RLG00000020480

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0021339
Physical Location & Seq
Forward (+)
65480585 .. 65481661
1077 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000020480

Sequence Viewer

Length: 972 bp
ATGGAAAAAGGTTTCGGTCCTGTTTTTGTCTATCTTAATTCTGCTCCGCCGGGATCAAATAATTCCACGAGTATTCTCTGGAACAATGCTAAACAACAAATGTTCAAAGAAGTCAAGAGTTGGCCGTACAATTTCACTCAGTCTCAAGACCTTCCTTCTTCTGATCAAAGGGGTTCACTGTCCGGCCGATTACTAGTACATGATCGGTACGTCAATAATCGGTCCCTTCATTCGGCAATTTCAGCTTATGTGGGACTTGCTCCGCCTGGAGAATTGGGATCATGGCAAAGGGAAAGCAAGGGATACCAATTCTGGACTCAAGCTGACAAAAAAGGTTATTTCATCATTAAAGATGTTCGACCCGGAAATTATTGTTTGTATGCATTAGTTCCAGGCATTATTGGAGACTACAAATATGAGACTGATATTACAATTGAACCAGGAAGCAAAATCCAAGTGCCTGTTTTTATCTACAAACCTCCAAGAAATGGTCCTACTTTATGGGAAATTGGCATCCCTGATCGCACTGCCTCCGAGTTTGACATACTTGATCCATATCCAACTCTCACCAATAAATTTGAAGATTGGTTTTACGCTCAAGTGACGAGGAATATAGGAAATGAAACCCATGTAGGAACCACATGGCAGATTCAGTTTGAACTCGACAATGTGACTCATCCCGGAAATTTTACACTCCAATTGGCATTGGCCGCAGCCAGTTATTCAAAATTGCATGTTTGGTTTAACAACTGGAACGCCAAGCGACCACATTTTTCAACAGGTAGATTAGGTGTGGACAATGCTATAGCAAGACATGGAATTCATGGTTTGTACTCGTTGTTCAGTGTAAGTGTACCAAGTTCTCTGTTGCATGAAGGAACAAACACCATCTATCTAACACAGCCAAACGGTGGATCACCTTTCCAAGGAATCATGTATGACTACATAAGACTAGAAGGACATTCGTTATAA
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

324

Amino Acids

36.43

Weight (kDa)

7.16

Isoelectric Point (pI)

30.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
fn3_3 PF14686 81 - 152 5.2e-24 Polysaccharide lyase family 4, domain II
CBM-like PF14683 166 - 318 5.3e-38 Polysaccharide lyase family 4, domain III
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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Orthologous Genes (Group: OG0021339)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0150231
rosa_laevigata RLG00000020480
rosa_multiflora Rmu_ssc0000020.1_g000006
rosa_samantha Rh2BG491300 Rh2DG500100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 970
AccB7I CCANNNNNTGG 2 cut(s) 488, 911
AciI CCGC 3 cut(s) 47, 263, 711
AclWI GGATC 4 cut(s) 61, 286, 545, 922
AcoI YGGCCR 3 cut(s) 122, 184, 708
AcsI RAATTY 3 cut(s) 575, 685, 819
AfaI GTAC 5 cut(s) 128, 198, 209, 833, 855
AfiI CCNNNNNNNGG 4 cut(s) 232, 488, 911, 926
AgsI TTSAA 6 cut(s) 106, 437, 581, 659, 726, 777
AhlI ACTAGT 1 cut(s) 193
AjnI CCWGG 3 cut(s) 265, 391, 439
AluBI AGCT 2 cut(s) 245, 323
AluI AGCT 2 cut(s) 245, 323
Alw26I GTCTC 3 cut(s) 147, 399, 413
AlwI GGATC 4 cut(s) 61, 286, 545, 922
AoxI GGCC 3 cut(s) 122, 184, 708
ApeKI GCWGC 1 cut(s) 713
ApoI RAATTY 3 cut(s) 575, 685, 819
AspS9I GGNCC 3 cut(s) 17, 222, 491
AsuC2I CCSGG 3 cut(s) 51, 363, 681
AsuHPI GGTGA 2 cut(s) 559, 909
AvaII GGWCC 3 cut(s) 17, 222, 491
BauI CACGAG 1 cut(s) 67
BbvI GCAGC 1 cut(s) 725
BccI CCATC 1 cut(s) 896
BceAI ACGGC 1 cut(s) 109
BciT130I CCWGG 3 cut(s) 267, 393, 441
BciVI GTATCC 1 cut(s) 296
BclI TGATCA 1 cut(s) 163
BcnI CCSGG 3 cut(s) 51, 363, 681
BcoDI GTCTC 3 cut(s) 147, 399, 413
BcuI ACTAGT 1 cut(s) 193
BfaI CTAG 2 cut(s) 194, 953
BfmI CTRYAG 1 cut(s) 804
BfuI GTATCC 1 cut(s) 296
BisI GCNGC 2 cut(s) 711, 714
BlsI GCNGC 2 cut(s) 712, 715
Bme1390I CCNGG 6 cut(s) 51, 267, 363, 393, 441, 681
Bme18I GGWCC 3 cut(s) 17, 222, 491
BmgT120I GGNCC 3 cut(s) 17, 222, 491
BmiI GGNNCC 2 cut(s) 224, 637
BmrFI CCNGG 6 cut(s) 51, 267, 363, 393, 441, 681
BmsI GCATC 1 cut(s) 522
BpmI CTGGAG 1 cut(s) 288
BpuEI CTTGAG 3 cut(s) 129, 303, 582
BpuMI CCSGG 3 cut(s) 51, 363, 681
BsaBI GATNNNNATC 1 cut(s) 555
BsaJI CCNNGG 1 cut(s) 925
Bsc4I CCNNNNNNNGG 4 cut(s) 232, 488, 911, 926
Bse1I ACTGG 2 cut(s) 717, 755
Bse8I GATNNNNATC 1 cut(s) 555
BseBI CCWGG 3 cut(s) 267, 393, 441
BseDI CCNNGG 1 cut(s) 925
BseGI GGATG 2 cut(s) 513, 676
BseJI GATNNNNATC 1 cut(s) 555
BseLI CCNNNNNNNGG 4 cut(s) 232, 488, 911, 926
BseMII CTCAG 1 cut(s) 152
BseNI ACTGG 2 cut(s) 717, 755
BseX3I CGGCCG 1 cut(s) 184
BseXI GCAGC 1 cut(s) 725
Bsh1285I CGRYCG 1 cut(s) 187
BshFI GGCC 3 cut(s) 124, 186, 710
BsiEI CGRYCG 1 cut(s) 187
BsiSI CCGG 4 cut(s) 50, 183, 363, 681
BslFI GGGAC 2 cut(s) 208, 267
BslI CCNNNNNNNGG 4 cut(s) 232, 488, 911, 926
BsmAI GTCTC 3 cut(s) 147, 399, 413
BsmFI GGGAC 2 cut(s) 208, 267
BsnI GGCC 3 cut(s) 124, 186, 710
Bsp143I GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
BspACI CCGC 3 cut(s) 47, 263, 711
BspANI GGCC 3 cut(s) 124, 186, 710
BspCNI CTCAG 1 cut(s) 151
BspLI GGNNCC 2 cut(s) 224, 637
BspPI GGATC 4 cut(s) 61, 286, 545, 922
BsrI ACTGG 2 cut(s) 717, 755
BssECI CCNNGG 1 cut(s) 925
BssMI GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
BssSI CACGAG 1 cut(s) 67
BssT1I CCWWGG 1 cut(s) 925
Bst2BI CACGAG 1 cut(s) 67
Bst2UI CCWGG 3 cut(s) 267, 393, 441
Bst4CI ACNGT 2 cut(s) 180, 911
BstDEI CTNAG 1 cut(s) 138
BstENI CCTNNNNNAGG 1 cut(s) 924
BstF5I GGATG 2 cut(s) 513, 676
BstKTI GATC 7 cut(s) 56, 166, 205, 281, 523, 553, 917
BstMAI GTCTC 3 cut(s) 147, 399, 413
BstMBI GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
BstMCI CGRYCG 1 cut(s) 187
BstMWI GCNNNNNNNGC 2 cut(s) 242, 710
BstNI CCWGG 3 cut(s) 267, 393, 441
BstNSI RCATGY 1 cut(s) 737
BstSCI CCNGG 6 cut(s) 49, 265, 361, 391, 439, 679
BstSFI CTRYAG 1 cut(s) 804
BstV1I GCAGC 1 cut(s) 725
BstZI CGGCCG 1 cut(s) 184
BsuI GTATCC 1 cut(s) 296
BsuRI GGCC 3 cut(s) 124, 186, 710
BtsCI GGATG 2 cut(s) 513, 676
BtsI GCAGTG 1 cut(s) 525
BtsIMutI CAGTG 3 cut(s) 176, 525, 850
Cfr13I GGNCC 3 cut(s) 17, 222, 491
Csp6I GTAC 5 cut(s) 127, 197, 208, 832, 854
CviAII CATG 9 cut(s) 200, 282, 629, 642, 734, 815, 824, 872, 934
CviJI RGCY 7 cut(s) 124, 186, 245, 323, 710, 716, 904
CviKI_1 RGCY 7 cut(s) 124, 186, 245, 323, 710, 716, 904
CviQI GTAC 5 cut(s) 127, 197, 208, 832, 854
DdeI CTNAG 1 cut(s) 138
DpnI GATC 7 cut(s) 55, 165, 204, 280, 522, 552, 916
DpnII GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
EaeI YGGCCR 3 cut(s) 122, 184, 708
EagI CGGCCG 1 cut(s) 184
EciI GGCGGA 2 cut(s) 36, 252
EclXI CGGCCG 1 cut(s) 184
Eco130I CCWWGG 1 cut(s) 925
Eco47I GGWCC 3 cut(s) 17, 222, 491
Eco52I CGGCCG 1 cut(s) 184
EcoNI CCTNNNNNAGG 1 cut(s) 924
EcoRI GAATTC 1 cut(s) 819
EcoRII CCWGG 3 cut(s) 265, 391, 439
EcoT14I CCWWGG 1 cut(s) 925
EcoT22I ATGCAT 1 cut(s) 385
ErhI CCWWGG 1 cut(s) 925
FaeI CATG 9 cut(s) 203, 285, 632, 645, 737, 818, 827, 875, 937
FaqI GGGAC 2 cut(s) 208, 267
FatI CATG 9 cut(s) 199, 281, 628, 641, 733, 814, 823, 871, 933
FbaI TGATCA 1 cut(s) 163
Fnu4HI GCNGC 2 cut(s) 711, 714
FokI GGATG 2 cut(s) 500, 663
Fsp4HI GCNGC 2 cut(s) 711, 714
FspBI CTAG 2 cut(s) 194, 953
GluI GCNGC 2 cut(s) 711, 714
GsuI CTGGAG 1 cut(s) 288
HaeIII GGCC 3 cut(s) 124, 186, 710
HapII CCGG 4 cut(s) 50, 183, 363, 681
Hin1II CATG 9 cut(s) 203, 285, 632, 645, 737, 818, 827, 875, 937
HinfI GANTC 4 cut(s) 316, 649, 673, 930
HpaII CCGG 4 cut(s) 50, 183, 363, 681
HphI GGTGA 2 cut(s) 559, 909
Hpy166II GTNNAC 3 cut(s) 176, 796, 854
Hpy188I TCNGA 2 cut(s) 163, 535
Hpy188III TCNNGA 4 cut(s) 79, 115, 146, 313
Hpy8I GTNNAC 3 cut(s) 176, 796, 854
HpyAV CCTTC 5 cut(s) 161, 165, 236, 869, 950
HpyCH4III ACNGT 2 cut(s) 180, 911
HpyCH4IV ACGT 1 cut(s) 210
HpyCH4V TGCA 3 cut(s) 383, 733, 871
HpyF10VI GCNNNNNNNGC 2 cut(s) 242, 710
HpyF3I CTNAG 1 cut(s) 138
HpySE526I ACGT 1 cut(s) 210
Hsp92II CATG 9 cut(s) 203, 285, 632, 645, 737, 818, 827, 875, 937
Ksp22I TGATCA 1 cut(s) 163
Kzo9I GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
LmnI GCTCC 2 cut(s) 49, 265
Lsp1109I GCAGC 1 cut(s) 725
LweI GCATC 1 cut(s) 522
MaeI CTAG 2 cut(s) 194, 953
MaeII ACGT 1 cut(s) 210
MaeIII GTNAC 2 cut(s) 601, 670
MalI GATC 7 cut(s) 55, 165, 204, 280, 522, 552, 916
MboI GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
MboII GAAGA 2 cut(s) 150, 593
MfeI CAATTG 2 cut(s) 432, 698
MlyI GAGTC 2 cut(s) 310, 667
MmeI TCCRAC 1 cut(s) 584
MnlI CCTC 3 cut(s) 489, 541, 600
Mph1103I ATGCAT 1 cut(s) 385
MseI TTAA 3 cut(s) 36, 348, 744
MspI CCGG 4 cut(s) 50, 183, 363, 681
MspR9I CCNGG 6 cut(s) 51, 267, 363, 393, 441, 681
MunI CAATTG 2 cut(s) 432, 698
MvaI CCWGG 3 cut(s) 267, 393, 441
MwoI GCNNNNNNNGC 2 cut(s) 242, 710
NciI CCSGG 3 cut(s) 51, 363, 681
NdeII GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
NlaIII CATG 9 cut(s) 203, 285, 632, 645, 737, 818, 827, 875, 937
NlaIV GGNNCC 2 cut(s) 224, 637
NmuCI GTSAC 2 cut(s) 601, 670
NsiI ATGCAT 1 cut(s) 385
NspI RCATGY 1 cut(s) 737
PfeI GAWTC 2 cut(s) 649, 930
PflMI CCANNNNNTGG 2 cut(s) 488, 911
PfoI TCCNGGA 1 cut(s) 679
PkrI GCNGC 2 cut(s) 712, 715
PleI GAGTC 2 cut(s) 310, 667
PpsI GAGTC 2 cut(s) 310, 667
PsiI TTATAA 1 cut(s) 970
Psp6I CCWGG 3 cut(s) 265, 391, 439
PspGI CCWGG 3 cut(s) 265, 391, 439
PspN4I GGNNCC 2 cut(s) 224, 637
PspPI GGNCC 3 cut(s) 17, 222, 491
PsrI GAACNNNNNNTAC 2 cut(s) 824, 856
RsaI GTAC 5 cut(s) 128, 198, 209, 833, 855
RsaNI GTAC 5 cut(s) 127, 197, 208, 832, 854
SaqAI TTAA 3 cut(s) 36, 348, 744
SatI GCNGC 2 cut(s) 711, 714
Sau3AI GATC 7 cut(s) 53, 163, 202, 278, 520, 550, 914
Sau96I GGNCC 3 cut(s) 17, 222, 491
SchI GAGTC 2 cut(s) 310, 667
ScrFI CCNGG 6 cut(s) 51, 267, 363, 393, 441, 681
SfaNI GCATC 1 cut(s) 522
SfcI CTRYAG 1 cut(s) 804
SinI GGWCC 3 cut(s) 17, 222, 491
SmlI CTYRAG 3 cut(s) 144, 318, 597
SmoI CTYRAG 3 cut(s) 144, 318, 597
SpeI ACTAGT 1 cut(s) 193
SsiI CCGC 3 cut(s) 47, 263, 711
SspMI CTAG 2 cut(s) 194, 953
StyD4I CCNGG 6 cut(s) 49, 265, 361, 391, 439, 679
StyI CCWWGG 1 cut(s) 925
TaaI ACNGT 2 cut(s) 180, 911
TaiI ACGT 1 cut(s) 213
TaqI TCGA 2 cut(s) 358, 663
TaqII GACCGA 2 cut(s) 5, 210
TatI WGTACW 2 cut(s) 196, 831
TauI GCSGC 1 cut(s) 713
TfiI GAWTC 2 cut(s) 649, 930
Tru1I TTAA 3 cut(s) 36, 348, 744
Tru9I TTAA 3 cut(s) 36, 348, 744
TscAI CASTG 3 cut(s) 183, 532, 850
TseFI GTSAC 2 cut(s) 601, 670
TseI GCWGC 1 cut(s) 713
Tsp45I GTSAC 2 cut(s) 601, 670
TspDTI ATGAA 5 cut(s) 218, 331, 636, 812, 888
TspRI CASTG 3 cut(s) 183, 532, 850
Van91I CCANNNNNTGG 2 cut(s) 488, 911
VpaK11BI GGWCC 3 cut(s) 17, 222, 491
XagI CCTNNNNNAGG 1 cut(s) 924
XapI RAATTY 3 cut(s) 575, 685, 819
XceI RCATGY 1 cut(s) 737
XspI CTAG 2 cut(s) 194, 953
Zsp2I ATGCAT 1 cut(s) 385
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.