Rw3G028040

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000268
Physical Location & Seq
Reverse (-)
41032782 .. 41034132
1351 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G028040.1

Sequence Viewer

Length: 1227 bp
ATGCAAATATGTGGTTCCAATCCATTACAGTTTAAGAAATTGGTGGCTTCTAAGTGGCATACACTCACGCCTACTGAAAAAGCCAAGTACAATATTCCAGGCCCTAATGTTTCATCTGGAATTACAAAGAAAAGTAGGAATACATCCAAATCCTCAGTTGCCATCTCCACTCGATGTAGTCCACACCAATTTCAACAAGTTGTTTCTAAATTTTCTGGGGAACAGATTGCAGCAATAACTGAACTGGGCTTTGGTACGCTAGTAAAATTTTCATGCACACGAGTACGTCGAGACATATATCGATTTTTGATTGATAAGTTTGACACTGAGGAGTGTTTGATTAAGCTGCATGGTAAGAGTATGAAAGTGAGTTCTTCAGATTTTAAACAGATTAGGAGTATACCTAAAGGAGGAACAGATGTAGACTTCAGCGGCTCAATTGAAGACCCTGACATGAAAGCATTGGTTGATTATTATTTAGATGGAGCAAACGGAGTAGATGATCATTTTGGAGTCAGCTTCATTATGTTGGCATTGAGAACCTTGCTTTGCCCAAATACATCAACACATCTCAATCCAAATTTTTCATTTGAATTTCTATTGGAAAGTGTGCGGCTATTCAAGCAGAATAAAGCAAAGTACGTATCTGGATGTGTGTTGTTCTTCCAACTTTATTATTATAATGTAATGTCATCGGATATGGAATGGCACTTGTTGATTGAGCAATCATCAAAACTAATTAAATGGATATTGCGGAAAGGGGGTTATGAAAGTCCAAACATTCTGGTCTCGAAAGTTTATAATTTAAGTGGACAGAAACATGAGGCAGAAGATGTTGTTGCCCTTCGAACTGATGTTGAATCTGTGAAGACTACCATTAGGCAGGTGGAGGAAAAGATTGATGAACTGGGAGGTCTTCTTAGAGGGATAAAAGAAGGATTGTTCAAAGTAGTGAGAGAAGATGGTGATCGGGATGTCAGTATAAAACGGGACGAGGCTAATCATGATAGGAAGACTGTGGAACTGTTATCAAATGACACTATTAGGCAAAACCATCAGGAAAGTGATGATTTCAATACTCAAAGTTCAAAAGAAGTAGAGGTTCATGATGAGTCATCATGTCAAATACATAGTGAGGAACACTCTGAGGCAGCACATCCTAAGGTATGTTTTGCATCGACTTCATATTTGAATTTCATATATATTATGATGCAAACAAACATGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HMG_box

Protein Analysis

408

Amino Acids

46.28

Weight (kDa)

6.68

Isoelectric Point (pI)

36.27

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000268)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23642 FvH4_2g09911 FvH4_2g09911 FvH4_2g09911 FvH4_3g18421 FvH4_4g05321 FvH4_6g28332 FvH4_7g31231
prunus_persica Prupe.2G063700_v2.0.a1 Prupe.5G238300_v2.0.a1 Prupe.6G153700_v2.0.a1 Prupe.7G017400_v2.0.a1 Prupe.7G070100_v2.0.a1 Prupe.7G070100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0345471 RchiOBHm_Chr1g0366901 RchiOBHm_Chr2g0162601 RchiOBHm_Chr6g0266661 RchiOBHm_Chr6g0266671
rosa_laevigata RLG00000005047 RLG00000007971 RLG00000008530 RLG00000009009 RLG00000009046 RLG00000014086 RLG00000017162 RLG00000017163 RLG00000017440 RLG00000019098 RLG00000022623 RLG00000024566 RLG00000027733 RLG00000029878 RLG00000029945 RLG00000030127 RLG00000030157 RLG00000031078 RLG00000031080 RLG00000034338 RLG00000034670
rosa_multiflora Rmu_sc0002106.1_g000007 Rmu_sc0002531.1_g000064 Rmu_sc0003433.1_g000005 Rmu_sc0004704.1_g000001 Rmu_sc0004704.1_g000002 Rmu_sc0004888.1_g000042 Rmu_sc0005599.1_g000031 Rmu_sc0006413.1_g000014 Rmu_sc0006413.1_g000018
rosa_roxburghii Rroxscaffold_1G00031940 Rroxscaffold_1G00032500 Rroxscaffold_1G00074770 Rroxscaffold_1G00074780 Rroxscaffold_1G00075150 Rroxscaffold_2G00125060 Rroxscaffold_2G00125070 Rroxscaffold_2G00125800 Rroxscaffold_2G00125820 Rroxscaffold_2G00139560 Rroxscaffold_2G00140550 Rroxscaffold_4G00314090 Rroxscaffold_6G00390050 Rroxscaffold_6G00390520 Rroxscaffold_6G00390530 Rroxscaffold_6G00428030 Rroxscaffold_7G00201570 Rroxscaffold_7G00201580 Rroxscaffold_7G00207070 Rroxscaffold_7G00207080 Rroxscaffold_7G00207240
rosa_rugosa Rorug01G0408000 Rorug01G0408100 Rorug01G0408100 Rorug01G0408200 Rorug02G0155200 Rorug02G0181500 Rorug02G0288400 Rorug03G0208600 Rorug03G0272300 Rorug06G0005500 Rorug06G0005600 Rorug06G0026300.1 Rorug06G0026400 Rorug06G0026500 Rorug06G0026600 Rorug06G0026600 Rorug06G0026600 Rorug06G0145800 Rorug07G0305200
rosa_samantha Rh1AG062100 Rh1BG131900 Rh1BG157000 Rh1CG021100 Rh1CG321600 Rh1DG188200 Rh2DG388300 Rh3AG320500 Rh3BG355400 Rh3CG352400 Rh3CG353200 Rh4AG045800 Rh4DG171700 Rh5AG196000 Rh5AG196100 Rh5CG346800 Rh6BG147600 Rh6BG147700 Rh6CG143200 Rh6CG143500 Rh6CG174600 Rh6CG391800 Rh6DG132100 Rh6DG132300 Rh6DG167100 Rh6DG167200 Rh7AG211600 Rh7BG307000 Rh7BG307300 Rh7BG398300
rosa_wichuraiana Rw0G001830 Rw0G001840 Rw0G018160 Rw0G018170 Rw3G028040 Rw5G017860 Rw5G026710 Rw6G012630 Rw6G012650 Rw6G012780 Rw6G012800 Rw7G019130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 681, 801
AarI CACCTGC 1 cut(s) 874
Acc36I ACCTGC 1 cut(s) 874
AccI GTMKAC 2 cut(s) 400, 423
AciI CCGC 3 cut(s) 432, 613, 754
AcsI RAATTY 5 cut(s) 209, 266, 580, 593, 1192
AcuI CTGAAG 2 cut(s) 360, 412
AfaI GTAC 4 cut(s) 89, 256, 285, 641
AfiI CCNNNNNNNGG 1 cut(s) 410
AflIII ACRYGT 1 cut(s) 1221
AgsI TTSAA 9 cut(s) 194, 443, 593, 622, 860, 946, 1075, 1089, 1192
AjnI CCWGG 1 cut(s) 97
AjuI GAANNNNNNNTTGG 2 cut(s) 234, 266
AluBI AGCT 2 cut(s) 346, 519
AluI AGCT 2 cut(s) 346, 519
Alw26I GTCTC 2 cut(s) 285, 793
AoxI GGCC 1 cut(s) 100
ApeKI GCWGC 3 cut(s) 230, 346, 1151
ApoI RAATTY 5 cut(s) 209, 266, 580, 593, 1192
ArsI GACNNNNNNTTYG 2 cut(s) 1171, 1203
AspS9I GGNCC 1 cut(s) 101
AsuHPI GGTGA 1 cut(s) 977
AsuII TTCGAA 1 cut(s) 847
AxyI CCTNAGG 1 cut(s) 1161
BaeI ACNNNNGTAYC 2 cut(s) 246, 279
BauI CACGAG 1 cut(s) 279
BbsI GAAGAC 4 cut(s) 450, 875, 908, 1019
BbvI GCAGC 3 cut(s) 242, 333, 1163
BccI CCATC 4 cut(s) 170, 476, 956, 1062
BciT130I CCWGG 1 cut(s) 99
BclI TGATCA 1 cut(s) 502
BcoDI GTCTC 2 cut(s) 285, 793
BfaI CTAG 1 cut(s) 260
BfuAI ACCTGC 1 cut(s) 874
BisI GCNGC 5 cut(s) 231, 347, 433, 614, 1152
BlsI GCNGC 5 cut(s) 232, 348, 434, 615, 1153
Bme1390I CCNGG 1 cut(s) 99
BmgT120I GGNCC 1 cut(s) 101
BmiI GGNNCC 1 cut(s) 16
BmrFI CCNGG 1 cut(s) 99
BmrI ACTGGG 2 cut(s) 254, 917
BmsI GCATC 2 cut(s) 1184, 1200
BmuI ACTGGG 2 cut(s) 254, 917
BpiI GAAGAC 4 cut(s) 450, 875, 908, 1019
BplI GAGNNNNNCTC 2 cut(s) 1127, 1159
Bpu14I TTCGAA 1 cut(s) 847
Bsa29I ATCGAT 1 cut(s) 301
BsaAI YACGTR 1 cut(s) 643
BsaBI GATNNNNATC 1 cut(s) 966
BsaI GGTCTC 1 cut(s) 793
Bsc4I CCNNNNNNNGG 1 cut(s) 410
Bse1I ACTGG 2 cut(s) 249, 912
Bse21I CCTNAGG 1 cut(s) 1161
Bse8I GATNNNNATC 1 cut(s) 966
BseBI CCWGG 1 cut(s) 99
BseCI ATCGAT 1 cut(s) 301
BseGI GGATG 4 cut(s) 143, 656, 979, 1156
BseJI GATNNNNATC 1 cut(s) 966
BseLI CCNNNNNNNGG 1 cut(s) 410
BseMII CTCAG 3 cut(s) 168, 318, 1137
BseNI ACTGG 2 cut(s) 249, 912
BseRI GAGGAG 1 cut(s) 344
BseXI GCAGC 3 cut(s) 242, 333, 1163
BshFI GGCC 1 cut(s) 102
BshVI ATCGAT 1 cut(s) 301
BslFI GGGAC 1 cut(s) 1004
BslI CCNNNNNNNGG 1 cut(s) 410
BsmAI GTCTC 2 cut(s) 285, 793
BsmFI GGGAC 1 cut(s) 1004
BsnI GGCC 1 cut(s) 102
Bso31I GGTCTC 1 cut(s) 793
Bsp119I TTCGAA 1 cut(s) 847
Bsp143I GATC 2 cut(s) 502, 967
BspACI CCGC 3 cut(s) 432, 613, 754
BspANI GGCC 1 cut(s) 102
BspCNI CTCAG 3 cut(s) 167, 319, 1138
BspDI ATCGAT 1 cut(s) 301
BspHI TCATGA 2 cut(s) 1003, 1105
BspLI GGNNCC 1 cut(s) 16
BspMI ACCTGC 1 cut(s) 874
BspT104I TTCGAA 1 cut(s) 847
BspTNI GGTCTC 1 cut(s) 793
BsrI ACTGG 2 cut(s) 249, 912
BssMI GATC 2 cut(s) 502, 967
BssNAI GTATAC 1 cut(s) 401
BssSI CACGAG 1 cut(s) 279
Bst1107I GTATAC 1 cut(s) 401
Bst2BI CACGAG 1 cut(s) 279
Bst2UI CCWGG 1 cut(s) 99
Bst4CI ACNGT 3 cut(s) 30, 1018, 1026
BstBAI YACGTR 1 cut(s) 643
BstBI TTCGAA 1 cut(s) 847
BstDEI CTNAG 6 cut(s) 51, 154, 327, 920, 1146, 1161
BstENI CCTNNNNNAGG 1 cut(s) 408
BstF5I GGATG 4 cut(s) 143, 656, 979, 1156
BstKTI GATC 2 cut(s) 505, 970
BstMAI GTCTC 2 cut(s) 285, 793
BstMBI GATC 2 cut(s) 502, 967
BstMWI GCNNNNNNNGC 1 cut(s) 622
BstNI CCWGG 1 cut(s) 99
BstNSI RCATGY 1 cut(s) 1225
BstSCI CCNGG 1 cut(s) 97
BstSNI TACGTA 1 cut(s) 643
BstV1I GCAGC 3 cut(s) 242, 333, 1163
BstV2I GAAGAC 4 cut(s) 450, 875, 908, 1019
BstZ17I GTATAC 1 cut(s) 401
Bsu15I ATCGAT 1 cut(s) 301
Bsu36I CCTNAGG 1 cut(s) 1161
BsuRI GGCC 1 cut(s) 102
BsuTUI ATCGAT 1 cut(s) 301
BtsCI GGATG 4 cut(s) 143, 656, 979, 1156
BtsIMutI CAGTG 1 cut(s) 324
BveI ACCTGC 1 cut(s) 874
CciI TCATGA 2 cut(s) 1003, 1105
Cfr13I GGNCC 1 cut(s) 101
ClaI ATCGAT 1 cut(s) 301
Csp6I GTAC 4 cut(s) 88, 255, 284, 640
CviAII CATG 8 cut(s) 273, 350, 454, 821, 1004, 1106, 1119, 1222
CviJI RGCY 9 cut(s) 47, 83, 102, 249, 346, 435, 519, 616, 998
CviKI_1 RGCY 9 cut(s) 47, 83, 102, 249, 346, 435, 519, 616, 998
CviQI GTAC 4 cut(s) 88, 255, 284, 640
DdeI CTNAG 6 cut(s) 51, 154, 327, 920, 1146, 1161
DpnI GATC 2 cut(s) 504, 969
DpnII GATC 2 cut(s) 502, 967
DraI TTTAAA 1 cut(s) 385
Eco105I TACGTA 1 cut(s) 643
Eco31I GGTCTC 1 cut(s) 793
Eco57I CTGAAG 2 cut(s) 360, 412
Eco81I CCTNAGG 1 cut(s) 1161
EcoNI CCTNNNNNAGG 1 cut(s) 408
EcoO109I RGGNCCY 1 cut(s) 101
EcoRII CCWGG 1 cut(s) 97
FaeI CATG 8 cut(s) 276, 353, 457, 824, 1007, 1109, 1122, 1225
FaqI GGGAC 1 cut(s) 1004
FatI CATG 8 cut(s) 272, 349, 453, 820, 1003, 1105, 1118, 1221
FbaI TGATCA 1 cut(s) 502
FblI GTMKAC 2 cut(s) 400, 423
Fnu4HI GCNGC 5 cut(s) 231, 347, 433, 614, 1152
FokI GGATG 4 cut(s) 130, 663, 986, 1143
Fsp4HI GCNGC 5 cut(s) 231, 347, 433, 614, 1152
FspBI CTAG 1 cut(s) 260
GluI GCNGC 5 cut(s) 231, 347, 433, 614, 1152
HaeIII GGCC 1 cut(s) 102
Hin1II CATG 8 cut(s) 276, 353, 457, 824, 1007, 1109, 1122, 1225
HinfI GANTC 3 cut(s) 513, 860, 1112
HphI GGTGA 1 cut(s) 977
Hpy166II GTNNAC 4 cut(s) 182, 401, 424, 812
Hpy188I TCNGA 3 cut(s) 379, 697, 1147
Hpy188III TCNNGA 8 cut(s) 117, 290, 648, 790, 971, 1004, 1058, 1106
Hpy8I GTNNAC 4 cut(s) 182, 401, 424, 812
Hpy99I CGWCG 1 cut(s) 291
HpyAV CCTTC 2 cut(s) 854, 929
HpyCH4III ACNGT 3 cut(s) 30, 1018, 1026
HpyCH4IV ACGT 2 cut(s) 286, 642
HpyCH4V TGCA 6 cut(s) 4, 230, 276, 349, 1175, 1213
HpyF10VI GCNNNNNNNGC 1 cut(s) 622
HpyF3I CTNAG 6 cut(s) 51, 154, 327, 920, 1146, 1161
HpySE526I ACGT 2 cut(s) 286, 642
Hsp92II CATG 8 cut(s) 276, 353, 457, 824, 1007, 1109, 1122, 1225
Ksp22I TGATCA 1 cut(s) 502
Kzo9I GATC 2 cut(s) 502, 967
LmnI GCTCC 1 cut(s) 485
Lsp1109I GCAGC 3 cut(s) 242, 333, 1163
LweI GCATC 2 cut(s) 1184, 1200
MaeI CTAG 1 cut(s) 260
MaeII ACGT 2 cut(s) 286, 642
MalI GATC 2 cut(s) 504, 969
MboI GATC 2 cut(s) 502, 967
MboII GAAGA 8 cut(s) 366, 455, 655, 842, 880, 908, 971, 1024
MfeI CAATTG 1 cut(s) 438
MlyI GAGTC 2 cut(s) 522, 1121
MmeI TCCRAC 1 cut(s) 691
MseI TTAA 5 cut(s) 33, 342, 384, 741, 806
MspA1I CMGCKG 1 cut(s) 432
MspR9I CCNGG 1 cut(s) 99
MunI CAATTG 1 cut(s) 438
MvaI CCWGG 1 cut(s) 99
MwoI GCNNNNNNNGC 1 cut(s) 622
NdeII GATC 2 cut(s) 502, 967
NlaIII CATG 8 cut(s) 276, 353, 457, 824, 1007, 1109, 1122, 1225
NlaIV GGNNCC 1 cut(s) 16
NspI RCATGY 1 cut(s) 1225
NspV TTCGAA 1 cut(s) 847
PagI TCATGA 2 cut(s) 1003, 1105
PaqCI CACCTGC 1 cut(s) 874
PciI ACATGT 1 cut(s) 1221
PcsI WCGNNNNNNNCGW 1 cut(s) 286
PfeI GAWTC 1 cut(s) 860
PkrI GCNGC 5 cut(s) 232, 348, 434, 615, 1153
PleI GAGTC 2 cut(s) 521, 1120
PpsI GAGTC 2 cut(s) 521, 1120
Ppu21I YACGTR 1 cut(s) 643
PscI ACATGT 1 cut(s) 1221
PsiI TTATAA 2 cut(s) 681, 801
Psp6I CCWGG 1 cut(s) 97
PspGI CCWGG 1 cut(s) 97
PspN4I GGNNCC 1 cut(s) 16
PspPI GGNCC 1 cut(s) 101
RsaI GTAC 4 cut(s) 89, 256, 285, 641
RsaNI GTAC 4 cut(s) 88, 255, 284, 640
SaqAI TTAA 5 cut(s) 33, 342, 384, 741, 806
SatI GCNGC 5 cut(s) 231, 347, 433, 614, 1152
Sau3AI GATC 2 cut(s) 502, 967
Sau96I GGNCC 1 cut(s) 101
SchI GAGTC 2 cut(s) 522, 1121
ScrFI CCNGG 1 cut(s) 99
SfaNI GCATC 2 cut(s) 1184, 1200
SfuI TTCGAA 1 cut(s) 847
SnaBI TACGTA 1 cut(s) 643
SsiI CCGC 3 cut(s) 432, 613, 754
SspI AATATT 1 cut(s) 94
SspMI CTAG 1 cut(s) 260
StyD4I CCNGG 1 cut(s) 97
TaaI ACNGT 3 cut(s) 30, 1018, 1026
TaiI ACGT 2 cut(s) 289, 645
TaqI TCGA 6 cut(s) 172, 289, 301, 791, 847, 1178
TatI WGTACW 1 cut(s) 87
TauI GCSGC 2 cut(s) 435, 616
TfiI GAWTC 1 cut(s) 860
Tru1I TTAA 5 cut(s) 33, 342, 384, 741, 806
Tru9I TTAA 5 cut(s) 33, 342, 384, 741, 806
TscAI CASTG 1 cut(s) 331
TseI GCWGC 3 cut(s) 230, 346, 1151
TspGWI ACGGA 1 cut(s) 507
TspRI CASTG 1 cut(s) 331
XagI CCTNNNNNAGG 1 cut(s) 408
XapI RAATTY 5 cut(s) 209, 266, 580, 593, 1192
XceI RCATGY 1 cut(s) 1225
XcmI CCANNNNNNNNNTGG 1 cut(s) 883
XmiI GTMKAC 2 cut(s) 400, 423
XspI CTAG 1 cut(s) 260
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.