Rroxscaffold_5G00348230

Xylose isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0003254
Physical Location & Seq
Forward (+)
20249426 .. 20254892
5467 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00348230.1

Sequence Viewer

Length: 1197 bp
ATGAAGGATTGGTTGAGGTTTAGTGTTGCATTTTGGCACACATTCCGTGGAACAGGAGCTGACCCATTTGGTGCGCCTACAAAAAATTGGCCTTGGGAGGATGGAACTAACTCTGTTGCTATGGCCAAGAGAAGAATGAAAGCCAACTTTGAGTTCATAAATAAGCTTGGAGTCGATAGGTGGTGTTTCCATGACAGGGATATTGCTCCGGATGGCAAAACCTTGGAGGAAACTAATAAAAACTTGGATGAGGTGGTGGCCCTTGCCAAGGAGCTTCAGGGAACCAAAATTCGACCTTTGTGGGGCACAGCTCAGCTGTTTATGCATCCTCGCTACATGCACGGTGGTGCCACTAGCCCTGAACTAGGTGTATATGCATATGCTGCTGCTCAAGTTAAGAAAGCTATTGAGGTCACGCATTATTTAGGTGGTGAAAATTATGTGTTTTGGGGTGGCCGTGAGGGTTACCAGAGTCTCCTGAATACCGACATGGGACGAGAGCTTGATCATCTGGCAAGGTTTCTTGAAGCTGCTGTTGCTTACAAGAAGAAAATTGGATTCAATGGAACACTGTTGATTGAACCGAAGCCTCAAGAACCGACTAAACACCAGTATGACTGGGATGCTGCAACAACAGCAAATTTCCTGCGAAAATATGGCCTTATAGGAGAATTTAAACTTAACATTGAGTGCAACCATGCCACTCTATCTGGTCACAGCTGTCATCATGAGCTTGAAACTGCAAGACTCAATGGTTTACTGGGAAACATTGATGCAAACACTGGAGATCCTCAAATTGGATGGGATACAGATGAATTTCTCACAGACATTGCAGAGGCGACTCGAGTTATGCTTACTGTGGTAAAAAATGGAGGATTGGCACCAGGAGGCTTCAACTTTGATGCAAAATTACGGAGGGAAAGCACAGATGTCGAGGATTTGTTCATTGCTCATATCAGTGGAATGGATACCCTGGCCCGTGGACTCCGTAATGTCGCCAAGCTTATTGAGGACGGTTCTCTGGCTGAGCTTGTTCGCAAACGATATGAGAGTTTTGATACAGAGGTTGGGGCCCAGATAGAGGCTGGTAAGGGTGATTTTGAATATCTTGAGAAGAAGGCCATTGAATGGGGTGAACCAAAAGTTCCTTCTGCCAAGCAGGAACTTGCGGAGAGGCATTTCCAGTCTGCTTTGTAG

Protein Analysis

398

Amino Acids

44.64

Weight (kDa)

5.85

Isoelectric Point (pI)

42.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AP_endonuc_2 PF01261 81 - 240 2.6e-06 Xylose isomerase-like TIM barrel
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)
AccB1I GGYRCC 2 cut(s) 347, 880
AccB7I CCANNNNNTGG 1 cut(s) 1128
AccIII TCCGGA 1 cut(s) 208
AciI CCGC 1 cut(s) 1169
AclWI GGATC 1 cut(s) 782
AcoI YGGCCR 2 cut(s) 123, 454
AcsI RAATTY 4 cut(s) 288, 640, 671, 815
AcuI CTGAAG 1 cut(s) 260
AfiI CCNNNNNNNGG 7 cut(s) 196, 268, 302, 365, 797, 1081, 1128
AgsI TTSAA 7 cut(s) 527, 562, 581, 737, 895, 1103, 1127
AjnI CCWGG 2 cut(s) 883, 972
AjuI GAANNNNNNNTTGG 4 cut(s) 137, 169, 1132, 1164
AleI CACNNNNGTG 1 cut(s) 345
Alw26I GTCTC 1 cut(s) 479
AlwI GGATC 1 cut(s) 782
AlwNI CAGNNNCTG 1 cut(s) 59
Ama87I CYCGRG 1 cut(s) 843
Aor13HI TCCGGA 1 cut(s) 208
AoxI GGCC 8 cut(s) 89, 123, 258, 454, 658, 975, 1071, 1119
ApaI GGGCCC 1 cut(s) 1075
ApeKI GCWGC 4 cut(s) 383, 386, 530, 626
ApoI RAATTY 4 cut(s) 288, 640, 671, 815
AspLEI GCGC 1 cut(s) 76
AspS9I GGNCC 4 cut(s) 259, 976, 1071, 1072
AsuHPI GGTGA 3 cut(s) 443, 1106, 1145
AvaI CYCGRG 1 cut(s) 843
BaeGI GKGCMC 2 cut(s) 308, 1075
BaeI ACNNNNGTAYC 2 cut(s) 1050, 1083
BalI TGGCCA 1 cut(s) 125
BanI GGYRCC 2 cut(s) 347, 880
BanII GRGCYC 1 cut(s) 1075
BbvI GCAGC 4 cut(s) 370, 373, 517, 613
BccI CCATC 3 cut(s) 95, 206, 795
BceAI ACGGC 1 cut(s) 441
BcgI CGANNNNNNTGC 2 cut(s) 913, 947
BciT130I CCWGG 2 cut(s) 885, 974
BciVI GTATCC 2 cut(s) 799, 961
BclI TGATCA 1 cut(s) 505
BcoDI GTCTC 1 cut(s) 479
BfaI CTAG 2 cut(s) 354, 365
BfuI GTATCC 2 cut(s) 799, 961
BisI GCNGC 4 cut(s) 384, 387, 531, 627
BlpI GCTNAGC 2 cut(s) 312, 1026
BlsI GCNGC 4 cut(s) 385, 388, 532, 628
Bme1390I CCNGG 2 cut(s) 885, 974
BmeT110I CYCGRG 1 cut(s) 843
BmgT120I GGNCC 4 cut(s) 259, 976, 1071, 1072
BmiI GGNNCC 5 cut(s) 283, 349, 882, 1072, 1073
BmrFI CCNGG 2 cut(s) 885, 974
BmrI ACTGGG 2 cut(s) 628, 770
BmsI GCATC 4 cut(s) 334, 613, 763, 892
BmuI ACTGGG 2 cut(s) 628, 770
BpmI CTGGAG 1 cut(s) 804
Bpu1102I GCTNAGC 2 cut(s) 312, 1026
BpuEI CTTGAG 3 cut(s) 375, 576, 1130
BsaJI CCNNGG 6 cut(s) 46, 92, 222, 267, 972, 979
BsaWI WCCGGW 1 cut(s) 208
Bsc4I CCNNNNNNNGG 7 cut(s) 196, 268, 302, 365, 797, 1081, 1128
Bse1I ACTGG 5 cut(s) 610, 623, 765, 787, 1183
Bse3DI GCAATG 2 cut(s) 828, 945
BseAI TCCGGA 1 cut(s) 208
BseBI CCWGG 2 cut(s) 885, 974
BseDI CCNNGG 6 cut(s) 46, 92, 222, 267, 972, 979
BseGI GGATG 6 cut(s) 106, 217, 253, 325, 628, 806
BseLI CCNNNNNNNGG 7 cut(s) 196, 268, 302, 365, 797, 1081, 1128
BseMI GCAATG 2 cut(s) 828, 945
BseMII CTCAG 2 cut(s) 326, 1017
BseNI ACTGG 5 cut(s) 610, 623, 765, 787, 1183
BseSI GKGCMC 2 cut(s) 308, 1075
BseXI GCAGC 4 cut(s) 370, 373, 517, 613
BshFI GGCC 8 cut(s) 91, 125, 260, 456, 660, 977, 1073, 1121
BshNI GGYRCC 2 cut(s) 347, 880
BsiHKCI CYCGRG 1 cut(s) 843
BsiSI CCGG 1 cut(s) 209
BslFI GGGAC 1 cut(s) 507
BslI CCNNNNNNNGG 7 cut(s) 196, 268, 302, 365, 797, 1081, 1128
BsmAI GTCTC 1 cut(s) 479
BsmFI GGGAC 1 cut(s) 507
BsnI GGCC 8 cut(s) 91, 125, 260, 456, 660, 977, 1073, 1121
BsoBI CYCGRG 1 cut(s) 843
Bsp120I GGGCCC 1 cut(s) 1071
Bsp1286I GDGCHC 2 cut(s) 308, 1075
Bsp13I TCCGGA 1 cut(s) 208
Bsp143I GATC 2 cut(s) 505, 787
Bsp1720I GCTNAGC 2 cut(s) 312, 1026
BspACI CCGC 1 cut(s) 1169
BspANI GGCC 8 cut(s) 91, 125, 260, 456, 660, 977, 1073, 1121
BspCNI CTCAG 2 cut(s) 325, 1018
BspEI TCCGGA 1 cut(s) 208
BspHI TCATGA 1 cut(s) 727
BspLI GGNNCC 5 cut(s) 283, 349, 882, 1072, 1073
BspPI GGATC 1 cut(s) 782
BspT107I GGYRCC 2 cut(s) 347, 880
BsrDI GCAATG 2 cut(s) 828, 945
BsrI ACTGG 5 cut(s) 610, 623, 765, 787, 1183
BssECI CCNNGG 6 cut(s) 46, 92, 222, 267, 972, 979
BssMI GATC 2 cut(s) 505, 787
BssT1I CCWWGG 3 cut(s) 92, 222, 267
Bst2UI CCWGG 2 cut(s) 885, 974
Bst4CI ACNGT 4 cut(s) 344, 573, 859, 1016
BstAPI GCANNNNNTGC 1 cut(s) 383
BstDEI CTNAG 2 cut(s) 312, 1026
BstDSI CCRYGG 2 cut(s) 46, 979
BstEII GGTNACC 1 cut(s) 464
BstENI CCTNNNNNAGG 2 cut(s) 266, 363
BstF5I GGATG 6 cut(s) 106, 217, 253, 325, 628, 806
BstHHI GCGC 1 cut(s) 76
BstKTI GATC 2 cut(s) 508, 790
BstMAI GTCTC 1 cut(s) 479
BstMBI GATC 2 cut(s) 505, 787
BstMWI GCNNNNNNNGC 4 cut(s) 322, 383, 536, 635
BstNI CCWGG 2 cut(s) 885, 974
BstNSI RCATGY 1 cut(s) 340
BstPI GGTNACC 1 cut(s) 464
BstSCI CCNGG 2 cut(s) 883, 972
BstSLI GKGCMC 2 cut(s) 308, 1075
BstV1I GCAGC 4 cut(s) 370, 373, 517, 613
BstX2I RGATCY 1 cut(s) 787
BstYI RGATCY 1 cut(s) 787
BsuI GTATCC 2 cut(s) 799, 961
BsuRI GGCC 8 cut(s) 91, 125, 260, 456, 660, 977, 1073, 1121
BtgI CCRYGG 2 cut(s) 46, 979
BtsCI GGATG 6 cut(s) 106, 217, 253, 325, 628, 806
BtsIMutI CAGTG 3 cut(s) 569, 780, 964
CaiI CAGNNNCTG 1 cut(s) 59
CciI TCATGA 1 cut(s) 727
CfoI GCGC 1 cut(s) 76
Cfr13I GGNCC 4 cut(s) 259, 976, 1071, 1072
CviAII CATG 5 cut(s) 191, 337, 490, 698, 728
DdeI CTNAG 2 cut(s) 312, 1026
DpnI GATC 2 cut(s) 507, 789
DpnII GATC 2 cut(s) 505, 787
DraI TTTAAA 1 cut(s) 676
EaeI YGGCCR 2 cut(s) 123, 454
Eco130I CCWWGG 3 cut(s) 92, 222, 267
Eco24I GRGCYC 1 cut(s) 1075
Eco57I CTGAAG 1 cut(s) 260
Eco88I CYCGRG 1 cut(s) 843
Eco91I GGTNACC 1 cut(s) 464
EcoNI CCTNNNNNAGG 2 cut(s) 266, 363
EcoO109I RGGNCCY 1 cut(s) 1071
EcoO65I GGTNACC 1 cut(s) 464
EcoRII CCWGG 2 cut(s) 883, 972
EcoT14I CCWWGG 3 cut(s) 92, 222, 267
EcoT22I ATGCAT 2 cut(s) 327, 379
EcoT38I GRGCYC 1 cut(s) 1075
ErhI CCWWGG 3 cut(s) 92, 222, 267
FaeI CATG 5 cut(s) 194, 340, 493, 701, 731
FaqI GGGAC 1 cut(s) 507
FatI CATG 5 cut(s) 190, 336, 489, 697, 727
FauNDI CATATG 1 cut(s) 379
FbaI TGATCA 1 cut(s) 505
Fnu4HI GCNGC 4 cut(s) 384, 387, 531, 627
FokI GGATG 6 cut(s) 113, 224, 260, 312, 635, 813
FriOI GRGCYC 1 cut(s) 1075
Fsp4HI GCNGC 4 cut(s) 384, 387, 531, 627
FspBI CTAG 2 cut(s) 354, 365
GlaI GCGC 1 cut(s) 75
GluI GCNGC 4 cut(s) 384, 387, 531, 627
GsuI CTGGAG 1 cut(s) 804
HaeIII GGCC 8 cut(s) 91, 125, 260, 456, 660, 977, 1073, 1121
HapII CCGG 1 cut(s) 209
HhaI GCGC 1 cut(s) 76
Hin1II CATG 5 cut(s) 194, 340, 493, 701, 731
Hin6I GCGC 1 cut(s) 74
HinP1I GCGC 1 cut(s) 74
HindIII AAGCTT 2 cut(s) 164, 1001
HinfI GANTC 6 cut(s) 171, 472, 558, 747, 841, 984
HpaII CCGG 1 cut(s) 209
HphI GGTGA 3 cut(s) 443, 1106, 1145
Hpy166II GTNNAC 3 cut(s) 758, 983, 1136
Hpy188III TCNNGA 6 cut(s) 209, 478, 524, 593, 728, 1109
Hpy8I GTNNAC 3 cut(s) 758, 983, 1136
HpyAV CCTTC 2 cut(s) 1111, 1158
HpyCH4III ACNGT 4 cut(s) 344, 573, 859, 1016
HpyF10VI GCNNNNNNNGC 4 cut(s) 322, 383, 536, 635
HpyF3I CTNAG 2 cut(s) 312, 1026
Hsp92II CATG 5 cut(s) 194, 340, 493, 701, 731
HspAI GCGC 1 cut(s) 74
Kpn2I TCCGGA 1 cut(s) 208
Ksp22I TGATCA 1 cut(s) 505
Kzo9I GATC 2 cut(s) 505, 787
LmnI GCTCC 3 cut(s) 56, 211, 271
Lsp1109I GCAGC 4 cut(s) 370, 373, 517, 613
LweI GCATC 4 cut(s) 334, 613, 763, 892
MaeI CTAG 2 cut(s) 354, 365
MaeIII GTNAC 3 cut(s) 412, 464, 713
MalI GATC 2 cut(s) 507, 789
MboI GATC 2 cut(s) 505, 787
MboII GAAGA 3 cut(s) 144, 559, 1126
MflI RGATCY 1 cut(s) 787
MhlI GDGCHC 2 cut(s) 308, 1075
MlsI TGGCCA 1 cut(s) 125
MluCI AATT 9 cut(s) 85, 288, 436, 552, 640, 671, 795, 815, 908
MluNI TGGCCA 1 cut(s) 125
MlyI GAGTC 5 cut(s) 180, 481, 741, 835, 978
Mox20I TGGCCA 1 cut(s) 125
Mph1103I ATGCAT 2 cut(s) 327, 379
MroI TCCGGA 1 cut(s) 208
MscI TGGCCA 1 cut(s) 125
MseI TTAA 3 cut(s) 396, 675, 681
MslI CAYNNNNRTG 3 cut(s) 345, 612, 957
Msp20I TGGCCA 1 cut(s) 125
MspA1I CMGCKG 2 cut(s) 316, 720
MspI CCGG 1 cut(s) 209
MspR9I CCNGG 2 cut(s) 885, 974
MvaI CCWGG 2 cut(s) 885, 974
MwoI GCNNNNNNNGC 4 cut(s) 322, 383, 536, 635
NdeI CATATG 1 cut(s) 379
NdeII GATC 2 cut(s) 505, 787
NlaIII CATG 5 cut(s) 194, 340, 493, 701, 731
NlaIV GGNNCC 5 cut(s) 283, 349, 882, 1072, 1073
NmuCI GTSAC 2 cut(s) 412, 713
NsiI ATGCAT 2 cut(s) 327, 379
NspI RCATGY 1 cut(s) 340
OliI CACNNNNGTG 1 cut(s) 345
PaeR7I CTCGAG 1 cut(s) 843
PagI TCATGA 1 cut(s) 727
PfeI GAWTC 1 cut(s) 558
PflMI CCANNNNNTGG 1 cut(s) 1128
PkrI GCNGC 4 cut(s) 385, 388, 532, 628
PleI GAGTC 5 cut(s) 179, 480, 741, 835, 978
PpsI GAGTC 5 cut(s) 179, 480, 741, 835, 978
Psp6I CCWGG 2 cut(s) 883, 972
PspEI GGTNACC 1 cut(s) 464
PspGI CCWGG 2 cut(s) 883, 972
PspN4I GGNNCC 5 cut(s) 283, 349, 882, 1072, 1073
PspOMI GGGCCC 1 cut(s) 1071
PspPI GGNCC 4 cut(s) 259, 976, 1071, 1072
PspXI VCTCGAGB 1 cut(s) 843
PstNI CAGNNNCTG 1 cut(s) 59
PsuI RGATCY 1 cut(s) 787
PvuII CAGCTG 2 cut(s) 316, 720
RseI CAYNNNNRTG 3 cut(s) 345, 612, 957
SaqAI TTAA 3 cut(s) 396, 675, 681
SatI GCNGC 4 cut(s) 384, 387, 531, 627
Sau3AI GATC 2 cut(s) 505, 787
Sau96I GGNCC 4 cut(s) 259, 976, 1071, 1072
SchI GAGTC 5 cut(s) 180, 481, 741, 835, 978
ScrFI CCNGG 2 cut(s) 885, 974
SduI GDGCHC 2 cut(s) 308, 1075
SfaNI GCATC 4 cut(s) 334, 613, 763, 892
Sfr274I CTCGAG 1 cut(s) 843
SlaI CTCGAG 1 cut(s) 843
SmiMI CAYNNNNRTG 3 cut(s) 345, 612, 957
SmlI CTYRAG 4 cut(s) 390, 591, 843, 1109
SmoI CTYRAG 4 cut(s) 390, 591, 843, 1109
Sse9I AATT 9 cut(s) 85, 288, 436, 552, 640, 671, 795, 815, 908
SsiI CCGC 1 cut(s) 1169
SspMI CTAG 2 cut(s) 354, 365
StyD4I CCNGG 2 cut(s) 883, 972
StyI CCWWGG 3 cut(s) 92, 222, 267
TaaI ACNGT 4 cut(s) 344, 573, 859, 1016
TaqI TCGA 4 cut(s) 174, 292, 844, 933
TasI AATT 9 cut(s) 85, 288, 436, 552, 640, 671, 795, 815, 908
TfiI GAWTC 1 cut(s) 558
Tru1I TTAA 3 cut(s) 396, 675, 681
Tru9I TTAA 3 cut(s) 396, 675, 681
TscAI CASTG 3 cut(s) 576, 787, 964
TseFI GTSAC 2 cut(s) 412, 713
TseI GCWGC 4 cut(s) 383, 386, 530, 626
Tsp45I GTSAC 2 cut(s) 412, 713
TspDTI ATGAA 5 cut(s) 17, 145, 152, 828, 934
TspGWI ACGGA 3 cut(s) 35, 928, 977
TspRI CASTG 3 cut(s) 576, 787, 964
Van91I CCANNNNNTGG 1 cut(s) 1128
XagI CCTNNNNNAGG 2 cut(s) 266, 363
XapI RAATTY 4 cut(s) 288, 640, 671, 815
XceI RCATGY 1 cut(s) 340
XcmI CCANNNNNNNNNTGG 1 cut(s) 1082
XhoI CTCGAG 1 cut(s) 843
XspI CTAG 2 cut(s) 354, 365
Zsp2I ATGCAT 2 cut(s) 327, 379
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.