPRFLL |
| EVSPTALRGA.GTL.QLGIV.GIL.AQ.FGL..ILG.E.LWP.LL....IPA..Q.I.LPFCPESPRFLL | |
| Retrocopy | EVSPTALRGAFGTLNQLGIVIGILVAQIFGLGFILGSEDLWPVLLGLTIIPAILQSIALPFCPESPRFLL |
| Parental | INRNEENRAKSVLKKLRGTADVTRDLQEMKEESRQMMREKKVTILELFRSPAYRQPILIAVVLQLSQQLS |
| INR.EE..AK..L..L.GT.DV..D..E.KEES..M..EK.V..L.LF.SP.Y.QP.LI..VLQLSQQLS | |
| Retrocopy | INRKEEENAKRILQRLWGTPDVNQDILELKEESVRMSQEKQVSVLQLFKSPNYQQPLLISIVLQLSQQLS |
| Parental | GINAVFYYSTSIFEKAGVQQPVYATIGSGIVNTAFTVVSLFVVERAGRRTLHLIGLAGMAGCAVLMTIAL |
| GINAVFYYST.IF..AGV..P.YATIG.G.VNT.FTVVSLF.VERAGRRTLH.IGL.GMA.C...MTI.L | |
| Retrocopy | GINAVFYYSTGIFKEAGVDEPIYATIGAGVVNTIFTVVSLFLVERAGRRTLHMIGLGGMAICSIIMTISL |
| Parental | ALLEQLPWMSYLSIVAIFGFVAFFEVGPGPIPWFIVAELFSQGPRPAAFAVAGFSNWTSNFIVGMCFQYV |
| .L......MS...I.AI...VAFFE.GPGPIPWFIVAELF.QGPRPAA.AVAG.SNWTSNF.VG..F... | |
| Retrocopy | LLKDNYNAMSFVCITAILIYVAFFEIGPGPIPWFIVAELFEQGPRPAAMAVAGCSNWTSNFLVGLLFLSA |
| Parental | EQLCGPYVFIIFTVLLILFFIFTYFKVPETKGRTFDEIASGFRQGGASQSDK |
| ....G.YVF.IF...LI.F..FT.FKVPET.GRTF..I...F...G...... | |
| Retrocopy | AAYLGAYVFLIFATFLIIFLVFTFFKVPETRGRTFEDITRAFEGHGNESNNR |
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_89 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_89 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015043 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000021861 | 1 retrocopy |
retro_itri_89 ,
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