Rorug04G0403800

DNA binding domain with preference for A/T rich regions

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0001372
Physical Location & Seq
Forward (+)
56823832 .. 56827147
3316 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0403800.1

Sequence Viewer

Length: 1299 bp
ATGGTTTCCATACGAAATCCGAAATGTCATAGCACCGTAAACATGCTAGTTATGTGCTTATGTTTATTTACACTTCTTGATACAACGTTTGCAATTTGGCTCAATCACGGAGGTGACAATAGTAACAGAAGGTATGCTAATGGGGAATTGCTCATCACCCCAAGGACGGTGTTAAAAATGCAACAAAAATGGTCATTTTTCGCCGGTAAAGACATAACTGCAACCCCTGCAGTGGCCGATGGAAGGGTCTATTTCCCATCATGGAATGGATTTCTGTACGCAGTGAATGCATTTACCGGCGCTTTGATATGGAAGCAGAATCTTAGTCAGTTAACTGGACTAAATGGCACAGGAGTCGTTGTGAATGTGACTGTGTCGAGATCAACGCCAACAATAGCTGGTAACCTCTTGATCGTTGGTATTTATGGACCTGCTGTTGTGATTGCTGTGGAGCGATCGAACGGGAGGCTTGTCTGGTCAACTCAACTAGACCCACGCCCTCGAACTATGATCACGATGTCTGGCACCGTACTCCTAGGGTCATTTTATGTAGGGGTGTCATCTCTGGAAGAAGGCTTACCAGCTTCTCAGTGTTGCAGTTTCCGTGGCAGTGTAGCAAAGCTAGATGTTAGAACTGGTGCAGTCTTATGGCGGACTTATATGCTACCGGACAACGGTGGTAGATTGAACGGTTATTCGGGAGCTGCAGTATGGGGAAGCAGCCCTGCCATTGATGTATTGCGGAGACATGTCTATGTAGCAACTGGGAACCTCTACACAGCTCCACCTGAGGTGCTTCAATGTCAAGAGAAACAGAATAACCAGACAGGAACGCCTACACAGCCTGACCAGTGCACCGGTCCAGATATCCACTTCAATTCAATTATAGCATTGGATCTTGTTACCGGGAGGATTGTATGGTCTAGGCAGCTAGGTGGTTACGACATTTTCTACTTCGCTTGTTTGATACCGAACAACCCCGACTGCCCACCAGGACCTAATGATGATGCCGACTTTGGAGAGGCACCAATGCTGCTTACCATACACCCTAATGGAACAAGACGTGACGTCGTGGTGGCCGTGCAGAAGAGTGGGTTTGCTTGGGCTCTAGACCGTGACAATGGAAACATTGTATGGTTCAAGTTGGCTGGACCAGGTAGCAATGAAGGAGGAGGGATATGGGGTGCAGCCACAGATGGGAGAAGGGTGTACACAAACATCGCCAACGGCCAACAACAGATGTTCCCCCCTAGCACCATCAAACCTAACAACAACGGCTGGAGCATGGGTGGCTCTTGA
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
No domains found.

Protein Analysis

432

Amino Acids

46.75

Weight (kDa)

8.69

Isoelectric Point (pI)

32.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PQQ PF01011 33 - 379 9.4e-19 Glucose/ethanol/alcohol dehydrogenase, beta-propeller domain
PQQ_2 PF13360 64 - 308 5.1e-16 Outer membrane protein assembly factor BamB
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 1071
Acc36I ACCTGC 1 cut(s) 439
AccB1I GGYRCC 2 cut(s) 524, 1024
AciI CCGC 2 cut(s) 652, 742
AclI AACGTT 1 cut(s) 86
AclWI GGATC 1 cut(s) 903
AcoI YGGCCR 3 cut(s) 234, 1077, 1228
AcyI GRCGYC 1 cut(s) 1068
AfaI GTAC 3 cut(s) 278, 531, 1211
AfiI CCNNNNNNNGG 5 cut(s) 166, 232, 243, 674, 1197
AflIII ACRYGT 1 cut(s) 748
AgeI ACCGGT 1 cut(s) 857
AgsI TTSAA 5 cut(s) 688, 800, 877, 882, 1141
AhdI GACNNNNNGTC 1 cut(s) 1067
AjiI CACGTC 1 cut(s) 1064
AjnI CCWGG 2 cut(s) 991, 1153
AleI CACNNNNGTG 1 cut(s) 111
AluBI AGCT 6 cut(s) 398, 584, 622, 704, 782, 931
AluI AGCT 6 cut(s) 398, 584, 622, 704, 782, 931
Alw21I GWGCWC 1 cut(s) 857
Alw26I GTCTC 1 cut(s) 739
Alw44I GTGCAC 1 cut(s) 853
AlwI GGATC 1 cut(s) 903
AoxI GGCC 3 cut(s) 234, 1077, 1228
ApaLI GTGCAC 1 cut(s) 853
ApeKI GCWGC 5 cut(s) 704, 720, 928, 1033, 1187
AsiGI ACCGGT 1 cut(s) 857
AspA2I CCTAGG 1 cut(s) 535
AspLEI GCGC 1 cut(s) 302
AspS9I GGNCC 4 cut(s) 428, 860, 995, 1151
AsuC2I CCSGG 1 cut(s) 907
AsuHPI GGTGA 2 cut(s) 125, 148
AvaII GGWCC 4 cut(s) 428, 860, 995, 1151
AvrII CCTAGG 1 cut(s) 535
AxyI CCTNAGG 1 cut(s) 789
BaeGI GKGCMC 1 cut(s) 857
BanI GGYRCC 2 cut(s) 524, 1024
BanII GRGCYC 1 cut(s) 1108
BarI GAAGNNNNNNTAC 2 cut(s) 561, 593
Bbv12I GWGCWC 1 cut(s) 857
BbvI GCAGC 5 cut(s) 691, 732, 940, 1020, 1199
BccI CCATC 4 cut(s) 233, 265, 1190, 1265
BceAI ACGGC 3 cut(s) 1064, 1243, 1291
BcgI CGANNNNNNTGC 2 cut(s) 337, 371
BciT130I CCWGG 2 cut(s) 993, 1155
BclI TGATCA 1 cut(s) 510
BcnI CCSGG 1 cut(s) 907
BcoDI GTCTC 1 cut(s) 739
BfaI CTAG 8 cut(s) 47, 488, 536, 623, 924, 932, 1109, 1251
BfmI CTRYAG 2 cut(s) 228, 705
BfoI RGCGCY 1 cut(s) 303
BfuAI ACCTGC 1 cut(s) 439
BisI GCNGC 5 cut(s) 705, 721, 929, 1034, 1188
BlnI CCTAGG 1 cut(s) 535
BlsI GCNGC 5 cut(s) 706, 722, 930, 1035, 1189
Bme1390I CCNGG 3 cut(s) 907, 993, 1155
Bme18I GGWCC 4 cut(s) 428, 860, 995, 1151
BmeRI GACNNNNNGTC 1 cut(s) 1067
BmgBI CACGTC 1 cut(s) 1064
BmgT120I GGNCC 4 cut(s) 428, 860, 995, 1151
BmiI GGNNCC 3 cut(s) 526, 770, 1026
BmrFI CCNGG 3 cut(s) 907, 993, 1155
BmrI ACTGGG 1 cut(s) 774
BmsI GCATC 1 cut(s) 997
BmuI ACTGGG 1 cut(s) 774
BpuMI CCSGG 1 cut(s) 907
BsaHI GRCGYC 1 cut(s) 1068
BsaJI CCNNGG 3 cut(s) 161, 535, 604
BsaWI WCCGGW 2 cut(s) 667, 857
BsaXI ACNNNNNCTCC 5 cut(s) 345, 375, 693, 723, 1273
Bsc4I CCNNNNNNNGG 5 cut(s) 166, 232, 243, 674, 1197
Bse118I RCCGGY 3 cut(s) 203, 296, 857
Bse1I ACTGG 4 cut(s) 340, 640, 769, 850
Bse21I CCTNAGG 1 cut(s) 789
Bse3DI GCAATG 1 cut(s) 1168
BseBI CCWGG 2 cut(s) 993, 1155
BseDI CCNNGG 3 cut(s) 161, 535, 604
BseLI CCNNNNNNNGG 5 cut(s) 166, 232, 243, 674, 1197
BseMI GCAATG 1 cut(s) 1168
BseMII CTCAG 2 cut(s) 602, 780
BseNI ACTGG 4 cut(s) 340, 640, 769, 850
BseRI GAGGAG 1 cut(s) 1185
BseSI GKGCMC 1 cut(s) 857
BseXI GCAGC 5 cut(s) 691, 732, 940, 1020, 1199
BsgI GTGCAG 3 cut(s) 660, 1103, 1206
Bsh1285I CGRYCG 1 cut(s) 458
BshFI GGCC 3 cut(s) 236, 1079, 1230
BshNI GGYRCC 2 cut(s) 524, 1024
BshTI ACCGGT 1 cut(s) 857
BsiEI CGRYCG 1 cut(s) 458
BsiHKAI GWGCWC 1 cut(s) 857
BsiSI CCGG 5 cut(s) 204, 297, 668, 858, 906
BslI CCNNNNNNNGG 5 cut(s) 166, 232, 243, 674, 1197
BsmAI GTCTC 1 cut(s) 739
BsmI GAATGC 1 cut(s) 292
BsnI GGCC 3 cut(s) 236, 1079, 1230
Bsp1286I GDGCHC 2 cut(s) 857, 1108
Bsp1407I TGTACA 1 cut(s) 1209
Bsp143I GATC 5 cut(s) 380, 411, 455, 510, 895
BspACI CCGC 2 cut(s) 652, 742
BspANI GGCC 3 cut(s) 236, 1079, 1230
BspCNI CTCAG 2 cut(s) 601, 781
BspLI GGNNCC 3 cut(s) 526, 770, 1026
BspMAI CTGCAG 2 cut(s) 232, 709
BspMI ACCTGC 1 cut(s) 439
BspPI GGATC 1 cut(s) 903
BspT107I GGYRCC 2 cut(s) 524, 1024
BsrDI GCAATG 1 cut(s) 1168
BsrFI RCCGGY 3 cut(s) 203, 296, 857
BsrGI TGTACA 1 cut(s) 1209
BsrI ACTGG 4 cut(s) 340, 640, 769, 850
BssAI RCCGGY 3 cut(s) 203, 296, 857
BssECI CCNNGG 3 cut(s) 161, 535, 604
BssMI GATC 5 cut(s) 380, 411, 455, 510, 895
BssNI GRCGYC 1 cut(s) 1068
BssT1I CCWWGG 2 cut(s) 161, 535
Bst2UI CCWGG 2 cut(s) 993, 1155
Bst4CI ACNGT 7 cut(s) 37, 169, 373, 529, 677, 692, 1115
Bst6I CTCTTC 1 cut(s) 1082
BstACI GRCGYC 1 cut(s) 1068
BstAPI GCANNNNNTGC 2 cut(s) 227, 287
BstAUI TGTACA 1 cut(s) 1209
BstDEI CTNAG 3 cut(s) 323, 588, 789
BstDSI CCRYGG 1 cut(s) 604
BstEII GGTNACC 1 cut(s) 401
BstH2I RGCGCY 1 cut(s) 303
BstHHI GCGC 1 cut(s) 302
BstKTI GATC 5 cut(s) 383, 414, 458, 513, 898
BstMAI GTCTC 1 cut(s) 739
BstMBI GATC 5 cut(s) 380, 411, 455, 510, 895
BstMCI CGRYCG 1 cut(s) 458
BstMWI GCNNNNNNNGC 4 cut(s) 227, 287, 841, 1290
BstNI CCWGG 2 cut(s) 993, 1155
BstNSI RCATGY 2 cut(s) 46, 752
BstPI GGTNACC 1 cut(s) 401
BstSCI CCNGG 3 cut(s) 905, 991, 1153
BstSFI CTRYAG 2 cut(s) 228, 705
BstSLI GKGCMC 1 cut(s) 857
BstV1I GCAGC 5 cut(s) 691, 732, 940, 1020, 1199
BstX2I RGATCY 1 cut(s) 895
BstYI RGATCY 1 cut(s) 895
Bsu36I CCTNAGG 1 cut(s) 789
BsuRI GGCC 3 cut(s) 236, 1079, 1230
BtgI CCRYGG 1 cut(s) 604
BtgZI GCGATG 1 cut(s) 1204
BtrI CACGTC 1 cut(s) 1064
BtsI GCAGTG 3 cut(s) 237, 288, 616
BtsIMutI CAGTG 5 cut(s) 237, 288, 596, 616, 857
BveI ACCTGC 1 cut(s) 439
CfoI GCGC 1 cut(s) 302
Cfr10I RCCGGY 3 cut(s) 203, 296, 857
Cfr13I GGNCC 4 cut(s) 428, 860, 995, 1151
CsiI ACCWGGT 1 cut(s) 1153
Csp6I GTAC 3 cut(s) 277, 530, 1210
CspAI ACCGGT 1 cut(s) 857
CviAII CATG 4 cut(s) 43, 261, 749, 1285
CviQI GTAC 3 cut(s) 277, 530, 1210
DdeI CTNAG 3 cut(s) 323, 588, 789
DpnI GATC 5 cut(s) 382, 413, 457, 512, 897
DpnII GATC 5 cut(s) 380, 411, 455, 510, 895
DriI GACNNNNNGTC 1 cut(s) 1067
EaeI YGGCCR 3 cut(s) 234, 1077, 1228
Eam1104I CTCTTC 1 cut(s) 1082
Eam1105I GACNNNNNGTC 1 cut(s) 1067
EarI CTCTTC 1 cut(s) 1082
EciI GGCGGA 1 cut(s) 667
Eco130I CCWWGG 2 cut(s) 161, 535
Eco24I GRGCYC 1 cut(s) 1108
Eco32I GATATC 1 cut(s) 868
Eco47I GGWCC 4 cut(s) 428, 860, 995, 1151
Eco81I CCTNAGG 1 cut(s) 789
Eco91I GGTNACC 1 cut(s) 401
EcoO109I RGGNCCY 1 cut(s) 995
EcoO65I GGTNACC 1 cut(s) 401
EcoRII CCWGG 2 cut(s) 991, 1153
EcoRV GATATC 1 cut(s) 868
EcoT14I CCWWGG 2 cut(s) 161, 535
EcoT22I ATGCAT 1 cut(s) 292
EcoT38I GRGCYC 1 cut(s) 1108
ErhI CCWWGG 2 cut(s) 161, 535
FaeI CATG 4 cut(s) 46, 264, 752, 1288
FatI CATG 4 cut(s) 42, 260, 748, 1284
FbaI TGATCA 1 cut(s) 510
Fnu4HI GCNGC 5 cut(s) 705, 721, 929, 1034, 1188
FriOI GRGCYC 1 cut(s) 1108
Fsp4HI GCNGC 5 cut(s) 705, 721, 929, 1034, 1188
FspBI CTAG 8 cut(s) 47, 488, 536, 623, 924, 932, 1109, 1251
GlaI GCGC 1 cut(s) 301
GluI GCNGC 5 cut(s) 705, 721, 929, 1034, 1188
HaeII RGCGCY 1 cut(s) 303
HaeIII GGCC 3 cut(s) 236, 1079, 1230
HapII CCGG 5 cut(s) 204, 297, 668, 858, 906
HhaI GCGC 1 cut(s) 302
Hin1I GRCGYC 1 cut(s) 1068
Hin1II CATG 4 cut(s) 46, 264, 752, 1288
Hin6I GCGC 1 cut(s) 300
HinP1I GCGC 1 cut(s) 300
HincII GTYRAC 2 cut(s) 333, 480
HindII GTYRAC 2 cut(s) 333, 480
HinfI GANTC 2 cut(s) 319, 354
HpaI GTTAAC 1 cut(s) 333
HpaII CCGG 5 cut(s) 204, 297, 668, 858, 906
HphI GGTGA 2 cut(s) 125, 148
Hpy166II GTNNAC 6 cut(s) 40, 333, 480, 855, 1210, 1212
Hpy188I TCNGA 1 cut(s) 21
Hpy8I GTNNAC 6 cut(s) 40, 333, 480, 855, 1210, 1212
Hpy99I CGWCG 1 cut(s) 1073
HpyAV CCTTC 5 cut(s) 123, 237, 566, 1160, 1197
HpyCH4III ACNGT 7 cut(s) 37, 169, 373, 529, 677, 692, 1115
HpyCH4IV ACGT 3 cut(s) 86, 1063, 1068
HpyF10VI GCNNNNNNNGC 4 cut(s) 227, 287, 841, 1290
HpyF3I CTNAG 3 cut(s) 323, 588, 789
HpySE526I ACGT 3 cut(s) 86, 1063, 1068
Hsp92I GRCGYC 1 cut(s) 1068
Hsp92II CATG 4 cut(s) 46, 264, 752, 1288
HspAI GCGC 1 cut(s) 300
Ksp22I TGATCA 1 cut(s) 510
KspAI GTTAAC 1 cut(s) 333
Kzo9I GATC 5 cut(s) 380, 411, 455, 510, 895
LmnI GCTCC 4 cut(s) 451, 701, 787, 1281
Lsp1109I GCAGC 5 cut(s) 691, 732, 940, 1020, 1199
LweI GCATC 1 cut(s) 997
MabI ACCWGGT 1 cut(s) 1153
MaeI CTAG 8 cut(s) 47, 488, 536, 623, 924, 932, 1109, 1251
MaeII ACGT 3 cut(s) 86, 1063, 1068
MaeIII GTNAC 8 cut(s) 113, 122, 367, 401, 901, 938, 1064, 1115
MalI GATC 5 cut(s) 382, 413, 457, 512, 897
MboI GATC 5 cut(s) 380, 411, 455, 510, 895
MboII GAAGA 2 cut(s) 581, 1099
MflI RGATCY 1 cut(s) 895
MhlI GDGCHC 2 cut(s) 857, 1108
MluCI AATT 4 cut(s) 93, 146, 877, 882
MlyI GAGTC 1 cut(s) 363
Mph1103I ATGCAT 1 cut(s) 292
MseI TTAA 2 cut(s) 173, 332
MslI CAYNNNNRTG 3 cut(s) 111, 753, 1050
MspI CCGG 5 cut(s) 204, 297, 668, 858, 906
MspR9I CCNGG 3 cut(s) 907, 993, 1155
Mva1269I GAATGC 1 cut(s) 292
MvaI CCWGG 2 cut(s) 993, 1155
MwoI GCNNNNNNNGC 4 cut(s) 227, 287, 841, 1290
NciI CCSGG 1 cut(s) 907
NdeII GATC 5 cut(s) 380, 411, 455, 510, 895
NlaIII CATG 4 cut(s) 46, 264, 752, 1288
NlaIV GGNNCC 3 cut(s) 526, 770, 1026
NmuCI GTSAC 4 cut(s) 113, 367, 1064, 1115
NsiI ATGCAT 1 cut(s) 292
NspI RCATGY 2 cut(s) 46, 752
OliI CACNNNNGTG 1 cut(s) 111
PciI ACATGT 1 cut(s) 748
PcsI WCGNNNNNNNCGW 1 cut(s) 1077
PctI GAATGC 1 cut(s) 292
PfeI GAWTC 1 cut(s) 319
PflFI GACNNNGTC 1 cut(s) 373
PinAI ACCGGT 1 cut(s) 857
PkrI GCNGC 5 cut(s) 706, 722, 930, 1035, 1189
Ple19I CGATCG 1 cut(s) 458
PleI GAGTC 1 cut(s) 362
PpsI GAGTC 1 cut(s) 362
PpuMI RGGWCCY 1 cut(s) 995
PscI ACATGT 1 cut(s) 748
Psp1406I AACGTT 1 cut(s) 86
Psp5II RGGWCCY 1 cut(s) 995
Psp6I CCWGG 2 cut(s) 991, 1153
PspEI GGTNACC 1 cut(s) 401
PspGI CCWGG 2 cut(s) 991, 1153
PspN4I GGNNCC 3 cut(s) 526, 770, 1026
PspPI GGNCC 4 cut(s) 428, 860, 995, 1151
PspPPI RGGWCCY 1 cut(s) 995
PstI CTGCAG 2 cut(s) 232, 709
PsuI RGATCY 1 cut(s) 895
PsyI GACNNNGTC 1 cut(s) 373
PvuI CGATCG 1 cut(s) 458
RsaI GTAC 3 cut(s) 278, 531, 1211
RsaNI GTAC 3 cut(s) 277, 530, 1210
RseI CAYNNNNRTG 3 cut(s) 111, 753, 1050
SaqAI TTAA 2 cut(s) 173, 332
SatI GCNGC 5 cut(s) 705, 721, 929, 1034, 1188
Sau3AI GATC 5 cut(s) 380, 411, 455, 510, 895
Sau96I GGNCC 4 cut(s) 428, 860, 995, 1151
SchI GAGTC 1 cut(s) 363
ScrFI CCNGG 3 cut(s) 907, 993, 1155
SduI GDGCHC 2 cut(s) 857, 1108
SexAI ACCWGGT 1 cut(s) 1153
SfaNI GCATC 1 cut(s) 997
SfcI CTRYAG 2 cut(s) 228, 705
SinI GGWCC 4 cut(s) 428, 860, 995, 1151
SmiMI CAYNNNNRTG 3 cut(s) 111, 753, 1050
Sse9I AATT 4 cut(s) 93, 146, 877, 882
SsiI CCGC 2 cut(s) 652, 742
SspMI CTAG 8 cut(s) 47, 488, 536, 623, 924, 932, 1109, 1251
StyD4I CCNGG 3 cut(s) 905, 991, 1153
StyI CCWWGG 2 cut(s) 161, 535
TaaI ACNGT 7 cut(s) 37, 169, 373, 529, 677, 692, 1115
TaiI ACGT 3 cut(s) 89, 1066, 1071
TaqI TCGA 3 cut(s) 377, 458, 502
TasI AATT 4 cut(s) 93, 146, 877, 882
TatI WGTACW 1 cut(s) 1209
TfiI GAWTC 1 cut(s) 319
Tru1I TTAA 2 cut(s) 173, 332
Tru9I TTAA 2 cut(s) 173, 332
TscAI CASTG 5 cut(s) 237, 288, 596, 616, 857
TseFI GTSAC 4 cut(s) 113, 367, 1064, 1115
TseI GCWGC 5 cut(s) 704, 720, 928, 1033, 1187
Tsp45I GTSAC 4 cut(s) 113, 367, 1064, 1115
TspDTI ATGAA 1 cut(s) 1179
TspGWI ACGGA 2 cut(s) 123, 593
TspRI CASTG 5 cut(s) 237, 288, 596, 616, 857
Tth111I GACNNNGTC 1 cut(s) 373
VneI GTGCAC 1 cut(s) 853
VpaK11BI GGWCC 4 cut(s) 428, 860, 995, 1151
XbaI TCTAGA 1 cut(s) 1108
XceI RCATGY 2 cut(s) 46, 752
XmaJI CCTAGG 1 cut(s) 535
XspI CTAG 8 cut(s) 47, 488, 536, 623, 924, 932, 1109, 1251
ZraI GACGTC 1 cut(s) 1069
Zsp2I ATGCAT 1 cut(s) 292
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.