Rroxscaffold_2G00133400

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000523
Physical Location & Seq
Reverse (-)
70634034 .. 70637056
3023 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00133400.1

Sequence Viewer

Length: 603 bp
ATGGTTTACAAGCTTCAAAAAGACAAATTTCAGTATATGGCTTTATCAGACACTAGGCAAACATTCATGCCAAGAGCCAACGACCGTAAACATGGTCAGCAACTTGCCTATCCTGAAGCCGTTCGTCTAACCAAACCAAGTAATCAGGCCTTTAAAGGGCAGGTCGATGACAAGTACCAGTACTCAATGGAGGACAAAGATAACAAGGTACATGGATGGATTTCTACAGACCATTCGGTGGGATTCTGGATGATCACACCCAGTGATGAATTTCGTTCCGCTGGACCCATGAAGCAGGGCCTAACATCCCATGTTGGTCCAACTACCCTCTCGATGTTTGTTAGTACTCATTATGCTGGGAAGCGAGCGGGGATAGAATTGAAAAAAGGTGAGGCATGGAAAAAGGTTTTTGGGCCTGTCTTTGTGTATCTTAATTCCGCTCCAAGATCAAAAAATACTACCGGTACACTCTGGAATGATGCGAAGGAGCAGATGATTGAAGAAGTCAAAAGATGGCCATACAATTTCACTCAATCCAAAGACCTTCCTTCTTCAGATCAACGGGGATCGATTTGTGGTCGACTAATAGTACATGATCGGTAA
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

200

Amino Acids

22.95

Weight (kDa)

9.56

Isoelectric Point (pI)

40.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 1 - 55 4e-18 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000523)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65210 AT2G22620 AT2G22620 AT2G22620 AT2G22620 AT2G22620 AT4G37950 AT4G37950 AT4G38030
fragaria_vesca FvH4_1g03290 FvH4_1g03300 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19200
malus_domestica MD01G1043200.v1.1 MD01G1043300.v1.1 MD02G1298500.v1.1 MD02G1307100.v1.1 MD04G1240500.v1.1 MD12G1256900.v1.1 MD12G1257400.v1.1 MD12G1257500.v1.1 MD15G1308100.v1.1 MD15G1308200.v1.1
prunus_persica Prupe.6G208400_v2.0.a1 Prupe.6G208400_v2.0.a1 Prupe.6G208400_v2.0.a1
pyrus_communis pycom01g07080 pycom15g27240
rosa_chinensis RchiOBHm_Chr2g0088421 RchiOBHm_Chr2g0088461 RchiOBHm_Chr2g0088481 RchiOBHm_Chr2g0110401 RchiOBHm_Chr2g0110411 RchiOBHm_Chr2g0110431
rosa_laevigata RLG00000003093 RLG00000015953 RLG00000015956 RLG00000015959 RLG00000017802 RLG00000017806
rosa_multiflora Rmu_sc0001393.1_g000003 Rmu_sc0001393.1_g000009 Rmu_sc0004733.1_g000013 Rmu_sc0004733.1_g000022
rosa_roxburghii Rroxscaffold_2G00133400 Rroxscaffold_2G00133420 Rroxscaffold_2G00152640 Rroxscaffold_2G00152680
rosa_rugosa Rorug01G0484000 Rorug01G0484200 Rorug01G0484600 Rorug02G0166800 Rorug02G0166900 Rorug02G0167000 Rorug02G0167500 Rorug02G0167600 Rorug02G0167800 Rorug02G0167800 Rorug07G0116100
rosa_samantha Rh2AG038500 Rh2AG038800 Rh2AG039000 Rh2AG219300 Rh2AG219400 Rh2BG038100 Rh2BG038400 Rh2BG228800 Rh2BG229000 Rh2CG039000 Rh2CG039600 Rh2CG221000 Rh2CG221200 Rh2DG038600 Rh2DG038800 Rh2DG225500 Rh2DG225600
rosa_wichuraiana Rw2G003060 Rw2G003080 Rw2G016930 Rw2G016940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 151
AccB7I CCANNNNNTGG 1 cut(s) 238
AccBSI CCGCTC 2 cut(s) 368, 440
AccI GTMKAC 1 cut(s) 580
AciI CCGC 3 cut(s) 279, 368, 438
AclWI GGATC 1 cut(s) 574
AcoI YGGCCR 1 cut(s) 515
AcsI RAATTY 2 cut(s) 26, 269
AcuI CTGAAG 2 cut(s) 135, 537
AdeI CACNNNGTG 1 cut(s) 263
AfaI GTAC 6 cut(s) 176, 182, 210, 346, 466, 591
AfiI CCNNNNNNNGG 2 cut(s) 156, 238
AgeI ACCGGT 1 cut(s) 461
AgsI TTSAA 3 cut(s) 17, 382, 500
AluBI AGCT 1 cut(s) 13
AluI AGCT 1 cut(s) 13
AlwI GGATC 1 cut(s) 574
AoxI GGCC 4 cut(s) 147, 298, 413, 515
ApoI RAATTY 2 cut(s) 26, 269
AsiGI ACCGGT 1 cut(s) 461
Asp700I GAANNNNTTC 1 cut(s) 120
AspS9I GGNCC 4 cut(s) 284, 298, 317, 413
AsuHPI GGTGA 1 cut(s) 401
AvaII GGWCC 2 cut(s) 284, 317
BalI TGGCCA 1 cut(s) 517
BccI CCATC 2 cut(s) 210, 507
BceAI ACGGC 1 cut(s) 104
BclI TGATCA 1 cut(s) 252
BfaI CTAG 1 cut(s) 54
BfmI CTRYAG 1 cut(s) 225
BfuAI ACCTGC 1 cut(s) 151
BmcAI AGTACT 2 cut(s) 182, 346
Bme18I GGWCC 2 cut(s) 284, 317
BmgT120I GGNCC 4 cut(s) 284, 298, 317, 413
BmiI GGNNCC 1 cut(s) 286
BmrI ACTGGG 1 cut(s) 255
BmsI GCATC 1 cut(s) 469
BmuI ACTGGG 1 cut(s) 255
Bsa29I ATCGAT 1 cut(s) 569
BsaWI WCCGGW 1 cut(s) 461
Bsc4I CCNNNNNNNGG 2 cut(s) 156, 238
Bse118I RCCGGY 1 cut(s) 461
Bse1I ACTGG 2 cut(s) 178, 261
BseCI ATCGAT 1 cut(s) 569
BseGI GGATG 3 cut(s) 221, 255, 305
BseLI CCNNNNNNNGG 2 cut(s) 156, 238
BseNI ACTGG 2 cut(s) 178, 261
BseYI CCCAGC 1 cut(s) 356
Bsh1285I CGRYCG 1 cut(s) 85
BshFI GGCC 4 cut(s) 149, 300, 415, 517
BshTI ACCGGT 1 cut(s) 461
BshVI ATCGAT 1 cut(s) 569
BsiEI CGRYCG 1 cut(s) 85
BsiSI CCGG 1 cut(s) 462
BslI CCNNNNNNNGG 2 cut(s) 156, 238
BsnI GGCC 4 cut(s) 149, 300, 415, 517
Bsp143I GATC 5 cut(s) 252, 446, 556, 566, 595
BspACI CCGC 3 cut(s) 279, 368, 438
BspANI GGCC 4 cut(s) 149, 300, 415, 517
BspDI ATCGAT 1 cut(s) 569
BspLI GGNNCC 1 cut(s) 286
BspMI ACCTGC 1 cut(s) 151
BspPI GGATC 1 cut(s) 574
BsrBI CCGCTC 2 cut(s) 368, 440
BsrFI RCCGGY 1 cut(s) 461
BsrI ACTGG 2 cut(s) 178, 261
BssAI RCCGGY 1 cut(s) 461
BssMI GATC 5 cut(s) 252, 446, 556, 566, 595
Bst4CI ACNGT 1 cut(s) 86
BstC8I GCNNGC 1 cut(s) 366
BstF5I GGATG 3 cut(s) 221, 255, 305
BstKTI GATC 5 cut(s) 255, 449, 559, 569, 598
BstMBI GATC 5 cut(s) 252, 446, 556, 566, 595
BstMCI CGRYCG 1 cut(s) 85
BstSFI CTRYAG 1 cut(s) 225
Bsu15I ATCGAT 1 cut(s) 569
BsuRI GGCC 4 cut(s) 149, 300, 415, 517
BsuTUI ATCGAT 1 cut(s) 569
BtsCI GGATG 3 cut(s) 221, 255, 305
BtsIMutI CAGTG 1 cut(s) 268
BveI ACCTGC 1 cut(s) 151
Cac8I GCNNGC 1 cut(s) 366
Cfr10I RCCGGY 1 cut(s) 461
Cfr13I GGNCC 4 cut(s) 284, 298, 317, 413
ClaI ATCGAT 1 cut(s) 569
Csp6I GTAC 6 cut(s) 175, 181, 209, 345, 465, 590
CspAI ACCGGT 1 cut(s) 461
CviAII CATG 7 cut(s) 67, 92, 212, 289, 311, 396, 593
CviJI RGCY 8 cut(s) 13, 41, 77, 119, 149, 300, 415, 517
CviKI_1 RGCY 8 cut(s) 13, 41, 77, 119, 149, 300, 415, 517
CviQI GTAC 6 cut(s) 175, 181, 209, 345, 465, 590
DpnI GATC 5 cut(s) 254, 448, 558, 568, 597
DpnII GATC 5 cut(s) 252, 446, 556, 566, 595
DraI TTTAAA 1 cut(s) 154
DraIII CACNNNGTG 1 cut(s) 263
EaeI YGGCCR 1 cut(s) 515
Eco147I AGGCCT 1 cut(s) 149
Eco47I GGWCC 2 cut(s) 284, 317
Eco57I CTGAAG 2 cut(s) 135, 537
EcoO109I RGGNCCY 1 cut(s) 298
FaeI CATG 7 cut(s) 70, 95, 215, 292, 314, 399, 596
FatI CATG 7 cut(s) 66, 91, 211, 288, 310, 395, 592
FauI CCCGC 1 cut(s) 361
FbaI TGATCA 1 cut(s) 252
FblI GTMKAC 1 cut(s) 580
FokI GGATG 3 cut(s) 228, 262, 292
FspBI CTAG 1 cut(s) 54
GsaI CCCAGC 1 cut(s) 360
HaeIII GGCC 4 cut(s) 149, 300, 415, 517
HapII CCGG 1 cut(s) 462
Hin1II CATG 7 cut(s) 70, 95, 215, 292, 314, 399, 596
HincII GTYRAC 1 cut(s) 581
HindII GTYRAC 1 cut(s) 581
HindIII AAGCTT 1 cut(s) 11
HinfI GANTC 1 cut(s) 243
HpaII CCGG 1 cut(s) 462
HphI GGTGA 1 cut(s) 401
Hpy166II GTNNAC 4 cut(s) 7, 89, 467, 581
Hpy188I TCNGA 2 cut(s) 49, 556
Hpy188III TCNNGA 4 cut(s) 113, 247, 331, 472
Hpy8I GTNNAC 4 cut(s) 7, 89, 467, 581
HpyAV CCTTC 3 cut(s) 478, 554, 558
HpyCH4III ACNGT 1 cut(s) 86
Hsp92II CATG 7 cut(s) 70, 95, 215, 292, 314, 399, 596
Ksp22I TGATCA 1 cut(s) 252
Kzo9I GATC 5 cut(s) 252, 446, 556, 566, 595
LmnI GCTCC 2 cut(s) 445, 487
LweI GCATC 1 cut(s) 469
MaeI CTAG 1 cut(s) 54
MalI GATC 5 cut(s) 254, 448, 558, 568, 597
MbiI CCGCTC 2 cut(s) 368, 440
MboI GATC 5 cut(s) 252, 446, 556, 566, 595
MboII GAAGA 2 cut(s) 512, 543
MlsI TGGCCA 1 cut(s) 517
MluCI AATT 5 cut(s) 26, 269, 377, 433, 523
MluNI TGGCCA 1 cut(s) 517
MmeI TCCRAC 1 cut(s) 344
MnlI CCTC 3 cut(s) 184, 338, 385
Mox20I TGGCCA 1 cut(s) 517
MroXI GAANNNNTTC 1 cut(s) 120
MscI TGGCCA 1 cut(s) 517
MseI TTAA 2 cut(s) 153, 432
Msp20I TGGCCA 1 cut(s) 517
MspA1I CMGCKG 1 cut(s) 281
MspI CCGG 1 cut(s) 462
NdeII GATC 5 cut(s) 252, 446, 556, 566, 595
NlaIII CATG 7 cut(s) 70, 95, 215, 292, 314, 399, 596
NlaIV GGNNCC 1 cut(s) 286
PceI AGGCCT 1 cut(s) 149
PdmI GAANNNNTTC 1 cut(s) 120
PfeI GAWTC 1 cut(s) 243
PflMI CCANNNNNTGG 1 cut(s) 238
PinAI ACCGGT 1 cut(s) 461
PspFI CCCAGC 1 cut(s) 356
PspN4I GGNNCC 1 cut(s) 286
PspPI GGNCC 4 cut(s) 284, 298, 317, 413
RsaI GTAC 6 cut(s) 176, 182, 210, 346, 466, 591
RsaNI GTAC 6 cut(s) 175, 181, 209, 345, 465, 590
SalI GTCGAC 1 cut(s) 579
SaqAI TTAA 2 cut(s) 153, 432
Sau3AI GATC 5 cut(s) 252, 446, 556, 566, 595
Sau96I GGNCC 4 cut(s) 284, 298, 317, 413
ScaI AGTACT 2 cut(s) 182, 346
SetI ASST 6 cut(s) 15, 165, 210, 391, 408, 546
SfaNI GCATC 1 cut(s) 469
SfcI CTRYAG 1 cut(s) 225
SinI GGWCC 2 cut(s) 284, 317
Sse9I AATT 5 cut(s) 26, 269, 377, 433, 523
SseBI AGGCCT 1 cut(s) 149
SsiI CCGC 3 cut(s) 279, 368, 438
SspMI CTAG 1 cut(s) 54
StuI AGGCCT 1 cut(s) 149
TaaI ACNGT 1 cut(s) 86
TaqI TCGA 4 cut(s) 165, 332, 569, 580
TasI AATT 5 cut(s) 26, 269, 377, 433, 523
TatI WGTACW 3 cut(s) 180, 344, 589
TfiI GAWTC 1 cut(s) 243
Tru1I TTAA 2 cut(s) 153, 432
Tru9I TTAA 2 cut(s) 153, 432
TscAI CASTG 1 cut(s) 268
TspDTI ATGAA 3 cut(s) 55, 282, 305
TspRI CASTG 1 cut(s) 268
Van91I CCANNNNNTGG 1 cut(s) 238
VpaK11BI GGWCC 2 cut(s) 284, 317
XapI RAATTY 2 cut(s) 26, 269
XmiI GTMKAC 1 cut(s) 580
XmnI GAANNNNTTC 1 cut(s) 120
XspI CTAG 1 cut(s) 54
ZrmI AGTACT 2 cut(s) 182, 346
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.