Rmu_sc0005305.1_g000003

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0005305.1
OG0008190
Physical Location & Seq
Reverse (-)
10721 .. 15135
4415 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1269 bp
atgaagtttgataccttactcgtagaatataatggccgaagttgccggaaaagcaagaaaacccgccagaagcaccgaagcttactggctttgattctttctcagaccttatcatctggacaaacatacaacatagctagatcggcgaggtcgagaggaagctgccgctaccggtccgtcgccgagaagtggccggaattagagactcagccggccaacaagaaaagctttagggcttcttcctaccaccgtcgccagtctttcggatgtgacgtctggaggtgcctggacggaggagaaaaggtcgggtcaccgccgctgcaaaacgactcgtcgacttgggtcggtaaaggaccaatcagcaccattttttcgctttccacaataacatggatttcgccaaagttgggtaccatgattcttctcctcttctccagccagacatttctggatgagcatatattcatccaagctactgcttcagaaaatacaacaggcctgcaactgcatatcttcaatcaatatgtggtcatggataatggcattctccaagtcaatctttcaaaaccagaggggatggttaccggaatacaatataaaggcatcgacaatctgcttgaagttcttgaagatgaaaccaatagagggtactgggatatggtttggtctgcaccgggaatttctagaaagaaaggcgcatttgataggatggaaggaacaaattttacggttatagtggaaactgaggatcagatagagctttcattcaccagaatgtgggatccctctttagagggcaaagtcgtccctttaaacatagacaaaaggttcgtgttgcttcgtaactcttcgggtttctacacttacgccatttatgaacacttgaaggagtggcctgctttcaacttgaccaacaccaggactataaacggcggagccccaaaacaaccaaatcttaaaacaaccaacgaggtgatgaagtttgataccttactcgtagaatataatggccgaagttgccggaaaagcaagaaaacccgccagaagcaccgaagcttactggctttgattctttctcataccttatcatctggacaaacatacaacatagctagatcggcgaggtcgagaggaagctgcagctaccggtccgtcgccgggaagtggccggaattagagactccgccggccaacaagaaaagctttagggcttcttcctaccaccgtctttcggagtatgagcgactgcgctctgcttcgcgcctctga
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-like Rhamnogal_lyase fn3_3

Protein Analysis

422

Amino Acids

48.0

Weight (kDa)

9.8

Isoelectric Point (pI)

48.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 160 - 309 9.7e-62 Rhamnogalacturonate lyase family
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)
AatII GACGTC 1 cut(s) 276
Acc65I GGTACC 1 cut(s) 410
AccB1I GGYRCC 2 cut(s) 282, 410
AccB7I CCANNNNNTGG 1 cut(s) 777
AccI GTMKAC 1 cut(s) 335
AccII CGCG 1 cut(s) 1261
AciI CCGC 7 cut(s) 64, 166, 314, 317, 933, 1039, 1184
AclWI GGATC 3 cut(s) 756, 776, 789
AcoI YGGCCR 6 cut(s) 34, 191, 213, 1009, 1166, 1188
AcsI RAATTY 2 cut(s) 678, 721
AcuI CTGAAG 1 cut(s) 465
AcyI GRCGYC 1 cut(s) 273
AfaI GTAC 2 cut(s) 412, 650
AfiI CCNNNNNNNGG 8 cut(s) 189, 407, 645, 777, 918, 1158, 1164, 1231
AgeI ACCGGT 2 cut(s) 171, 1146
AgsI TTSAA 6 cut(s) 517, 564, 620, 629, 886, 904
AjnI CCWGG 2 cut(s) 285, 917
Alw26I GTCTC 2 cut(s) 197, 1172
AlwI GGATC 3 cut(s) 756, 776, 789
AoxI GGCC 8 cut(s) 34, 191, 213, 496, 893, 1009, 1166, 1188
ApeKI GCWGC 4 cut(s) 162, 319, 1137, 1140
ApoI RAATTY 2 cut(s) 678, 721
ArsI GACNNNNNNTTYG 2 cut(s) 812, 844
AsiGI ACCGGT 2 cut(s) 171, 1146
Asp718I GGTACC 1 cut(s) 410
AspLEI GCGC 3 cut(s) 698, 1251, 1263
AspS9I GGNCC 3 cut(s) 174, 353, 1149
AsuC2I CCSGG 2 cut(s) 675, 1159
AsuHPI GGTGA 3 cut(s) 303, 760, 985
AvaII GGWCC 3 cut(s) 174, 353, 1149
BamHI GGATCC 1 cut(s) 781
BanI GGYRCC 2 cut(s) 282, 410
BanII GRGCYC 1 cut(s) 940
BbvI GCAGC 4 cut(s) 149, 306, 1124, 1152
BccI CCATC 2 cut(s) 571, 703
BceAI ACGGC 1 cut(s) 946
BciT130I CCWGG 2 cut(s) 287, 919
BcnI CCSGG 2 cut(s) 675, 1159
BcoDI GTCTC 2 cut(s) 197, 1172
BfaI CTAG 3 cut(s) 138, 684, 1113
BfmI CTRYAG 1 cut(s) 1138
BisI GCNGC 6 cut(s) 163, 166, 317, 320, 1138, 1141
BlsI GCNGC 6 cut(s) 164, 167, 318, 321, 1139, 1142
Bme1390I CCNGG 4 cut(s) 287, 675, 919, 1159
Bme18I GGWCC 3 cut(s) 174, 353, 1149
BmgT120I GGNCC 3 cut(s) 174, 353, 1149
BmiI GGNNCC 4 cut(s) 284, 412, 783, 937
BmrFI CCNGG 4 cut(s) 287, 675, 919, 1159
BmrI ACTGGG 1 cut(s) 661
BmsI GCATC 1 cut(s) 612
BmuI ACTGGG 1 cut(s) 661
BoxI GACNNNNGTC 1 cut(s) 341
BpmI CTGGAG 2 cut(s) 298, 418
BpuMI CCSGG 2 cut(s) 675, 1159
BsaHI GRCGYC 1 cut(s) 273
BsaWI WCCGGW 3 cut(s) 171, 584, 1146
BsaXI ACNNNNNCTCC 2 cut(s) 288, 318
Bsc4I CCNNNNNNNGG 8 cut(s) 189, 407, 645, 777, 918, 1158, 1164, 1231
Bse118I RCCGGY 4 cut(s) 171, 211, 1146, 1186
Bse1I ACTGG 4 cut(s) 90, 256, 656, 1065
BseBI CCWGG 2 cut(s) 287, 919
BseGI GGATG 5 cut(s) 272, 457, 465, 582, 714
BseLI CCNNNNNNNGG 8 cut(s) 189, 407, 645, 777, 918, 1158, 1164, 1231
BseMII CTCAG 3 cut(s) 116, 221, 735
BseNI ACTGG 4 cut(s) 90, 256, 656, 1065
BseRI GAGGAG 2 cut(s) 309, 416
BseXI GCAGC 4 cut(s) 149, 306, 1124, 1152
BsgI GTGCAG 1 cut(s) 654
Bsh1236I CGCG 1 cut(s) 1261
BshFI GGCC 8 cut(s) 36, 193, 215, 498, 895, 1011, 1168, 1190
BshNI GGYRCC 2 cut(s) 282, 410
BshTI ACCGGT 2 cut(s) 171, 1146
BslFI GGGAC 1 cut(s) 791
BslI CCNNNNNNNGG 8 cut(s) 189, 407, 645, 777, 918, 1158, 1164, 1231
BsmAI GTCTC 2 cut(s) 197, 1172
BsmFI GGGAC 1 cut(s) 791
BsmI GAATGC 1 cut(s) 543
BsnI GGCC 8 cut(s) 36, 193, 215, 498, 895, 1011, 1168, 1190
Bsp1286I GDGCHC 1 cut(s) 940
Bsp143I GATC 4 cut(s) 140, 748, 781, 1115
BspACI CCGC 7 cut(s) 64, 166, 314, 317, 933, 1039, 1184
BspANI GGCC 8 cut(s) 36, 193, 215, 498, 895, 1011, 1168, 1190
BspCNI CTCAG 3 cut(s) 115, 220, 736
BspFNI CGCG 1 cut(s) 1261
BspLI GGNNCC 4 cut(s) 284, 412, 783, 937
BspMAI CTGCAG 1 cut(s) 1142
BspPI GGATC 3 cut(s) 756, 776, 789
BspT107I GGYRCC 2 cut(s) 282, 410
BsrFI RCCGGY 4 cut(s) 171, 211, 1146, 1186
BsrI ACTGG 4 cut(s) 90, 256, 656, 1065
BssAI RCCGGY 4 cut(s) 171, 211, 1146, 1186
BssMI GATC 4 cut(s) 140, 748, 781, 1115
BssNI GRCGYC 1 cut(s) 273
Bst2UI CCWGG 2 cut(s) 287, 919
Bst4CI ACNGT 3 cut(s) 251, 730, 1226
Bst6I CTCTTC 2 cut(s) 434, 853
BstACI GRCGYC 1 cut(s) 273
BstC8I GCNNGC 4 cut(s) 213, 500, 897, 1188
BstDEI CTNAG 3 cut(s) 102, 207, 744
BstEII GGTNACC 2 cut(s) 309, 580
BstF5I GGATG 5 cut(s) 272, 457, 465, 582, 714
BstFNI CGCG 1 cut(s) 1261
BstHHI GCGC 3 cut(s) 698, 1251, 1263
BstKTI GATC 4 cut(s) 143, 751, 784, 1118
BstMAI GTCTC 2 cut(s) 197, 1172
BstMBI GATC 4 cut(s) 140, 748, 781, 1115
BstMWI GCNNNNNNNGC 6 cut(s) 42, 51, 143, 1017, 1026, 1118
BstNI CCWGG 2 cut(s) 287, 919
BstPAI GACNNNNGTC 1 cut(s) 341
BstPI GGTNACC 2 cut(s) 309, 580
BstSCI CCNGG 4 cut(s) 285, 673, 917, 1157
BstSFI CTRYAG 1 cut(s) 1138
BstUI CGCG 1 cut(s) 1261
BstV1I GCAGC 4 cut(s) 149, 306, 1124, 1152
BstX2I RGATCY 1 cut(s) 781
BstYI RGATCY 1 cut(s) 781
BsuRI GGCC 8 cut(s) 36, 193, 215, 498, 895, 1011, 1168, 1190
BtsCI GGATG 5 cut(s) 272, 457, 465, 582, 714
Cac8I GCNNGC 4 cut(s) 213, 500, 897, 1188
CfoI GCGC 3 cut(s) 698, 1251, 1263
Cfr10I RCCGGY 4 cut(s) 171, 211, 1146, 1186
Cfr13I GGNCC 3 cut(s) 174, 353, 1149
CpoI CGGWCCG 2 cut(s) 174, 1149
Csp6I GTAC 2 cut(s) 411, 649
CspAI ACCGGT 2 cut(s) 171, 1146
CspI CGGWCCG 2 cut(s) 174, 1149
CviAII CATG 3 cut(s) 390, 415, 532
CviQI GTAC 2 cut(s) 411, 649
DdeI CTNAG 3 cut(s) 102, 207, 744
DpnI GATC 4 cut(s) 142, 750, 783, 1117
DpnII GATC 4 cut(s) 140, 748, 781, 1115
DraI TTTAAA 1 cut(s) 813
EaeI YGGCCR 6 cut(s) 34, 191, 213, 1009, 1166, 1188
Eam1104I CTCTTC 2 cut(s) 434, 853
EarI CTCTTC 2 cut(s) 434, 853
EciI GGCGGA 2 cut(s) 948, 1173
Eco147I AGGCCT 1 cut(s) 498
Eco24I GRGCYC 1 cut(s) 940
Eco47I GGWCC 3 cut(s) 174, 353, 1149
Eco57I CTGAAG 1 cut(s) 465
Eco91I GGTNACC 2 cut(s) 309, 580
EcoO65I GGTNACC 2 cut(s) 309, 580
EcoRII CCWGG 2 cut(s) 285, 917
EcoT38I GRGCYC 1 cut(s) 940
FaeI CATG 3 cut(s) 393, 418, 535
FalI AAGNNNNNCTT 6 cut(s) 212, 244, 543, 575, 1187, 1219
FaqI GGGAC 1 cut(s) 791
FatI CATG 3 cut(s) 389, 414, 531
FauI CCCGC 2 cut(s) 71, 1046
FblI GTMKAC 1 cut(s) 335
Fnu4HI GCNGC 6 cut(s) 163, 166, 317, 320, 1138, 1141
FokI GGATG 5 cut(s) 279, 452, 464, 589, 721
FriOI GRGCYC 1 cut(s) 940
Fsp4HI GCNGC 6 cut(s) 163, 166, 317, 320, 1138, 1141
FspBI CTAG 3 cut(s) 138, 684, 1113
GlaI GCGC 3 cut(s) 697, 1250, 1262
GluI GCNGC 6 cut(s) 163, 166, 317, 320, 1138, 1141
GsuI CTGGAG 2 cut(s) 298, 418
HaeIII GGCC 8 cut(s) 36, 193, 215, 498, 895, 1011, 1168, 1190
HhaI GCGC 3 cut(s) 698, 1251, 1263
Hin1I GRCGYC 1 cut(s) 273
Hin1II CATG 3 cut(s) 393, 418, 535
Hin6I GCGC 3 cut(s) 696, 1249, 1261
HinP1I GCGC 3 cut(s) 696, 1249, 1261
HincII GTYRAC 1 cut(s) 336
HindII GTYRAC 1 cut(s) 336
HindIII AAGCTT 4 cut(s) 79, 226, 1054, 1201
HinfI GANTC 6 cut(s) 94, 205, 329, 418, 1069, 1180
HphI GGTGA 3 cut(s) 303, 760, 985
Hpy166II GTNNAC 1 cut(s) 336
Hpy188I TCNGA 6 cut(s) 105, 266, 484, 753, 1234, 1268
Hpy188III TCNNGA 8 cut(s) 117, 153, 277, 449, 626, 684, 1092, 1128
Hpy8I GTNNAC 1 cut(s) 336
Hpy99I CGWCG 4 cut(s) 182, 255, 337, 1157
HpyAV CCTTC 2 cut(s) 707, 880
HpyCH4III ACNGT 3 cut(s) 251, 730, 1226
HpyCH4IV ACGT 1 cut(s) 273
HpyCH4V TGCA 5 cut(s) 322, 502, 508, 671, 1140
HpyF10VI GCNNNNNNNGC 6 cut(s) 42, 51, 143, 1017, 1026, 1118
HpyF3I CTNAG 3 cut(s) 102, 207, 744
HpySE526I ACGT 1 cut(s) 273
Hsp92I GRCGYC 1 cut(s) 273
Hsp92II CATG 3 cut(s) 393, 418, 535
HspAI GCGC 3 cut(s) 696, 1249, 1261
KpnI GGTACC 1 cut(s) 414
KroI GCCGGC 2 cut(s) 211, 1186
KroNI GCCGGC 2 cut(s) 213, 1188
Kzo9I GATC 4 cut(s) 140, 748, 781, 1115
LmnI GCTCC 1 cut(s) 935
Lsp1109I GCAGC 4 cut(s) 149, 306, 1124, 1152
LweI GCATC 1 cut(s) 612
MaeI CTAG 3 cut(s) 138, 684, 1113
MaeII ACGT 1 cut(s) 273
MaeIII GTNAC 4 cut(s) 269, 309, 580, 842
MalI GATC 4 cut(s) 142, 750, 783, 1117
MboI GATC 4 cut(s) 140, 748, 781, 1115
MboII GAAGA 7 cut(s) 231, 413, 421, 505, 641, 840, 1206
MflI RGATCY 1 cut(s) 781
MhlI GDGCHC 1 cut(s) 940
MluCI AATT 4 cut(s) 197, 678, 721, 1172
MlyI GAGTC 3 cut(s) 199, 323, 1174
MroNI GCCGGC 2 cut(s) 211, 1186
MseI TTAA 2 cut(s) 812, 957
MslI CAYNNNNRTG 1 cut(s) 773
MspA1I CMGCKG 1 cut(s) 319
MspR9I CCNGG 4 cut(s) 287, 675, 919, 1159
Mva1269I GAATGC 1 cut(s) 543
MvaI CCWGG 2 cut(s) 287, 919
MvnI CGCG 1 cut(s) 1261
MwoI GCNNNNNNNGC 6 cut(s) 42, 51, 143, 1017, 1026, 1118
NaeI GCCGGC 2 cut(s) 213, 1188
NciI CCSGG 2 cut(s) 675, 1159
NdeII GATC 4 cut(s) 140, 748, 781, 1115
NgoMIV GCCGGC 2 cut(s) 211, 1186
NlaIII CATG 3 cut(s) 393, 418, 535
NlaIV GGNNCC 4 cut(s) 284, 412, 783, 937
NmeAIII GCCGAG 1 cut(s) 208
NmuCI GTSAC 2 cut(s) 269, 309
PceI AGGCCT 1 cut(s) 498
PcsI WCGNNNNNNNCGW 3 cut(s) 149, 270, 1124
PctI GAATGC 1 cut(s) 543
PdiI GCCGGC 2 cut(s) 213, 1188
PfeI GAWTC 3 cut(s) 94, 418, 1069
PflMI CCANNNNNTGG 1 cut(s) 777
PinAI ACCGGT 2 cut(s) 171, 1146
PkrI GCNGC 6 cut(s) 164, 167, 318, 321, 1139, 1142
PleI GAGTC 3 cut(s) 199, 323, 1174
PpsI GAGTC 3 cut(s) 199, 323, 1174
PshAI GACNNNNGTC 1 cut(s) 341
Psp6I CCWGG 2 cut(s) 285, 917
PspEI GGTNACC 2 cut(s) 309, 580
PspGI CCWGG 2 cut(s) 285, 917
PspN4I GGNNCC 4 cut(s) 284, 412, 783, 937
PspPI GGNCC 3 cut(s) 174, 353, 1149
PsrI GAACNNNNNNTAC 2 cut(s) 709, 741
PstI CTGCAG 1 cut(s) 1142
PsuI RGATCY 1 cut(s) 781
RsaI GTAC 2 cut(s) 412, 650
RsaNI GTAC 2 cut(s) 411, 649
RseI CAYNNNNRTG 1 cut(s) 773
Rsr2I CGGWCCG 2 cut(s) 174, 1149
RsrII CGGWCCG 2 cut(s) 174, 1149
SalI GTCGAC 1 cut(s) 334
SaqAI TTAA 2 cut(s) 812, 957
SatI GCNGC 6 cut(s) 163, 166, 317, 320, 1138, 1141
Sau3AI GATC 4 cut(s) 140, 748, 781, 1115
Sau96I GGNCC 3 cut(s) 174, 353, 1149
SchI GAGTC 3 cut(s) 199, 323, 1174
ScrFI CCNGG 4 cut(s) 287, 675, 919, 1159
SduI GDGCHC 1 cut(s) 940
SfaNI GCATC 1 cut(s) 612
SfcI CTRYAG 1 cut(s) 1138
SinI GGWCC 3 cut(s) 174, 353, 1149
SmiMI CAYNNNNRTG 1 cut(s) 773
Sse9I AATT 4 cut(s) 197, 678, 721, 1172
SseBI AGGCCT 1 cut(s) 498
SsiI CCGC 7 cut(s) 64, 166, 314, 317, 933, 1039, 1184
SspMI CTAG 3 cut(s) 138, 684, 1113
StuI AGGCCT 1 cut(s) 498
StyD4I CCNGG 4 cut(s) 285, 673, 917, 1157
TaaI ACNGT 3 cut(s) 251, 730, 1226
TaiI ACGT 1 cut(s) 276
TaqI TCGA 4 cut(s) 152, 335, 606, 1127
TasI AATT 4 cut(s) 197, 678, 721, 1172
TauI GCSGC 2 cut(s) 168, 319
TfiI GAWTC 3 cut(s) 94, 418, 1069
Tru1I TTAA 2 cut(s) 812, 957
Tru9I TTAA 2 cut(s) 812, 957
TseFI GTSAC 2 cut(s) 269, 309
TseI GCWGC 4 cut(s) 162, 319, 1137, 1140
Tsp45I GTSAC 2 cut(s) 269, 309
TspDTI ATGAA 6 cut(s) 17, 454, 648, 753, 891, 992
TspGWI ACGGA 3 cut(s) 166, 306, 1141
Van91I CCANNNNNTGG 1 cut(s) 777
VpaK11BI GGWCC 3 cut(s) 174, 353, 1149
XapI RAATTY 2 cut(s) 678, 721
XbaI TCTAGA 1 cut(s) 683
XmiI GTMKAC 1 cut(s) 335
XspI CTAG 3 cut(s) 138, 684, 1113
ZraI GACGTC 1 cut(s) 274
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.