Rroxscaffold_7G00180910

VHS domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0011482
Physical Location & Seq
Forward (+)
20232028 .. 20235250
3223 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00180910.1

Sequence Viewer

Length: 1248 bp
ATGAAAATGACAATCTGCATGGTTGTGAGTTTTTGTGCTGGTGGAGTTATGGACAAGTTTAATTTCGCTCAGTTGGGTAACTTGGGCGAGAAATTGGTGACGAGTGGAGCTCAAATGGGTCGGATGGTTAGTGGCAAAGTGAAGGAGATTCTGGCTACCCCGACTCCGGAATCGAGGATGATTGATGAGGCCACCTTGGAGACAATGGAGGAGCCCAATTGGGGCTTGAATTTGAGGATATGTGCTATGATTAACAGTGAGGAGTTTAGTGGGTCGGAAGTTGTGAGGGTTATAAAGAGGAAGATTTCGGGCAAGAATGTTGTGACACAGAGGCTGAGTCTTGACTTGTTGGAGGCGTGTACTATGAATTGCGAGAAGGTGTTCTCGGAGGTTGCGTCGGAGAAGGTGTTGGATGAGATGCTTAGGATGATTGATAATCCGCAGACTGATAGTGAAAATAGACGCAGGGCTATGCAGTTGATAAGGGCTTGGGGAGAGTCTCAGGATCTTGCATATCTACCTGTATTTCGTCAGACTTACATGATCTTGAGAGAAAAAGGAGCACATCCAGTAGCTCAAGGAGGGACTTCGCCCTCGTTGCAATCTACCTTGGAAGCATACATGGGAGAGCCTCTGCCTCCCCCAGAAAGATACCCTGTACCTGACACAGGATTTCATGATGCAAGTGACCGTGAATTTCGCTATAACTACCTGTCAGTTGAGGGAAAAAAAGAATATCTTGTTGTAACTCGCAATAGCCTGGAGCTGCTGTCTAGTATTTTGAATACTGAAACAGATCCAAAACCTTTGAAGGAAGAACTAACCATGAACATGCTGGAAAAGTGCAAGGAGTCTCAGCCTGTTATTCAGAGGATTATAGAAACTACTACTGATGATGAAGGGATGCTCTTTGAGGCACTATTTCTTCATGAAGAACTTCAACAAGTTATTTCCAAGTATCAGGAGTTGGAAGCTTCTCAAAACTCTGGAGACCAACAGCTCGAAAACCCGGATGCCGCCAGGCCTGAGGGGTCAGAAGCGGCTCAAAATGGAGAACTACCAGTAAGCTCTAAACCCCCTGAGCATGAGGATTTAGATAACAGCCAAAAACATGGTGGTAAACTGCCTGAATATTCCAATGATTCTGAAGTTGGCCCATCAGCTCCTCTGGGAATTCATAGTGAAACCAAAATAGCAGATCCTGTACAAGAAGGCACTCCGTCTATCAGTAAAAAAGTTGGTCATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0032182 GO:0043130 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
GAT VHS

Protein Analysis

415

Amino Acids

46.19

Weight (kDa)

4.83

Isoelectric Point (pI)

46.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VHS PF00790 58 - 167 4e-21 VHS domain
GAT PF03127 251 - 324 4e-16 GAT domain
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: OG0011482)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G06210 AT1G06210
fragaria_vesca FvH4_2g21370 FvH4_2g21370
malus_domestica MD05G1196400.v1.1
prunus_persica Prupe.8G222800_v2.0.a1
pyrus_communis pycom05g18340
rosa_chinensis RchiOBHm_Chr6g0287961
rosa_laevigata RLG00000012451
rosa_multiflora Rmu_sc0005266.1_g000005 Rmu_sc0005309.1_g000002
rosa_roxburghii Rroxscaffold_7G00180630 Rroxscaffold_7G00180910
rosa_rugosa Rorug06G0193700
rosa_samantha Rh6AG303000 Rh6BG309200 Rh6CG300500 Rh6CG316900 Rh6DG301700
rosa_wichuraiana Rw6G026200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 293
AccIII TCCGGA 1 cut(s) 166
AciI CCGC 3 cut(s) 440, 1017, 1040
AclWI GGATC 3 cut(s) 513, 791, 1193
AcsI RAATTY 3 cut(s) 229, 695, 1173
AcuI CTGAAG 1 cut(s) 1167
AfaI GTAC 3 cut(s) 361, 660, 1206
AfiI CCNNNNNNNGG 3 cut(s) 166, 221, 668
AgsI TTSAA 4 cut(s) 229, 784, 811, 941
AjnI CCWGG 2 cut(s) 759, 1019
AluBI AGCT 7 cut(s) 110, 575, 766, 974, 1000, 1068, 1163
AluI AGCT 7 cut(s) 110, 575, 766, 974, 1000, 1068, 1163
Alw21I GWGCWC 2 cut(s) 112, 565
Alw26I GTCTC 4 cut(s) 194, 504, 858, 984
AlwI GGATC 3 cut(s) 513, 791, 1193
AlwNI CAGNNNCTG 2 cut(s) 334, 1202
Aor13HI TCCGGA 1 cut(s) 166
AoxI GGCC 3 cut(s) 189, 1022, 1153
ApeKI GCWGC 1 cut(s) 766
ApoI RAATTY 3 cut(s) 229, 695, 1173
Asp700I GAANNNNTTC 2 cut(s) 380, 936
AspS9I GGNCC 1 cut(s) 1154
AsuC2I CCSGG 1 cut(s) 1010
AsuHPI GGTGA 1 cut(s) 109
AxyI CCTNAGG 1 cut(s) 1026
BanII GRGCYC 2 cut(s) 112, 216
Bbv12I GWGCWC 2 cut(s) 112, 565
BbvI GCAGC 1 cut(s) 753
BccI CCATC 2 cut(s) 118, 1165
BciT130I CCWGG 2 cut(s) 761, 1021
BcnI CCSGG 1 cut(s) 1010
BcoDI GTCTC 4 cut(s) 194, 504, 858, 984
BfaI CTAG 1 cut(s) 774
BisI GCNGC 3 cut(s) 767, 1017, 1041
BlsI GCNGC 3 cut(s) 768, 1018, 1042
Bme1390I CCNGG 3 cut(s) 761, 1010, 1021
BmgT120I GGNCC 1 cut(s) 1154
BmiI GGNNCC 1 cut(s) 213
BmrFI CCNGG 3 cut(s) 761, 1010, 1021
BmsI GCATC 4 cut(s) 408, 670, 894, 1003
BplI GAGNNNNNCTC 2 cut(s) 94, 126
BpmI CTGGAG 2 cut(s) 782, 1008
Bpu10I CCTNAGC 2 cut(s) 422, 1080
BpuEI CTTGAG 2 cut(s) 561, 568
BpuMI CCSGG 1 cut(s) 1010
BsaI GGTCTC 1 cut(s) 984
BsaJI CCNNGG 2 cut(s) 195, 609
BsaWI WCCGGW 1 cut(s) 166
BsaXI ACNNNNNCTCC 8 cut(s) 148, 178, 380, 392, 410, 422, 755, 785
Bsc4I CCNNNNNNNGG 3 cut(s) 166, 221, 668
Bse1I ACTGG 2 cut(s) 569, 1061
Bse21I CCTNAGG 1 cut(s) 1026
BseAI TCCGGA 1 cut(s) 166
BseBI CCWGG 2 cut(s) 761, 1021
BseDI CCNNGG 2 cut(s) 195, 609
BseGI GGATG 7 cut(s) 129, 183, 418, 432, 565, 909, 1018
BseLI CCNNNNNNNGG 3 cut(s) 166, 221, 668
BseMII CTCAG 6 cut(s) 83, 326, 515, 869, 1017, 1071
BseNI ACTGG 2 cut(s) 569, 1061
BseRI GAGGAG 3 cut(s) 224, 275, 1155
BseXI GCAGC 1 cut(s) 753
BshFI GGCC 3 cut(s) 191, 1024, 1155
BsiHKAI GWGCWC 2 cut(s) 112, 565
BsiSI CCGG 2 cut(s) 167, 1010
BslFI GGGAC 1 cut(s) 598
BslI CCNNNNNNNGG 3 cut(s) 166, 221, 668
BsmAI GTCTC 4 cut(s) 194, 504, 858, 984
BsmFI GGGAC 1 cut(s) 598
BsnI GGCC 3 cut(s) 191, 1024, 1155
Bso31I GGTCTC 1 cut(s) 984
Bsp1286I GDGCHC 3 cut(s) 112, 216, 565
Bsp13I TCCGGA 1 cut(s) 166
Bsp1407I TGTACA 1 cut(s) 1204
Bsp143I GATC 4 cut(s) 505, 543, 796, 1198
BspACI CCGC 3 cut(s) 440, 1017, 1040
BspANI GGCC 3 cut(s) 191, 1024, 1155
BspCNI CTCAG 6 cut(s) 82, 327, 514, 868, 1018, 1072
BspEI TCCGGA 1 cut(s) 166
BspHI TCATGA 2 cut(s) 676, 928
BspLI GGNNCC 1 cut(s) 213
BspPI GGATC 3 cut(s) 513, 791, 1193
BspTNI GGTCTC 1 cut(s) 984
BsrGI TGTACA 1 cut(s) 1204
BsrI ACTGG 2 cut(s) 569, 1061
BssECI CCNNGG 2 cut(s) 195, 609
BssMI GATC 4 cut(s) 505, 543, 796, 1198
BssT1I CCWWGG 2 cut(s) 195, 609
Bst2UI CCWGG 2 cut(s) 761, 1021
Bst4CI ACNGT 2 cut(s) 257, 692
BstAUI TGTACA 1 cut(s) 1204
BstDEI CTNAG 7 cut(s) 69, 335, 422, 501, 855, 1026, 1080
BstENI CCTNNNNNAGG 1 cut(s) 666
BstF5I GGATG 7 cut(s) 129, 183, 418, 432, 565, 909, 1018
BstKTI GATC 4 cut(s) 508, 546, 799, 1201
BstMAI GTCTC 4 cut(s) 194, 504, 858, 984
BstMBI GATC 4 cut(s) 505, 543, 796, 1198
BstMWI GCNNNNNNNGC 1 cut(s) 598
BstNI CCWGG 2 cut(s) 761, 1021
BstNSI RCATGY 1 cut(s) 835
BstSCI CCNGG 3 cut(s) 759, 1008, 1019
BstV1I GCAGC 1 cut(s) 753
BstX2I RGATCY 3 cut(s) 505, 796, 1198
BstXI CCANNNNNNTGG 1 cut(s) 1112
BstYI RGATCY 3 cut(s) 505, 796, 1198
Bsu36I CCTNAGG 1 cut(s) 1026
BsuRI GGCC 3 cut(s) 191, 1024, 1155
BtsCI GGATG 7 cut(s) 129, 183, 418, 432, 565, 909, 1018
BtsIMutI CAGTG 1 cut(s) 262
CaiI CAGNNNCTG 2 cut(s) 334, 1202
CciI TCATGA 2 cut(s) 676, 928
Cfr13I GGNCC 1 cut(s) 1154
CseI GACGC 2 cut(s) 384, 471
Csp6I GTAC 3 cut(s) 360, 659, 1205
CviAII CATG 9 cut(s) 19, 541, 622, 677, 826, 832, 929, 1085, 1112
CviQI GTAC 3 cut(s) 360, 659, 1205
DdeI CTNAG 7 cut(s) 69, 335, 422, 501, 855, 1026, 1080
DpnI GATC 4 cut(s) 507, 545, 798, 1200
DpnII GATC 4 cut(s) 505, 543, 796, 1198
Ecl136II GAGCTC 1 cut(s) 110
Eco130I CCWWGG 2 cut(s) 195, 609
Eco147I AGGCCT 1 cut(s) 1024
Eco24I GRGCYC 2 cut(s) 112, 216
Eco31I GGTCTC 1 cut(s) 984
Eco53kI GAGCTC 1 cut(s) 110
Eco57I CTGAAG 1 cut(s) 1167
Eco81I CCTNAGG 1 cut(s) 1026
EcoICRI GAGCTC 1 cut(s) 110
EcoNI CCTNNNNNAGG 1 cut(s) 666
EcoRI GAATTC 1 cut(s) 1173
EcoRII CCWGG 2 cut(s) 759, 1019
EcoT14I CCWWGG 2 cut(s) 195, 609
EcoT38I GRGCYC 2 cut(s) 112, 216
ErhI CCWWGG 2 cut(s) 195, 609
FaeI CATG 9 cut(s) 22, 544, 625, 680, 829, 835, 932, 1088, 1115
FalI AAGNNNNNCTT 2 cut(s) 723, 755
FaqI GGGAC 1 cut(s) 598
FatI CATG 9 cut(s) 18, 540, 621, 676, 825, 831, 928, 1084, 1111
Fnu4HI GCNGC 3 cut(s) 767, 1017, 1041
FokI GGATG 7 cut(s) 136, 190, 425, 439, 552, 916, 1025
FriOI GRGCYC 2 cut(s) 112, 216
Fsp4HI GCNGC 3 cut(s) 767, 1017, 1041
FspBI CTAG 1 cut(s) 774
GluI GCNGC 3 cut(s) 767, 1017, 1041
GsuI CTGGAG 2 cut(s) 782, 1008
HaeIII GGCC 3 cut(s) 191, 1024, 1155
HapII CCGG 2 cut(s) 167, 1010
HgaI GACGC 2 cut(s) 384, 471
Hin1II CATG 9 cut(s) 22, 544, 625, 680, 829, 835, 932, 1088, 1115
HindIII AAGCTT 1 cut(s) 972
HinfI GANTC 7 cut(s) 148, 163, 170, 337, 497, 851, 1142
HpaII CCGG 2 cut(s) 167, 1010
HphI GGTGA 1 cut(s) 109
Hpy166II GTNNAC 2 cut(s) 360, 1121
Hpy188I TCNGA 8 cut(s) 123, 277, 388, 400, 534, 870, 1036, 1147
Hpy188III TCNNGA 8 cut(s) 167, 341, 503, 547, 677, 929, 962, 987
Hpy8I GTNNAC 2 cut(s) 360, 1121
Hpy99I CGWCG 1 cut(s) 400
HpyAV CCTTC 6 cut(s) 136, 370, 397, 805, 893, 1205
HpyCH4III ACNGT 2 cut(s) 257, 692
HpyCH4V TGCA 6 cut(s) 18, 475, 512, 601, 683, 846
HpyF10VI GCNNNNNNNGC 1 cut(s) 598
HpyF3I CTNAG 7 cut(s) 69, 335, 422, 501, 855, 1026, 1080
Hsp92II CATG 9 cut(s) 22, 544, 625, 680, 829, 835, 932, 1088, 1115
Kpn2I TCCGGA 1 cut(s) 166
Kzo9I GATC 4 cut(s) 505, 543, 796, 1198
LmnI GCTCC 5 cut(s) 107, 211, 560, 763, 1168
Lsp1109I GCAGC 1 cut(s) 753
LweI GCATC 4 cut(s) 408, 670, 894, 1003
MaeI CTAG 1 cut(s) 774
MaeIII GTNAC 5 cut(s) 77, 97, 322, 686, 745
MalI GATC 4 cut(s) 507, 545, 798, 1200
MboI GATC 4 cut(s) 505, 543, 796, 1198
MboII GAAGA 4 cut(s) 313, 827, 917, 944
MfeI CAATTG 1 cut(s) 217
MflI RGATCY 3 cut(s) 505, 796, 1198
MhlI GDGCHC 3 cut(s) 112, 216, 565
MluCI AATT 7 cut(s) 61, 92, 217, 229, 367, 695, 1173
MlyI GAGTC 4 cut(s) 157, 346, 506, 860
MmeI TCCRAC 6 cut(s) 101, 255, 330, 378, 390, 948
MroI TCCGGA 1 cut(s) 166
MroXI GAANNNNTTC 2 cut(s) 380, 936
MseI TTAA 2 cut(s) 60, 252
MslI CAYNNNNRTG 2 cut(s) 23, 830
MspI CCGG 2 cut(s) 167, 1010
MspR9I CCNGG 3 cut(s) 761, 1010, 1021
MunI CAATTG 1 cut(s) 217
MvaI CCWGG 2 cut(s) 761, 1021
MwoI GCNNNNNNNGC 1 cut(s) 598
NciI CCSGG 1 cut(s) 1010
NdeII GATC 4 cut(s) 505, 543, 796, 1198
NlaIII CATG 9 cut(s) 22, 544, 625, 680, 829, 835, 932, 1088, 1115
NlaIV GGNNCC 1 cut(s) 213
NmuCI GTSAC 3 cut(s) 97, 322, 686
NspI RCATGY 1 cut(s) 835
PagI TCATGA 2 cut(s) 676, 928
PceI AGGCCT 1 cut(s) 1024
PcsI WCGNNNNNNNCGW 1 cut(s) 392
PdmI GAANNNNTTC 2 cut(s) 380, 936
PfeI GAWTC 3 cut(s) 148, 170, 1142
PkrI GCNGC 3 cut(s) 768, 1018, 1042
PleI GAGTC 4 cut(s) 157, 345, 505, 859
PpsI GAGTC 4 cut(s) 157, 345, 505, 859
PsiI TTATAA 1 cut(s) 293
Psp124BI GAGCTC 1 cut(s) 112
Psp6I CCWGG 2 cut(s) 759, 1019
PspGI CCWGG 2 cut(s) 759, 1019
PspN4I GGNNCC 1 cut(s) 213
PspPI GGNCC 1 cut(s) 1154
PstNI CAGNNNCTG 2 cut(s) 334, 1202
PsuI RGATCY 3 cut(s) 505, 796, 1198
RsaI GTAC 3 cut(s) 361, 660, 1206
RsaNI GTAC 3 cut(s) 360, 659, 1205
RseI CAYNNNNRTG 2 cut(s) 23, 830
SacI GAGCTC 1 cut(s) 112
SaqAI TTAA 2 cut(s) 60, 252
SatI GCNGC 3 cut(s) 767, 1017, 1041
Sau3AI GATC 4 cut(s) 505, 543, 796, 1198
Sau96I GGNCC 1 cut(s) 1154
SchI GAGTC 4 cut(s) 157, 346, 506, 860
ScrFI CCNGG 3 cut(s) 761, 1010, 1021
SduI GDGCHC 3 cut(s) 112, 216, 565
SfaNI GCATC 4 cut(s) 408, 670, 894, 1003
SmiMI CAYNNNNRTG 2 cut(s) 23, 830
SmlI CTYRAG 2 cut(s) 547, 576
SmoI CTYRAG 2 cut(s) 547, 576
Sse9I AATT 7 cut(s) 61, 92, 217, 229, 367, 695, 1173
SseBI AGGCCT 1 cut(s) 1024
SsiI CCGC 3 cut(s) 440, 1017, 1040
SspI AATATT 1 cut(s) 1133
SspMI CTAG 1 cut(s) 774
SstI GAGCTC 1 cut(s) 112
StuI AGGCCT 1 cut(s) 1024
StyD4I CCNGG 3 cut(s) 759, 1008, 1019
StyI CCWWGG 2 cut(s) 195, 609
TaaI ACNGT 2 cut(s) 257, 692
TaqI TCGA 2 cut(s) 173, 1002
TasI AATT 7 cut(s) 61, 92, 217, 229, 367, 695, 1173
TatI WGTACW 2 cut(s) 359, 1204
TauI GCSGC 2 cut(s) 1019, 1043
TfiI GAWTC 3 cut(s) 148, 170, 1142
Tru1I TTAA 2 cut(s) 60, 252
Tru9I TTAA 2 cut(s) 60, 252
TscAI CASTG 1 cut(s) 262
TseFI GTSAC 3 cut(s) 97, 322, 686
TseI GCWGC 1 cut(s) 766
Tsp45I GTSAC 3 cut(s) 97, 322, 686
TspDTI ATGAA 8 cut(s) 17, 380, 665, 842, 912, 917, 945, 1166
TspGWI ACGGA 1 cut(s) 1209
TspRI CASTG 1 cut(s) 262
XagI CCTNNNNNAGG 1 cut(s) 666
XapI RAATTY 3 cut(s) 229, 695, 1173
XceI RCATGY 1 cut(s) 835
XcmI CCANNNNNNNNNTGG 2 cut(s) 832, 1112
XmnI GAANNNNTTC 2 cut(s) 380, 936
XspI CTAG 1 cut(s) 774
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.