Rmu_sc0004733.1_g000013

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004733.1
OG0000523
Physical Location & Seq
Reverse (-)
77642 .. 78815
1174 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004733.1_g000013.1.cds

Sequence Viewer

Length: 771 bp
atgtgtgcagaactgagaaggttgtattctcagccaatccaagaactattcgcctcttctggacagctcccacttcgaatggtgtacaggtctcaaaacgactccaatatggctgaaattttgaaggttgacattacaattgaaccaggaagtaaaatccaattggctagtgttacttacaaacctccgagaaccggtaccggtcctacattgtgggaaattggcattcctgatcgcacagctgcggagttctacataccggatccatatccaactctcatgaacaagttgtacaaggggagtcggttggacaagtttaggcagtacgggttgtggtcacgttattatgagcgttaccttaacaatgacctcatctaccttgttggtgctaacaattaccgtgaggattggttttatgctcaagtgactagaagtgtaggaaatggccggtatgtaggaactacatggcagatacagtttgaactcaagaatgtggtcaatcccggaaactatatacttcaactggccttggcatcagccacttttgcagaattgcaagttcgggttaacaatttgaatgccaagccacctcttttttcgacggggctaataggcgacgacaatgctatagcaagacttggaattcatggcatatactggttatggagtattgatgtaccgagcactctactacgcgaaggaagcaacaccatctatcttactcagtccagatcgagatggcaattcacctttccacggagtcatgtatga
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

256

Amino Acids

29.44

Weight (kDa)

9.32

Isoelectric Point (pI)

39.57

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
Acc65I GGTACC 1 cut(s) 197
AccB1I GGYRCC 1 cut(s) 197
AccII CGCG 1 cut(s) 696
AciI CCGC 1 cut(s) 245
AclWI GGATC 2 cut(s) 257, 270
AcoI YGGCCR 1 cut(s) 445
AcsI RAATTY 2 cut(s) 117, 642
AfaI GTAC 5 cut(s) 86, 199, 293, 326, 678
AfiI CCNNNNNNNGG 2 cut(s) 194, 756
AgeI ACCGGT 2 cut(s) 194, 200
AgsI TTSAA 5 cut(s) 124, 143, 482, 521, 577
AjnI CCWGG 1 cut(s) 145
AluBI AGCT 2 cut(s) 67, 242
AluI AGCT 2 cut(s) 67, 242
Alw21I GWGCWC 1 cut(s) 686
Alw26I GTCTC 1 cut(s) 96
AlwI GGATC 2 cut(s) 257, 270
AoxI GGCC 2 cut(s) 445, 525
ApeKI GCWGC 1 cut(s) 242
ApoI RAATTY 2 cut(s) 117, 642
AsiGI ACCGGT 2 cut(s) 194, 200
Asp718I GGTACC 1 cut(s) 197
AspS9I GGNCC 1 cut(s) 203
AsuC2I CCSGG 1 cut(s) 504
AsuHPI GGTGA 1 cut(s) 739
AsuII TTCGAA 1 cut(s) 76
AvaII GGWCC 1 cut(s) 203
BamHI GGATCC 1 cut(s) 262
BanI GGYRCC 1 cut(s) 197
Bbv12I GWGCWC 1 cut(s) 686
BbvI GCAGC 1 cut(s) 229
BccI CCATC 2 cut(s) 719, 732
BcgI CGANNNNNNTGC 2 cut(s) 605, 639
BciT130I CCWGG 1 cut(s) 147
BcnI CCSGG 1 cut(s) 504
BcoDI GTCTC 1 cut(s) 96
BfaI CTAG 2 cut(s) 168, 429
BfmI CTRYAG 1 cut(s) 627
BisI GCNGC 1 cut(s) 243
BlsI GCNGC 1 cut(s) 244
Bme1390I CCNGG 2 cut(s) 147, 504
Bme18I GGWCC 1 cut(s) 203
BmgT120I GGNCC 1 cut(s) 203
BmiI GGNNCC 2 cut(s) 199, 264
BmrFI CCNGG 2 cut(s) 147, 504
BmsI GCATC 1 cut(s) 542
Bpu14I TTCGAA 1 cut(s) 76
BpuEI CTTGAG 2 cut(s) 405, 470
BpuMI CCSGG 1 cut(s) 504
BsaBI GATNNNNATC 1 cut(s) 267
BsaI GGTCTC 1 cut(s) 96
BsaJI CCNNGG 2 cut(s) 528, 755
BsaWI WCCGGW 3 cut(s) 194, 200, 259
Bsc4I CCNNNNNNNGG 2 cut(s) 194, 756
Bse118I RCCGGY 3 cut(s) 194, 200, 447
Bse1I ACTGG 2 cut(s) 528, 662
Bse8I GATNNNNATC 1 cut(s) 267
BseBI CCWGG 1 cut(s) 147
BseDI CCNNGG 2 cut(s) 528, 755
BseJI GATNNNNATC 1 cut(s) 267
BseLI CCNNNNNNNGG 2 cut(s) 194, 756
BseMII CTCAG 3 cut(s) 5, 44, 737
BseNI ACTGG 2 cut(s) 528, 662
BseXI GCAGC 1 cut(s) 229
BsgI GTGCAG 1 cut(s) 27
Bsh1236I CGCG 1 cut(s) 696
BshFI GGCC 2 cut(s) 447, 527
BshNI GGYRCC 1 cut(s) 197
BshTI ACCGGT 2 cut(s) 194, 200
BsiHKAI GWGCWC 1 cut(s) 686
BsiSI CCGG 5 cut(s) 195, 201, 260, 448, 504
BslI CCNNNNNNNGG 2 cut(s) 194, 756
BsmAI GTCTC 1 cut(s) 96
BsmI GAATGC 2 cut(s) 225, 583
BsnI GGCC 2 cut(s) 447, 527
Bso31I GGTCTC 1 cut(s) 96
Bsp119I TTCGAA 1 cut(s) 76
Bsp1286I GDGCHC 1 cut(s) 686
Bsp1407I TGTACA 2 cut(s) 84, 291
Bsp143I GATC 3 cut(s) 232, 262, 731
BspACI CCGC 1 cut(s) 245
BspANI GGCC 2 cut(s) 447, 527
BspCNI CTCAG 3 cut(s) 6, 43, 736
BspFNI CGCG 1 cut(s) 696
BspHI TCATGA 1 cut(s) 279
BspLI GGNNCC 2 cut(s) 199, 264
BspPI GGATC 2 cut(s) 257, 270
BspT104I TTCGAA 1 cut(s) 76
BspT107I GGYRCC 1 cut(s) 197
BspTNI GGTCTC 1 cut(s) 96
BsrFI RCCGGY 3 cut(s) 194, 200, 447
BsrGI TGTACA 2 cut(s) 84, 291
BsrI ACTGG 2 cut(s) 528, 662
BssAI RCCGGY 3 cut(s) 194, 200, 447
BssECI CCNNGG 2 cut(s) 528, 755
BssMI GATC 3 cut(s) 232, 262, 731
BssT1I CCWWGG 1 cut(s) 528
Bst2UI CCWGG 1 cut(s) 147
Bst4CI ACNGT 2 cut(s) 401, 477
Bst6I CTCTTC 1 cut(s) 61
BstAUI TGTACA 2 cut(s) 84, 291
BstBI TTCGAA 1 cut(s) 76
BstDEI CTNAG 3 cut(s) 14, 30, 723
BstDSI CCRYGG 1 cut(s) 755
BstFNI CGCG 1 cut(s) 696
BstKTI GATC 3 cut(s) 235, 265, 734
BstMAI GTCTC 1 cut(s) 96
BstMBI GATC 3 cut(s) 232, 262, 731
BstMWI GCNNNNNNNGC 2 cut(s) 545, 702
BstNI CCWGG 1 cut(s) 147
BstSCI CCNGG 2 cut(s) 145, 502
BstSFI CTRYAG 1 cut(s) 627
BstUI CGCG 1 cut(s) 696
BstV1I GCAGC 1 cut(s) 229
BstX2I RGATCY 1 cut(s) 262
BstYI RGATCY 1 cut(s) 262
BsuRI GGCC 2 cut(s) 447, 527
BtgI CCRYGG 1 cut(s) 755
CciI TCATGA 1 cut(s) 279
Cfr10I RCCGGY 3 cut(s) 194, 200, 447
Cfr13I GGNCC 1 cut(s) 203
Csp6I GTAC 5 cut(s) 85, 198, 292, 325, 677
CspAI ACCGGT 2 cut(s) 194, 200
CviAII CATG 4 cut(s) 280, 465, 647, 764
CviQI GTAC 5 cut(s) 85, 198, 292, 325, 677
DdeI CTNAG 3 cut(s) 14, 30, 723
DpnI GATC 3 cut(s) 234, 264, 733
DpnII GATC 3 cut(s) 232, 262, 731
EaeI YGGCCR 1 cut(s) 445
Eam1104I CTCTTC 1 cut(s) 61
EarI CTCTTC 1 cut(s) 61
Eco130I CCWWGG 1 cut(s) 528
Eco31I GGTCTC 1 cut(s) 96
Eco47I GGWCC 1 cut(s) 203
EcoRI GAATTC 1 cut(s) 642
EcoRII CCWGG 1 cut(s) 145
EcoT14I CCWWGG 1 cut(s) 528
ErhI CCWWGG 1 cut(s) 528
FaeI CATG 4 cut(s) 283, 468, 650, 767
FatI CATG 4 cut(s) 279, 464, 646, 763
Fnu4HI GCNGC 1 cut(s) 243
Fsp4HI GCNGC 1 cut(s) 243
FspBI CTAG 2 cut(s) 168, 429
GluI GCNGC 1 cut(s) 243
HaeIII GGCC 2 cut(s) 447, 527
HapII CCGG 5 cut(s) 195, 201, 260, 448, 504
Hin1II CATG 4 cut(s) 283, 468, 650, 767
HincII GTYRAC 2 cut(s) 130, 568
HindII GTYRAC 2 cut(s) 130, 568
HinfI GANTC 3 cut(s) 101, 301, 760
HpaI GTTAAC 1 cut(s) 568
HpaII CCGG 5 cut(s) 195, 201, 260, 448, 504
HphI GGTGA 1 cut(s) 739
Hpy166II GTNNAC 3 cut(s) 85, 130, 568
Hpy188I TCNGA 1 cut(s) 189
Hpy188III TCNNGA 6 cut(s) 60, 230, 280, 487, 729, 735
Hpy8I GTNNAC 3 cut(s) 85, 130, 568
Hpy99I CGWCG 2 cut(s) 604, 620
HpyAV CCTTC 3 cut(s) 12, 118, 692
HpyCH4III ACNGT 2 cut(s) 401, 477
HpyCH4IV ACGT 1 cut(s) 340
HpyCH4V TGCA 3 cut(s) 8, 548, 556
HpyF10VI GCNNNNNNNGC 2 cut(s) 545, 702
HpyF3I CTNAG 3 cut(s) 14, 30, 723
HpySE526I ACGT 1 cut(s) 340
Hsp92II CATG 4 cut(s) 283, 468, 650, 767
KpnI GGTACC 1 cut(s) 201
KspAI GTTAAC 1 cut(s) 568
Kzo9I GATC 3 cut(s) 232, 262, 731
LmnI GCTCC 1 cut(s) 72
Lsp1109I GCAGC 1 cut(s) 229
LweI GCATC 1 cut(s) 542
MaeI CTAG 2 cut(s) 168, 429
MaeII ACGT 1 cut(s) 340
MaeIII GTNAC 4 cut(s) 172, 336, 353, 424
MalI GATC 3 cut(s) 234, 264, 733
MboI GATC 3 cut(s) 232, 262, 731
MboII GAAGA 1 cut(s) 48
MfeI CAATTG 2 cut(s) 138, 161
MflI RGATCY 1 cut(s) 262
MhlI GDGCHC 1 cut(s) 686
MluCI AATT 9 cut(s) 117, 138, 161, 219, 394, 551, 571, 642, 743
MlyI GAGTC 3 cut(s) 95, 310, 769
MmeI TCCRAC 2 cut(s) 288, 296
MnlI CCTC 5 cut(s) 64, 195, 380, 397, 600
MseI TTAA 2 cut(s) 360, 567
MspA1I CMGCKG 1 cut(s) 242
MspI CCGG 5 cut(s) 195, 201, 260, 448, 504
MspR9I CCNGG 2 cut(s) 147, 504
MunI CAATTG 2 cut(s) 138, 161
Mva1269I GAATGC 2 cut(s) 225, 583
MvaI CCWGG 1 cut(s) 147
MvnI CGCG 1 cut(s) 696
MwoI GCNNNNNNNGC 2 cut(s) 545, 702
NciI CCSGG 1 cut(s) 504
NdeII GATC 3 cut(s) 232, 262, 731
NlaIII CATG 4 cut(s) 283, 468, 650, 767
NlaIV GGNNCC 2 cut(s) 199, 264
NmuCI GTSAC 2 cut(s) 336, 424
NspV TTCGAA 1 cut(s) 76
PagI TCATGA 1 cut(s) 279
PctI GAATGC 2 cut(s) 225, 583
PfoI TCCNGGA 1 cut(s) 502
PinAI ACCGGT 2 cut(s) 194, 200
PkrI GCNGC 1 cut(s) 244
PleI GAGTC 3 cut(s) 95, 309, 768
PpsI GAGTC 3 cut(s) 95, 309, 768
Psp6I CCWGG 1 cut(s) 145
PspGI CCWGG 1 cut(s) 145
PspN4I GGNNCC 2 cut(s) 199, 264
PspPI GGNCC 1 cut(s) 203
PsrI GAACNNNNNNTAC 2 cut(s) 275, 307
PsuI RGATCY 1 cut(s) 262
PvuII CAGCTG 1 cut(s) 242
RsaI GTAC 5 cut(s) 86, 199, 293, 326, 678
RsaNI GTAC 5 cut(s) 85, 198, 292, 325, 677
SaqAI TTAA 2 cut(s) 360, 567
SatI GCNGC 1 cut(s) 243
Sau3AI GATC 3 cut(s) 232, 262, 731
Sau96I GGNCC 1 cut(s) 203
SchI GAGTC 3 cut(s) 95, 310, 769
ScrFI CCNGG 2 cut(s) 147, 504
SduI GDGCHC 1 cut(s) 686
SfaNI GCATC 1 cut(s) 542
SfcI CTRYAG 1 cut(s) 627
SfuI TTCGAA 1 cut(s) 76
SinI GGWCC 1 cut(s) 203
SmlI CTYRAG 2 cut(s) 420, 485
SmoI CTYRAG 2 cut(s) 420, 485
Sse9I AATT 9 cut(s) 117, 138, 161, 219, 394, 551, 571, 642, 743
SsiI CCGC 1 cut(s) 245
SspMI CTAG 2 cut(s) 168, 429
StyD4I CCNGG 2 cut(s) 145, 502
StyI CCWWGG 1 cut(s) 528
TaaI ACNGT 2 cut(s) 401, 477
TaiI ACGT 1 cut(s) 343
TaqI TCGA 3 cut(s) 76, 599, 734
TasI AATT 9 cut(s) 117, 138, 161, 219, 394, 551, 571, 642, 743
TatI WGTACW 2 cut(s) 84, 291
Tru1I TTAA 2 cut(s) 360, 567
Tru9I TTAA 2 cut(s) 360, 567
TseFI GTSAC 2 cut(s) 336, 424
TseI GCWGC 1 cut(s) 242
Tsp45I GTSAC 2 cut(s) 336, 424
TspDTI ATGAA 2 cut(s) 296, 635
VpaK11BI GGWCC 1 cut(s) 203
XapI RAATTY 2 cut(s) 117, 642
XspI CTAG 2 cut(s) 168, 429
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.