Rmu_sc0001393.1_g000003

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001393.1
OG0000523
Physical Location & Seq
Reverse (-)
18371 .. 18854
484 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0001393.1_g000003.1.cds

Sequence Viewer

Length: 321 bp
atgccaagagccaacgaccgtaaacatggtcagcaacttgcctatcctgaagccgttcgtttgaccaaaccaagtaatcaggcctttaaaggacaggtcgatgacaagtaccagtactcaatggaggacaaagataacaaggtccatggatggatttctacagaccatttggtgggattctggatgatcacacccagtgatgaatttcgttccgctggacccatgaagcagggcctaacatcccatgttggtccaactaccctctcggtaagtacaagtaccataaggctttgtttctctcatcaatatgtgaccgactaa
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

106

Amino Acids

12.0

Weight (kDa)

7.92

Isoelectric Point (pI)

20.04

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)
AccB7I CCANNNNNTGG 1 cut(s) 172
AciI CCGC 1 cut(s) 213
AcsI RAATTY 1 cut(s) 203
AcuI CTGAAG 1 cut(s) 69
AdeI CACNNNGTG 1 cut(s) 197
AfaI GTAC 4 cut(s) 110, 116, 274, 280
AfiI CCNNNNNNNGG 1 cut(s) 172
AoxI GGCC 2 cut(s) 81, 232
ApoI RAATTY 1 cut(s) 203
Asp700I GAANNNNTTC 1 cut(s) 54
AspS9I GGNCC 4 cut(s) 142, 218, 232, 251
AvaII GGWCC 3 cut(s) 142, 218, 251
BccI CCATC 1 cut(s) 144
BceAI ACGGC 1 cut(s) 38
BclI TGATCA 1 cut(s) 186
BfmI CTRYAG 1 cut(s) 159
BmcAI AGTACT 1 cut(s) 116
Bme18I GGWCC 3 cut(s) 142, 218, 251
BmgT120I GGNCC 4 cut(s) 142, 218, 232, 251
BmiI GGNNCC 1 cut(s) 220
BmrI ACTGGG 1 cut(s) 189
BmuI ACTGGG 1 cut(s) 189
BsaJI CCNNGG 1 cut(s) 145
Bsc4I CCNNNNNNNGG 1 cut(s) 172
Bse1I ACTGG 2 cut(s) 112, 195
BseDI CCNNGG 1 cut(s) 145
BseGI GGATG 3 cut(s) 155, 189, 239
BseLI CCNNNNNNNGG 1 cut(s) 172
BseNI ACTGG 2 cut(s) 112, 195
Bsh1285I CGRYCG 1 cut(s) 19
BshFI GGCC 2 cut(s) 83, 234
BsiEI CGRYCG 1 cut(s) 19
BslI CCNNNNNNNGG 1 cut(s) 172
BsnI GGCC 2 cut(s) 83, 234
Bsp143I GATC 1 cut(s) 186
Bsp19I CCATGG 1 cut(s) 145
BspACI CCGC 1 cut(s) 213
BspANI GGCC 2 cut(s) 83, 234
BspLI GGNNCC 1 cut(s) 220
BsrI ACTGG 2 cut(s) 112, 195
BssECI CCNNGG 1 cut(s) 145
BssMI GATC 1 cut(s) 186
BssT1I CCWWGG 1 cut(s) 145
Bst4CI ACNGT 1 cut(s) 20
BstDSI CCRYGG 1 cut(s) 145
BstF5I GGATG 3 cut(s) 155, 189, 239
BstKTI GATC 1 cut(s) 189
BstMBI GATC 1 cut(s) 186
BstMCI CGRYCG 1 cut(s) 19
BstSFI CTRYAG 1 cut(s) 159
BsuRI GGCC 2 cut(s) 83, 234
BtgI CCRYGG 1 cut(s) 145
BtsCI GGATG 3 cut(s) 155, 189, 239
BtsIMutI CAGTG 1 cut(s) 202
Cfr13I GGNCC 4 cut(s) 142, 218, 232, 251
Csp6I GTAC 4 cut(s) 109, 115, 273, 279
CviAII CATG 4 cut(s) 26, 146, 223, 245
CviJI RGCY 5 cut(s) 11, 53, 83, 234, 289
CviKI_1 RGCY 5 cut(s) 11, 53, 83, 234, 289
CviQI GTAC 4 cut(s) 109, 115, 273, 279
DpnI GATC 1 cut(s) 188
DpnII GATC 1 cut(s) 186
DraI TTTAAA 1 cut(s) 88
DraIII CACNNNGTG 1 cut(s) 197
Eco130I CCWWGG 1 cut(s) 145
Eco147I AGGCCT 1 cut(s) 83
Eco47I GGWCC 3 cut(s) 142, 218, 251
Eco57I CTGAAG 1 cut(s) 69
EcoO109I RGGNCCY 1 cut(s) 232
EcoT14I CCWWGG 1 cut(s) 145
ErhI CCWWGG 1 cut(s) 145
FaeI CATG 4 cut(s) 29, 149, 226, 248
FaiI YATR 6 cut(s) 27, 147, 224, 246, 284, 309
FatI CATG 4 cut(s) 25, 145, 222, 244
FbaI TGATCA 1 cut(s) 186
FokI GGATG 3 cut(s) 162, 196, 226
HaeIII GGCC 2 cut(s) 83, 234
Hin1II CATG 4 cut(s) 29, 149, 226, 248
HinfI GANTC 1 cut(s) 177
Hpy166II GTNNAC 1 cut(s) 23
Hpy188III TCNNGA 2 cut(s) 47, 181
Hpy8I GTNNAC 1 cut(s) 23
HpyCH4III ACNGT 1 cut(s) 20
Hsp92II CATG 4 cut(s) 29, 149, 226, 248
Ksp22I TGATCA 1 cut(s) 186
Kzo9I GATC 1 cut(s) 186
LpnPI CCDG 8 cut(s) 60, 65, 80, 125, 166, 201, 208, 215
MaeIII GTNAC 1 cut(s) 310
MalI GATC 1 cut(s) 188
MboI GATC 1 cut(s) 186
MluCI AATT 1 cut(s) 203
MmeI TCCRAC 1 cut(s) 278
MnlI CCTC 2 cut(s) 118, 272
MroXI GAANNNNTTC 1 cut(s) 54
MseI TTAA 1 cut(s) 87
MslI CAYNNNNRTG 1 cut(s) 306
MspA1I CMGCKG 1 cut(s) 215
NcoI CCATGG 1 cut(s) 145
NdeII GATC 1 cut(s) 186
NlaIII CATG 4 cut(s) 29, 149, 226, 248
NlaIV GGNNCC 1 cut(s) 220
NmuCI GTSAC 1 cut(s) 310
PceI AGGCCT 1 cut(s) 83
PdmI GAANNNNTTC 1 cut(s) 54
PfeI GAWTC 1 cut(s) 177
PflMI CCANNNNNTGG 1 cut(s) 172
PspN4I GGNNCC 1 cut(s) 220
PspPI GGNCC 4 cut(s) 142, 218, 232, 251
RsaI GTAC 4 cut(s) 110, 116, 274, 280
RsaNI GTAC 4 cut(s) 109, 115, 273, 279
RseI CAYNNNNRTG 1 cut(s) 306
SaqAI TTAA 1 cut(s) 87
Sau3AI GATC 1 cut(s) 186
Sau96I GGNCC 4 cut(s) 142, 218, 232, 251
ScaI AGTACT 1 cut(s) 116
SetI ASST 2 cut(s) 99, 144
SfcI CTRYAG 1 cut(s) 159
SinI GGWCC 3 cut(s) 142, 218, 251
SmiMI CAYNNNNRTG 1 cut(s) 306
Sse9I AATT 1 cut(s) 203
SseBI AGGCCT 1 cut(s) 83
SsiI CCGC 1 cut(s) 213
StuI AGGCCT 1 cut(s) 83
StyI CCWWGG 1 cut(s) 145
TaaI ACNGT 1 cut(s) 20
TaqI TCGA 1 cut(s) 99
TasI AATT 1 cut(s) 203
TatI WGTACW 2 cut(s) 114, 272
TfiI GAWTC 1 cut(s) 177
Tru1I TTAA 1 cut(s) 87
Tru9I TTAA 1 cut(s) 87
TscAI CASTG 1 cut(s) 202
TseFI GTSAC 1 cut(s) 310
Tsp45I GTSAC 1 cut(s) 310
TspDTI ATGAA 2 cut(s) 216, 239
TspRI CASTG 1 cut(s) 202
Van91I CCANNNNNTGG 1 cut(s) 172
VpaK11BI GGWCC 3 cut(s) 142, 218, 251
XapI RAATTY 1 cut(s) 203
XmnI GAANNNNTTC 1 cut(s) 54
ZrmI AGTACT 1 cut(s) 116
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.