RchiOBHm_Chr2g0088441

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0014774
Physical Location & Seq
Forward (+)
2990502 .. 2992791
2290 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46376

Sequence Viewer

Length: 1149 bp
ATGGAGTTGTGGTATGGAGGAATTGACAACTTACTTGCAATTAACAATGAGGAAGGTGATAGAGGGTACTGGGATGTGGTTTGGAGTAACCCGGGAGAGACGAAAAACACACAATATAGACTACATGGAACACAATTTAAAGTTATCACGGCGAGGCCAGACCAAGTAGAAGTTTCTTTCATCACCACATACAATGCCAGCCTCAACAGGGGCGTGACAGTTCCGGTGAATGTTGACAAAAGGTACATAATGCAGCGAGGACGTTCTGGGTTCTATACATATGCCATCTTTGAGCGTCTTGAAGGGTGGCCGGGAGGGGACATGCAGACACTTAGAGTGGCTTACAAGCTTCATCAAGCCAAGTTTCGATATATGGCGCTATCGGACACTAGGCAAAGGTTCATGCCAACAGCCGATGACCGAGCACGCGGTAGGCCACTTGCATTCAAAGAAGTTGTTCTACTAAACAATGAGACGAGCAGTCCTGAATTTGAAGGGGAGGTGGATGATAAGTATCAGTACTCGGCCGAGGACAAAGATATCAAGGTGCATGGTTGGATTTCTATTGATGACCATTCACCACCGGTGGGATTTTGGATGATCACACCTAGTGATGAGTTTCGTATGGGTGGTCCTTTCAAGCAGGACCTCACCTCTCACGTTGGACCAACTTCCCTAACTATGTTTTCTTCTCATCATTATGTTGGTAAAAAAGTTGGGCTGAAATTCCAAGAGGGTGAGGTATGGAAAAAGGTTTTCGGACCTGTCTTTATCTATCTTCACGCGGCAGCTCGAAACTCAGCTAATAAGGGCAAAAGAGTAACGTCTGGATCCGTTTCAGCTTTTCTCCTAATATCAAAAACTGATTTGCAGTTTCCTCTCCCACGTTCTCTAATCCGTGCAAAAGAGTTCTCCTCTTTCCTATGGAATCACCGCTCACAATCATATACTTCAATTGAAAAAGAAGTTCACCGGCCAACAGAATACTTACTTAAAAGAATTTTTGGGCTTGCTTTTTTAATGGGTGATGCTGCTCCGTATGCAGAGAAGAATTTGTCTTTTAACATAGAAGCAAAACCACAGAGCAATTCAATTTCATTGGTTCCCCAGACTAAATTTCAAAGCTCAAAGGTCAAGGGAAGTGCATGA
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

382

Amino Acids

43.5

Weight (kDa)

9.3

Isoelectric Point (pI)

37.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 4 - 168 8.2e-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)
AccBSI CCGCTC 1 cut(s) 936
AccII CGCG 2 cut(s) 429, 785
AciI CCGC 3 cut(s) 429, 785, 934
AclWI GGATC 2 cut(s) 825, 838
AcoI YGGCCR 3 cut(s) 308, 525, 974
AcsI RAATTY 5 cut(s) 488, 725, 999, 1051, 1115
AdeI CACNNNGTG 1 cut(s) 611
AfaI GTAC 3 cut(s) 68, 245, 521
AfiI CCNNNNNNNGG 2 cut(s) 208, 587
AgeI ACCGGT 1 cut(s) 583
AgsI TTSAA 8 cut(s) 302, 448, 494, 640, 954, 959, 1092, 1121
AhdI GACNNNNNGTC 1 cut(s) 480
AluBI AGCT 5 cut(s) 349, 791, 803, 842, 1125
AluI AGCT 5 cut(s) 349, 791, 803, 842, 1125
Alw21I GWGCWC 1 cut(s) 427
Alw26I GTCTC 2 cut(s) 92, 467
AlwI GGATC 2 cut(s) 825, 838
Ama87I CYCGRG 1 cut(s) 91
AoxI GGCC 5 cut(s) 155, 308, 434, 525, 974
ApeKI GCWGC 3 cut(s) 253, 788, 1031
ApoI RAATTY 5 cut(s) 488, 725, 999, 1051, 1115
AsiGI ACCGGT 1 cut(s) 583
Asp700I GAANNNNTTC 1 cut(s) 456
AspLEI GCGC 1 cut(s) 379
AspS9I GGNCC 4 cut(s) 632, 646, 665, 761
AsuC2I CCSGG 3 cut(s) 92, 93, 312
AsuHPI GGTGA 9 cut(s) 68, 175, 238, 570, 643, 749, 923, 962, 1037
AvaI CYCGRG 1 cut(s) 91
AvaII GGWCC 4 cut(s) 632, 646, 665, 761
BamHI GGATCC 1 cut(s) 830
BarI GAAGNNNNNNTAC 2 cut(s) 444, 476
Bbv12I GWGCWC 1 cut(s) 427
BbvI GCAGC 3 cut(s) 265, 800, 1018
BccI CCATC 1 cut(s) 293
BceAI ACGGC 1 cut(s) 165
BclI TGATCA 1 cut(s) 600
BcnI CCSGG 3 cut(s) 92, 93, 312
BcoDI GTCTC 2 cut(s) 92, 467
BfaI CTAG 2 cut(s) 390, 609
BfoI RGCGCY 1 cut(s) 380
BisI GCNGC 4 cut(s) 254, 786, 789, 1032
BlsI GCNGC 4 cut(s) 255, 787, 790, 1033
BmcAI AGTACT 1 cut(s) 521
Bme1390I CCNGG 3 cut(s) 92, 93, 312
Bme18I GGWCC 4 cut(s) 632, 646, 665, 761
BmeRI GACNNNNNGTC 1 cut(s) 480
BmeT110I CYCGRG 1 cut(s) 91
BmgT120I GGNCC 4 cut(s) 632, 646, 665, 761
BmiI GGNNCC 2 cut(s) 832, 1104
BmrFI CCNGG 3 cut(s) 92, 93, 312
BmrI ACTGGG 1 cut(s) 79
BmsI GCATC 1 cut(s) 1018
BmuI ACTGGG 1 cut(s) 79
BplI GAGNNNNNCTC 2 cut(s) 899, 931
BpuMI CCSGG 3 cut(s) 92, 93, 312
BsaBI GATNNNNATC 1 cut(s) 513
BsaJI CCNNGG 2 cut(s) 91, 528
BsaWI WCCGGW 2 cut(s) 223, 583
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bsc4I CCNNNNNNNGG 2 cut(s) 208, 587
Bse118I RCCGGY 2 cut(s) 583, 972
Bse1I ACTGG 1 cut(s) 74
Bse8I GATNNNNATC 1 cut(s) 513
BseDI CCNNGG 2 cut(s) 91, 528
BseGI GGATG 3 cut(s) 79, 511, 603
BseJI GATNNNNATC 1 cut(s) 513
BseLI CCNNNNNNNGG 2 cut(s) 208, 587
BseMII CTCAG 1 cut(s) 813
BseNI ACTGG 1 cut(s) 74
BseRI GAGGAG 1 cut(s) 904
BseX3I CGGCCG 1 cut(s) 525
BseXI GCAGC 3 cut(s) 265, 800, 1018
Bsh1236I CGCG 2 cut(s) 429, 785
Bsh1285I CGRYCG 1 cut(s) 528
BshFI GGCC 5 cut(s) 157, 310, 436, 527, 976
BshTI ACCGGT 1 cut(s) 583
BsiEI CGRYCG 1 cut(s) 528
BsiHKAI GWGCWC 1 cut(s) 427
BsiHKCI CYCGRG 1 cut(s) 91
BsiSI CCGG 5 cut(s) 92, 224, 311, 584, 973
BslFI GGGAC 1 cut(s) 332
BslI CCNNNNNNNGG 2 cut(s) 208, 587
BsmAI GTCTC 2 cut(s) 92, 467
BsmBI CGTCTC 2 cut(s) 92, 467
BsmFI GGGAC 1 cut(s) 332
BsmI GAATGC 1 cut(s) 443
BsnI GGCC 5 cut(s) 157, 310, 436, 527, 976
BsoBI CYCGRG 1 cut(s) 91
Bsp1286I GDGCHC 1 cut(s) 427
Bsp143I GATC 2 cut(s) 600, 830
BspACI CCGC 3 cut(s) 429, 785, 934
BspANI GGCC 5 cut(s) 157, 310, 436, 527, 976
BspCNI CTCAG 1 cut(s) 812
BspFNI CGCG 2 cut(s) 429, 785
BspLI GGNNCC 2 cut(s) 832, 1104
BspPI GGATC 2 cut(s) 825, 838
BsrBI CCGCTC 1 cut(s) 936
BsrFI RCCGGY 2 cut(s) 583, 972
BsrI ACTGG 1 cut(s) 74
BssAI RCCGGY 2 cut(s) 583, 972
BssECI CCNNGG 2 cut(s) 91, 528
BssMI GATC 2 cut(s) 600, 830
Bst4CI ACNGT 1 cut(s) 220
BstC8I GCNNGC 3 cut(s) 199, 427, 1011
BstDEI CTNAG 2 cut(s) 332, 799
BstF5I GGATG 3 cut(s) 79, 511, 603
BstFNI CGCG 2 cut(s) 429, 785
BstH2I RGCGCY 1 cut(s) 380
BstHHI GCGC 1 cut(s) 379
BstKTI GATC 2 cut(s) 603, 833
BstMAI GTCTC 2 cut(s) 92, 467
BstMBI GATC 2 cut(s) 600, 830
BstMCI CGRYCG 1 cut(s) 528
BstMWI GCNNNNNNNGC 1 cut(s) 1040
BstNSI RCATGY 1 cut(s) 325
BstSCI CCNGG 3 cut(s) 90, 91, 310
BstUI CGCG 2 cut(s) 429, 785
BstV1I GCAGC 3 cut(s) 265, 800, 1018
BstX2I RGATCY 1 cut(s) 830
BstYI RGATCY 1 cut(s) 830
BstZI CGGCCG 1 cut(s) 525
BsuRI GGCC 5 cut(s) 157, 310, 436, 527, 976
BtsCI GGATG 3 cut(s) 79, 511, 603
Cac8I GCNNGC 3 cut(s) 199, 427, 1011
CfoI GCGC 1 cut(s) 379
Cfr10I RCCGGY 2 cut(s) 583, 972
Cfr13I GGNCC 4 cut(s) 632, 646, 665, 761
Cfr9I CCCGGG 1 cut(s) 91
CseI GACGC 1 cut(s) 284
Csp6I GTAC 3 cut(s) 67, 244, 520
CspAI ACCGGT 1 cut(s) 583
CviAII CATG 5 cut(s) 125, 322, 403, 551, 1146
CviQI GTAC 3 cut(s) 67, 244, 520
DdeI CTNAG 2 cut(s) 332, 799
DpnI GATC 2 cut(s) 602, 832
DpnII GATC 2 cut(s) 600, 830
DraI TTTAAA 1 cut(s) 139
DraIII CACNNNGTG 1 cut(s) 611
DriI GACNNNNNGTC 1 cut(s) 480
EaeI YGGCCR 3 cut(s) 308, 525, 974
EagI CGGCCG 1 cut(s) 525
Eam1105I GACNNNNNGTC 1 cut(s) 480
EclXI CGGCCG 1 cut(s) 525
Eco32I GATATC 1 cut(s) 541
Eco47I GGWCC 4 cut(s) 632, 646, 665, 761
Eco52I CGGCCG 1 cut(s) 525
Eco88I CYCGRG 1 cut(s) 91
EcoO109I RGGNCCY 1 cut(s) 646
EcoRV GATATC 1 cut(s) 541
Esp3I CGTCTC 2 cut(s) 92, 467
FaeI CATG 5 cut(s) 128, 325, 406, 554, 1149
FaqI GGGAC 1 cut(s) 332
FatI CATG 5 cut(s) 124, 321, 402, 550, 1145
FauNDI CATATG 1 cut(s) 280
FbaI TGATCA 1 cut(s) 600
Fnu4HI GCNGC 4 cut(s) 254, 786, 789, 1032
FokI GGATG 3 cut(s) 86, 518, 610
Fsp4HI GCNGC 4 cut(s) 254, 786, 789, 1032
FspBI CTAG 2 cut(s) 390, 609
GlaI GCGC 1 cut(s) 378
GluI GCNGC 4 cut(s) 254, 786, 789, 1032
HaeII RGCGCY 1 cut(s) 380
HaeIII GGCC 5 cut(s) 157, 310, 436, 527, 976
HapII CCGG 5 cut(s) 92, 224, 311, 584, 973
HgaI GACGC 1 cut(s) 284
HhaI GCGC 1 cut(s) 379
Hin1II CATG 5 cut(s) 128, 325, 406, 554, 1149
Hin6I GCGC 1 cut(s) 377
HinP1I GCGC 1 cut(s) 377
HincII GTYRAC 1 cut(s) 235
HindII GTYRAC 1 cut(s) 235
HindIII AAGCTT 1 cut(s) 347
HinfI GANTC 1 cut(s) 928
HpaII CCGG 5 cut(s) 92, 224, 311, 584, 973
HphI GGTGA 9 cut(s) 68, 175, 238, 570, 643, 749, 923, 962, 1037
Hpy166II GTNNAC 2 cut(s) 235, 970
Hpy188I TCNGA 2 cut(s) 385, 761
Hpy188III TCNNGA 3 cut(s) 299, 485, 828
Hpy8I GTNNAC 2 cut(s) 235, 970
HpyAV CCTTC 3 cut(s) 47, 296, 488
HpyCH4III ACNGT 1 cut(s) 220
HpyCH4IV ACGT 4 cut(s) 262, 660, 824, 886
HpyCH4V TGCA 9 cut(s) 38, 253, 325, 443, 550, 871, 902, 1043, 1145
HpyF10VI GCNNNNNNNGC 1 cut(s) 1040
HpyF3I CTNAG 2 cut(s) 332, 799
HpySE526I ACGT 4 cut(s) 262, 660, 824, 886
Hsp92II CATG 5 cut(s) 128, 325, 406, 554, 1149
HspAI GCGC 1 cut(s) 377
Ksp22I TGATCA 1 cut(s) 600
Kzo9I GATC 2 cut(s) 600, 830
LmnI GCTCC 1 cut(s) 1039
Lsp1109I GCAGC 3 cut(s) 265, 800, 1018
LweI GCATC 1 cut(s) 1018
MaeI CTAG 2 cut(s) 390, 609
MaeII ACGT 4 cut(s) 262, 660, 824, 886
MaeIII GTNAC 3 cut(s) 86, 214, 820
MalI GATC 2 cut(s) 602, 832
MbiI CCGCTC 1 cut(s) 936
MboI GATC 2 cut(s) 600, 830
MboII GAAGA 3 cut(s) 681, 770, 1060
MfeI CAATTG 1 cut(s) 954
MflI RGATCY 1 cut(s) 830
MhlI GDGCHC 1 cut(s) 427
MmeI TCCRAC 2 cut(s) 536, 643
MroXI GAANNNNTTC 1 cut(s) 456
MseI TTAA 5 cut(s) 42, 138, 993, 1019, 1062
MslI CAYNNNNRTG 1 cut(s) 699
MspI CCGG 5 cut(s) 92, 224, 311, 584, 973
MspR9I CCNGG 3 cut(s) 92, 93, 312
MunI CAATTG 1 cut(s) 954
Mva1269I GAATGC 1 cut(s) 443
MvnI CGCG 2 cut(s) 429, 785
MwoI GCNNNNNNNGC 1 cut(s) 1040
NciI CCSGG 3 cut(s) 92, 93, 312
NdeI CATATG 1 cut(s) 280
NdeII GATC 2 cut(s) 600, 830
NlaIII CATG 5 cut(s) 128, 325, 406, 554, 1149
NlaIV GGNNCC 2 cut(s) 832, 1104
NmeAIII GCCGAG 2 cut(s) 503, 553
NmuCI GTSAC 1 cut(s) 214
NspI RCATGY 1 cut(s) 325
PctI GAATGC 1 cut(s) 443
PdmI GAANNNNTTC 1 cut(s) 456
PfeI GAWTC 1 cut(s) 928
PinAI ACCGGT 1 cut(s) 583
PkrI GCNGC 4 cut(s) 255, 787, 790, 1033
PpuMI RGGWCCY 1 cut(s) 646
Psp5II RGGWCCY 1 cut(s) 646
PspN4I GGNNCC 2 cut(s) 832, 1104
PspPI GGNCC 4 cut(s) 632, 646, 665, 761
PspPPI RGGWCCY 1 cut(s) 646
PsuI RGATCY 1 cut(s) 830
RsaI GTAC 3 cut(s) 68, 245, 521
RsaNI GTAC 3 cut(s) 67, 244, 520
RseI CAYNNNNRTG 1 cut(s) 699
SaqAI TTAA 5 cut(s) 42, 138, 993, 1019, 1062
SatI GCNGC 4 cut(s) 254, 786, 789, 1032
Sau3AI GATC 2 cut(s) 600, 830
Sau96I GGNCC 4 cut(s) 632, 646, 665, 761
ScaI AGTACT 1 cut(s) 521
ScrFI CCNGG 3 cut(s) 92, 93, 312
SduI GDGCHC 1 cut(s) 427
SfaNI GCATC 1 cut(s) 1018
SgrAI CRCCGGYG 1 cut(s) 583
SinI GGWCC 4 cut(s) 632, 646, 665, 761
SmaI CCCGGG 1 cut(s) 93
SmiMI CAYNNNNRTG 1 cut(s) 699
SsiI CCGC 3 cut(s) 429, 785, 934
SspMI CTAG 2 cut(s) 390, 609
StyD4I CCNGG 3 cut(s) 90, 91, 310
TaaI ACNGT 1 cut(s) 220
TaiI ACGT 4 cut(s) 265, 663, 827, 889
TaqI TCGA 2 cut(s) 367, 793
TaqII GACCGA 1 cut(s) 435
TatI WGTACW 1 cut(s) 519
TauI GCSGC 1 cut(s) 788
TfiI GAWTC 1 cut(s) 928
Tru1I TTAA 5 cut(s) 42, 138, 993, 1019, 1062
Tru9I TTAA 5 cut(s) 42, 138, 993, 1019, 1062
TseFI GTSAC 1 cut(s) 214
TseI GCWGC 3 cut(s) 253, 788, 1031
Tsp45I GTSAC 1 cut(s) 214
TspDTI ATGAA 4 cut(s) 169, 341, 391, 1086
TspGWI ACGGA 3 cut(s) 823, 887, 1026
TspMI CCCGGG 1 cut(s) 91
VpaK11BI GGWCC 4 cut(s) 632, 646, 665, 761
XapI RAATTY 5 cut(s) 488, 725, 999, 1051, 1115
XceI RCATGY 1 cut(s) 325
XmaI CCCGGG 1 cut(s) 91
XmnI GAANNNNTTC 1 cut(s) 456
XspI CTAG 2 cut(s) 390, 609
ZrmI AGTACT 1 cut(s) 521
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.