Rroxscaffold_6G00416670

Starch binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0002509
Physical Location & Seq
Forward (+)
38610366 .. 38613746
3381 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00416670.1

Sequence Viewer

Length: 1521 bp
ATGAAAACGTTGGCGAGTCCCAGTTCGAGGGTGGTCTTGGAAATTTACAGGGACCGAGAGGCTGGCTTGGTGAACAGGGTTGAAGAAGCTTCTTGCTTTTTCAGGCCTCACAAGAAAAATGGAGACTTTCGGTTCTTGAATTTGGTGGCGTTTCTGCAACAGAGAAAGCCCATCAAACCTGTTGTTTGTCTTTCATCGAAAACCCAGGCAGAATTGGAGACTAGTCAGACTACAGATGCTCAGATTCAAGAAACATATCCAACAAAAACTATGCATGTCAAGTTCCAGTTGCAGAAAGAGTGCTCCTTTGGTCAGCATTTCCTCATAGTAGGGGATGATCCTATGTTGGGTTTATGGGACCCTGAGAGAGCAATACAGATGGACTGGTCTGATGGGAATGTGTGGTCTGTTGAGCTGGATATACCTGTTGGAAAATCAATCCAGTTCAAATTCATACTAAAAGGAAGCGCAGGGAACATCTTGTGGCAACCTGGCCCAGATCGAATTTTCCAAACCTGGGAAACTGAGAACACAATCACTGTTTCTGAAGATTGGGGAGATGCTGAACTTCAGAAAATAACAGAGGAAGCACAAGTTTATAATCAAATTGAGGATTCTAATATCAACTCAGATATATTGATTCCAGAGGCTGACAACTTGACTTTTCCAAAAGAGGAGCCAGTGTTTAATATAAATATGGAGTCGGCCATTGTTGATAGTTACACTGATCCAGCACAGATACCGCTAGGAGAACCATATCAGGAACAAATTGTTGCGGATAACATATCTGTCTCACAAGAGAAGCCCAAAACTGTTGTTGCTGAGAATATAACACCAAAATGGCCAAAGCAAATGATGGAACCATACGAGGAACAAATGGTTGCAAGAACTAATGCCCCGAGTGAGGATTCTGCAGCCATCCCAAACGAGATGATGGTGGCACAGAACATTTTTGGAAATAATGGCAGAGCTGCAACAGCAAGGAACCTCGCAAGCTCAAACACTGAGGAAAGCCTAATGAACTATGAGGAAGGAGGACCTGTTCTGGTACCTGGCTTGAGTCGTGCACCAGCTGTTCCAACTGAAGAAGCAAACAAAGAGGAAGTTGAGAAACCAATGACCTTTGATGGCTCGGTTGGAGCTTATGAAGCTAAGGAACTGAATATGCCAGAGCTAGAAGAGAAGCAAGAACCATACAGGGAATCACCTCAAGCTGAAACAATTGAGATGTTCAATGATAATATAGAGAAATTTGATGAAGAACCTGAGCAAAAGTCTCAACCAGCTGAAAGGGAAAATCAGTCCAAGCCTGACCTACCCTATGGCTCACCTCAAACAGAAACAACTGACATGTTCAACAATAATGAAGTGAGTTTTGATGGTGGACTCAAGCAGAAGCTTCAAACTGCTGAAACTGCAGAACAGCCAGCTTCAGAGCAAATCCATGATGTCTGGCACAGTGACATGCAATGGGGTCGTAAAATACTGCAGAAACTTCTGATTGCTTTCAGATTGCCTTAG
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
CBM_20

Protein Analysis

506

Amino Acids

57.24

Weight (kDa)

4.5

Isoelectric Point (pI)

57.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBM_20 PF00686 91 - 179 5e-21 Starch binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 600
Acc65I GGTACC 1 cut(s) 1048
AccB1I GGYRCC 1 cut(s) 1048
AciI CCGC 2 cut(s) 743, 776
AclI AACGTT 1 cut(s) 8
AclWI GGATC 2 cut(s) 332, 722
AcoI YGGCCR 2 cut(s) 705, 842
AcsI RAATTY 5 cut(s) 42, 139, 449, 504, 1250
AcuI CTGAAG 4 cut(s) 554, 567, 1104, 1416
AfaI GTAC 1 cut(s) 1050
AfiI CCNNNNNNNGG 4 cut(s) 27, 347, 517, 904
AflIII ACRYGT 1 cut(s) 1350
AgsI TTSAA 7 cut(s) 83, 139, 248, 448, 1234, 1357, 1403
AhlI ACTAGT 1 cut(s) 221
AjnI CCWGG 4 cut(s) 204, 490, 515, 1051
AloI GAACNNNNNNTCC 2 cut(s) 1026, 1058
Alw21I GWGCWC 2 cut(s) 305, 1069
Alw26I GTCTC 4 cut(s) 117, 212, 796, 1281
Alw44I GTGCAC 1 cut(s) 1065
AlwI GGATC 2 cut(s) 332, 722
AlwNI CAGNNNCTG 1 cut(s) 650
Ama87I CYCGRG 1 cut(s) 898
AoxI GGCC 4 cut(s) 104, 493, 705, 842
ApaLI GTGCAC 1 cut(s) 1065
ApeKI GCWGC 2 cut(s) 914, 971
ApoI RAATTY 5 cut(s) 42, 139, 449, 504, 1250
Asp718I GGTACC 1 cut(s) 1048
AspLEI GCGC 1 cut(s) 470
AspS9I GGNCC 4 cut(s) 52, 358, 494, 1037
AsuHPI GGTGA 3 cut(s) 82, 1197, 1320
AvaI CYCGRG 1 cut(s) 898
AvaII GGWCC 3 cut(s) 52, 358, 1037
BaeGI GKGCMC 1 cut(s) 1069
BalI TGGCCA 1 cut(s) 844
BanI GGYRCC 1 cut(s) 1048
Bbv12I GWGCWC 2 cut(s) 305, 1069
BbvI GCAGC 2 cut(s) 926, 958
BccI CCATC 8 cut(s) 179, 373, 386, 850, 926, 928, 1121, 1373
BcgI CGANNNNNNTGC 2 cut(s) 1457, 1491
BciT130I CCWGG 4 cut(s) 206, 492, 517, 1053
BcoDI GTCTC 4 cut(s) 117, 212, 796, 1281
BcuI ACTAGT 1 cut(s) 221
BfaI CTAG 3 cut(s) 222, 746, 1175
BfmI CTRYAG 4 cut(s) 231, 912, 1416, 1487
BisI GCNGC 2 cut(s) 915, 972
BlsI GCNGC 2 cut(s) 916, 973
Bme1390I CCNGG 4 cut(s) 206, 492, 517, 1053
Bme18I GGWCC 3 cut(s) 52, 358, 1037
BmeT110I CYCGRG 1 cut(s) 898
BmgT120I GGNCC 4 cut(s) 52, 358, 494, 1037
BmiI GGNNCC 7 cut(s) 53, 359, 360, 678, 861, 986, 1050
BmrFI CCNGG 4 cut(s) 206, 492, 517, 1053
BmrI ACTGGG 1 cut(s) 15
BmsI GCATC 2 cut(s) 226, 550
BmuI ACTGGG 1 cut(s) 15
Bpu10I CCTNAGC 2 cut(s) 1152, 1266
BpuEI CTTGAG 3 cut(s) 1078, 1194, 1373
BsaJI CCNNGG 2 cut(s) 204, 516
BsaXI ACNNNNNCTCC 4 cut(s) 668, 698, 1026, 1056
Bsc4I CCNNNNNNNGG 4 cut(s) 27, 347, 517, 904
Bse1I ACTGG 5 cut(s) 21, 286, 389, 442, 680
Bse3DI GCAATG 1 cut(s) 1475
BseBI CCWGG 4 cut(s) 206, 492, 517, 1053
BseDI CCNNGG 2 cut(s) 204, 516
BseGI GGATG 2 cut(s) 340, 918
BseLI CCNNNNNNNGG 4 cut(s) 27, 347, 517, 904
BseMI GCAATG 1 cut(s) 1475
BseMII CTCAG 7 cut(s) 254, 354, 516, 642, 813, 996, 1257
BseNI ACTGG 5 cut(s) 21, 286, 389, 442, 680
BseRI GAGGAG 1 cut(s) 689
BseSI GKGCMC 1 cut(s) 1069
BseXI GCAGC 2 cut(s) 926, 958
BshFI GGCC 4 cut(s) 106, 495, 707, 844
BshNI GGYRCC 1 cut(s) 1048
BsiHKAI GWGCWC 2 cut(s) 305, 1069
BsiHKCI CYCGRG 1 cut(s) 898
BslFI GGGAC 3 cut(s) 3, 65, 371
BslI CCNNNNNNNGG 4 cut(s) 27, 347, 517, 904
BsmAI GTCTC 4 cut(s) 117, 212, 796, 1281
BsmFI GGGAC 3 cut(s) 3, 65, 371
BsnI GGCC 4 cut(s) 106, 495, 707, 844
BsoBI CYCGRG 1 cut(s) 898
Bsp1286I GDGCHC 2 cut(s) 305, 1069
Bsp143I GATC 3 cut(s) 337, 499, 727
BspACI CCGC 2 cut(s) 743, 776
BspANI GGCC 4 cut(s) 106, 495, 707, 844
BspCNI CTCAG 7 cut(s) 253, 355, 517, 641, 814, 997, 1258
BspLI GGNNCC 7 cut(s) 53, 359, 360, 678, 861, 986, 1050
BspMAI CTGCAG 3 cut(s) 916, 1420, 1491
BspPI GGATC 2 cut(s) 332, 722
BspT107I GGYRCC 1 cut(s) 1048
BsrDI GCAATG 1 cut(s) 1475
BsrI ACTGG 5 cut(s) 21, 286, 389, 442, 680
BssECI CCNNGG 2 cut(s) 204, 516
BssMI GATC 3 cut(s) 337, 499, 727
Bst2UI CCWGG 4 cut(s) 206, 492, 517, 1053
Bst4CI ACNGT 3 cut(s) 541, 814, 1460
Bst6I CTCTTC 1 cut(s) 1173
BstC8I GCNNGC 3 cut(s) 64, 994, 1428
BstDEI CTNAG 9 cut(s) 240, 363, 525, 628, 822, 1005, 1152, 1266, 1518
BstF5I GGATG 2 cut(s) 340, 918
BstHHI GCGC 1 cut(s) 470
BstKTI GATC 3 cut(s) 340, 502, 730
BstMAI GTCTC 4 cut(s) 117, 212, 796, 1281
BstMBI GATC 3 cut(s) 337, 499, 727
BstMWI GCNNNNNNNGC 3 cut(s) 977, 1148, 1415
BstNI CCWGG 4 cut(s) 206, 492, 517, 1053
BstNSI RCATGY 3 cut(s) 278, 1354, 1468
BstSCI CCNGG 4 cut(s) 204, 490, 515, 1051
BstSFI CTRYAG 4 cut(s) 231, 912, 1416, 1487
BstSLI GKGCMC 1 cut(s) 1069
BstV1I GCAGC 2 cut(s) 926, 958
BsuRI GGCC 4 cut(s) 106, 495, 707, 844
BtsCI GGATG 2 cut(s) 340, 918
BtsIMutI CAGTG 5 cut(s) 537, 687, 723, 1002, 1465
Cac8I GCNNGC 3 cut(s) 64, 994, 1428
CaiI CAGNNNCTG 1 cut(s) 650
CfoI GCGC 1 cut(s) 470
Cfr13I GGNCC 4 cut(s) 52, 358, 494, 1037
Csp6I GTAC 1 cut(s) 1049
CviAII CATG 4 cut(s) 275, 1351, 1445, 1465
CviQI GTAC 1 cut(s) 1049
DdeI CTNAG 9 cut(s) 240, 363, 525, 628, 822, 1005, 1152, 1266, 1518
DpnI GATC 3 cut(s) 339, 501, 729
DpnII GATC 3 cut(s) 337, 499, 727
EaeI YGGCCR 2 cut(s) 705, 842
Eam1104I CTCTTC 1 cut(s) 1173
EarI CTCTTC 1 cut(s) 1173
Eco147I AGGCCT 1 cut(s) 106
Eco47I GGWCC 3 cut(s) 52, 358, 1037
Eco57I CTGAAG 4 cut(s) 554, 567, 1104, 1416
Eco88I CYCGRG 1 cut(s) 898
EcoO109I RGGNCCY 2 cut(s) 358, 1037
EcoRII CCWGG 4 cut(s) 204, 490, 515, 1051
EcoT22I ATGCAT 1 cut(s) 276
FaeI CATG 4 cut(s) 278, 1354, 1448, 1468
FaqI GGGAC 3 cut(s) 3, 65, 371
FatI CATG 4 cut(s) 274, 1350, 1444, 1464
Fnu4HI GCNGC 2 cut(s) 915, 972
FokI GGATG 2 cut(s) 347, 905
Fsp4HI GCNGC 2 cut(s) 915, 972
FspBI CTAG 3 cut(s) 222, 746, 1175
GlaI GCGC 1 cut(s) 469
GluI GCNGC 2 cut(s) 915, 972
HaeIII GGCC 4 cut(s) 106, 495, 707, 844
HhaI GCGC 1 cut(s) 470
Hin1II CATG 4 cut(s) 278, 1354, 1448, 1468
Hin6I GCGC 1 cut(s) 468
HinP1I GCGC 1 cut(s) 468
HindIII AAGCTT 2 cut(s) 87, 1397
HinfI GANTC 9 cut(s) 16, 244, 614, 640, 701, 908, 1060, 1202, 1386
HphI GGTGA 3 cut(s) 82, 1197, 1320
Hpy166II GTNNAC 3 cut(s) 73, 1067, 1385
Hpy188I TCNGA 9 cut(s) 228, 243, 391, 547, 573, 631, 1435, 1500, 1511
Hpy188III TCNNGA 4 cut(s) 136, 248, 644, 761
Hpy8I GTNNAC 3 cut(s) 73, 1067, 1385
HpyAV CCTTC 1 cut(s) 1025
HpyCH4III ACNGT 3 cut(s) 541, 814, 1460
HpyCH4IV ACGT 1 cut(s) 8
HpyF10VI GCNNNNNNNGC 3 cut(s) 977, 1148, 1415
HpyF3I CTNAG 9 cut(s) 240, 363, 525, 628, 822, 1005, 1152, 1266, 1518
HpySE526I ACGT 1 cut(s) 8
Hsp92II CATG 4 cut(s) 278, 1354, 1448, 1468
HspAI GCGC 1 cut(s) 468
KflI GGGWCCC 1 cut(s) 358
KpnI GGTACC 1 cut(s) 1052
Kzo9I GATC 3 cut(s) 337, 499, 727
LmnI GCTCC 3 cut(s) 308, 676, 1139
Lsp1109I GCAGC 2 cut(s) 926, 958
LweI GCATC 2 cut(s) 226, 550
MaeI CTAG 3 cut(s) 222, 746, 1175
MaeII ACGT 1 cut(s) 8
MaeIII GTNAC 2 cut(s) 719, 1460
MalI GATC 3 cut(s) 339, 501, 729
MboI GATC 3 cut(s) 337, 499, 727
MboII GAAGA 5 cut(s) 95, 560, 1097, 1190, 1271
MfeI CAATTG 1 cut(s) 1221
MhlI GDGCHC 2 cut(s) 305, 1069
MlsI TGGCCA 1 cut(s) 844
MluCI AATT 9 cut(s) 42, 139, 212, 449, 504, 606, 768, 1221, 1250
MluNI TGGCCA 1 cut(s) 844
MlyI GAGTC 4 cut(s) 25, 710, 1069, 1380
MmeI TCCRAC 4 cut(s) 284, 409, 1103, 1117
Mox20I TGGCCA 1 cut(s) 844
Mph1103I ATGCAT 1 cut(s) 276
MscI TGGCCA 1 cut(s) 844
MseI TTAA 1 cut(s) 687
MslI CAYNNNNRTG 1 cut(s) 838
Msp20I TGGCCA 1 cut(s) 844
MspA1I CMGCKG 2 cut(s) 1073, 1286
MspR9I CCNGG 4 cut(s) 206, 492, 517, 1053
MunI CAATTG 1 cut(s) 1221
MvaI CCWGG 4 cut(s) 206, 492, 517, 1053
MwoI GCNNNNNNNGC 3 cut(s) 977, 1148, 1415
NdeII GATC 3 cut(s) 337, 499, 727
NlaIII CATG 4 cut(s) 278, 1354, 1448, 1468
NlaIV GGNNCC 7 cut(s) 53, 359, 360, 678, 861, 986, 1050
NmuCI GTSAC 1 cut(s) 1460
NsiI ATGCAT 1 cut(s) 276
NspI RCATGY 3 cut(s) 278, 1354, 1468
PceI AGGCCT 1 cut(s) 106
PciI ACATGT 1 cut(s) 1350
PfeI GAWTC 5 cut(s) 244, 614, 640, 908, 1202
PkrI GCNGC 2 cut(s) 916, 973
PleI GAGTC 4 cut(s) 24, 709, 1068, 1380
PpsI GAGTC 4 cut(s) 24, 709, 1068, 1380
PpuMI RGGWCCY 2 cut(s) 358, 1037
PscI ACATGT 1 cut(s) 1350
PsiI TTATAA 1 cut(s) 600
Psp1406I AACGTT 1 cut(s) 8
Psp5II RGGWCCY 2 cut(s) 358, 1037
Psp6I CCWGG 4 cut(s) 204, 490, 515, 1051
PspGI CCWGG 4 cut(s) 204, 490, 515, 1051
PspN4I GGNNCC 7 cut(s) 53, 359, 360, 678, 861, 986, 1050
PspPI GGNCC 4 cut(s) 52, 358, 494, 1037
PspPPI RGGWCCY 2 cut(s) 358, 1037
PstI CTGCAG 3 cut(s) 916, 1420, 1491
PstNI CAGNNNCTG 1 cut(s) 650
PvuII CAGCTG 2 cut(s) 1073, 1286
RsaI GTAC 1 cut(s) 1050
RsaNI GTAC 1 cut(s) 1049
RseI CAYNNNNRTG 1 cut(s) 838
SaqAI TTAA 1 cut(s) 687
SatI GCNGC 2 cut(s) 915, 972
Sau3AI GATC 3 cut(s) 337, 499, 727
Sau96I GGNCC 4 cut(s) 52, 358, 494, 1037
SchI GAGTC 4 cut(s) 25, 710, 1069, 1380
ScrFI CCNGG 4 cut(s) 206, 492, 517, 1053
SduI GDGCHC 2 cut(s) 305, 1069
SfaNI GCATC 2 cut(s) 226, 550
SfcI CTRYAG 4 cut(s) 231, 912, 1416, 1487
SinI GGWCC 3 cut(s) 52, 358, 1037
SmiMI CAYNNNNRTG 1 cut(s) 838
SmlI CTYRAG 3 cut(s) 1057, 1209, 1388
SmoI CTYRAG 3 cut(s) 1057, 1209, 1388
SpeI ACTAGT 1 cut(s) 221
Sse9I AATT 9 cut(s) 42, 139, 212, 449, 504, 606, 768, 1221, 1250
SseBI AGGCCT 1 cut(s) 106
SsiI CCGC 2 cut(s) 743, 776
SspMI CTAG 3 cut(s) 222, 746, 1175
StuI AGGCCT 1 cut(s) 106
StyD4I CCNGG 4 cut(s) 204, 490, 515, 1051
TaaI ACNGT 3 cut(s) 541, 814, 1460
TaiI ACGT 1 cut(s) 11
TaqI TCGA 3 cut(s) 26, 197, 502
TaqII GACCGA 1 cut(s) 69
TasI AATT 9 cut(s) 42, 139, 212, 449, 504, 606, 768, 1221, 1250
TfiI GAWTC 5 cut(s) 244, 614, 640, 908, 1202
Tru1I TTAA 1 cut(s) 687
Tru9I TTAA 1 cut(s) 687
TscAI CASTG 5 cut(s) 544, 687, 730, 1009, 1465
TseFI GTSAC 1 cut(s) 1460
TseI GCWGC 2 cut(s) 914, 971
Tsp45I GTSAC 1 cut(s) 1460
TspDTI ATGAA 7 cut(s) 17, 183, 442, 1034, 1161, 1272, 1380
TspRI CASTG 5 cut(s) 544, 687, 730, 1009, 1465
VneI GTGCAC 1 cut(s) 1065
VpaK11BI GGWCC 3 cut(s) 52, 358, 1037
XapI RAATTY 5 cut(s) 42, 139, 449, 504, 1250
XceI RCATGY 3 cut(s) 278, 1354, 1468
XcmI CCANNNNNNNNNTGG 1 cut(s) 28
XspI CTAG 3 cut(s) 222, 746, 1175
Zsp2I ATGCAT 1 cut(s) 276
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.