RLG00000003093

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0000523
Physical Location & Seq
Reverse (-)
44340917 .. 44341790
874 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000003093

Sequence Viewer

Length: 759 bp
ATGACCGGCAGCTATGGCACTACCTGCCTTAATGACCTCCAGAGTTTCATTCTCATTCTAATTGTCTGCGCCACAATTTGTGTCTTGGCTAGTATTACTTACGAACCTCCGAGAATCGGCATTCCTGATCGCACATTGTGGGAAATCGGCATTCCTGATCGCACATTGTGGGAAATCGGCATTCCTGATCGCACAGCTGCGGAGTTCTACATACCGGATCCATATCCAACTCTCATGAACAAGTTGTACAAGGGGAGTCGGTTGGACAAGTTTAGGCAATACGGGTTGTGGTCACGTTATTATGAGCATTACCCAAAAAATGACCTCATCTACCTTGTTGGTGCTAGCAATTACTGTGAGGATTGGTTTTATGCTCAAGTGACTAGAAGTGTAGGAAATGGCCGGTATGAAGGAACTACATGGCGGATACAGTTTGAACTCAACACTGTGGTCAATCCCGGAAACTATACACTTCAACTGGCCTTGGCATCAGCCACTTATGCAGAATTGCAAGTTCGGGTTAACAATTTGAATGCCGTGCCACCTCTTTTTTCGACAGGGCTAATAGGCGACGACAATGCTATAGCAAGACTTGGAATTCATGGCGTATACTGGTTATGGAGTATTGATGTACCGAGCACTCTACTACGCGAAGGAAGCAACACCATCTATCTTACTCAGTCCAGAGATGGCAATTCACCTTTCCAAGGAGTCATGTATGATTATATAAGACAAGAAGGACCTTCTGAGAAACCATAA
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

253

Amino Acids

28.65

Weight (kDa)

5.11

Isoelectric Point (pI)

35.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBM-like PF14683 55 - 244 6.6e-48 Polysaccharide lyase family 4, domain III
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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) 32
AccI GTMKAC 1 cut(s) 609
AccII CGCG 1 cut(s) 651
AciI CCGC 2 cut(s) 200, 424
AclWI GGATC 2 cut(s) 212, 225
AcoI YGGCCR 1 cut(s) 400
AcsI RAATTY 1 cut(s) 597
AdeI CACNNNGTG 2 cut(s) 138, 168
AfaI GTAC 2 cut(s) 248, 633
AfiI CCNNNNNNNGG 2 cut(s) 116, 707
AgsI TTSAA 3 cut(s) 437, 476, 532
AluBI AGCT 2 cut(s) 12, 197
AluI AGCT 2 cut(s) 12, 197
Alw21I GWGCWC 1 cut(s) 641
AlwI GGATC 2 cut(s) 212, 225
AoxI GGCC 2 cut(s) 400, 480
ApeKI GCWGC 2 cut(s) 9, 197
ApoI RAATTY 1 cut(s) 597
AspLEI GCGC 1 cut(s) 71
AspS9I GGNCC 1 cut(s) 740
AsuC2I CCSGG 1 cut(s) 459
AsuHPI GGTGA 1 cut(s) 690
AsuNHI GCTAGC 1 cut(s) 344
AvaII GGWCC 1 cut(s) 740
BamHI GGATCC 1 cut(s) 217
Bbv12I GWGCWC 1 cut(s) 641
BbvI GCAGC 2 cut(s) 21, 184
BccI CCATC 2 cut(s) 674, 683
BceAI ACGGC 1 cut(s) 521
BcgI CGANNNNNNTGC 2 cut(s) 560, 594
BciVI GTATCC 1 cut(s) 420
BcnI CCSGG 1 cut(s) 459
BfaI CTAG 3 cut(s) 90, 345, 384
BfmI CTRYAG 1 cut(s) 582
BfuAI ACCTGC 1 cut(s) 32
BfuI GTATCC 1 cut(s) 420
BisI GCNGC 2 cut(s) 10, 198
BlsI GCNGC 2 cut(s) 11, 199
Bme1390I CCNGG 1 cut(s) 459
Bme18I GGWCC 1 cut(s) 740
BmgT120I GGNCC 1 cut(s) 740
BmiI GGNNCC 1 cut(s) 219
BmrFI CCNGG 1 cut(s) 459
BmsI GCATC 1 cut(s) 497
BmtI GCTAGC 1 cut(s) 348
BpmI CTGGAG 1 cut(s) 23
BpuEI CTTGAG 1 cut(s) 360
BpuMI CCSGG 1 cut(s) 459
BsaBI GATNNNNATC 1 cut(s) 222
BsaJI CCNNGG 2 cut(s) 483, 706
BsaWI WCCGGW 1 cut(s) 214
Bsc4I CCNNNNNNNGG 2 cut(s) 116, 707
Bse118I RCCGGY 2 cut(s) 5, 402
Bse1I ACTGG 2 cut(s) 483, 617
Bse8I GATNNNNATC 1 cut(s) 222
BseDI CCNNGG 2 cut(s) 483, 706
BseJI GATNNNNATC 1 cut(s) 222
BseLI CCNNNNNNNGG 2 cut(s) 116, 707
BseMII CTCAG 2 cut(s) 692, 738
BseNI ACTGG 2 cut(s) 483, 617
BseXI GCAGC 2 cut(s) 21, 184
Bsh1236I CGCG 1 cut(s) 651
BshFI GGCC 2 cut(s) 402, 482
BsiHKAI GWGCWC 1 cut(s) 641
BsiSI CCGG 4 cut(s) 6, 215, 403, 459
BslI CCNNNNNNNGG 2 cut(s) 116, 707
BsmI GAATGC 4 cut(s) 120, 150, 180, 538
BsnI GGCC 2 cut(s) 402, 482
Bsp1286I GDGCHC 1 cut(s) 641
Bsp1407I TGTACA 1 cut(s) 246
Bsp143I GATC 4 cut(s) 127, 157, 187, 217
BspACI CCGC 2 cut(s) 200, 424
BspANI GGCC 2 cut(s) 402, 482
BspCNI CTCAG 2 cut(s) 691, 739
BspFNI CGCG 1 cut(s) 651
BspHI TCATGA 1 cut(s) 234
BspLI GGNNCC 1 cut(s) 219
BspMI ACCTGC 1 cut(s) 32
BspOI GCTAGC 1 cut(s) 348
BspPI GGATC 2 cut(s) 212, 225
BsrFI RCCGGY 2 cut(s) 5, 402
BsrGI TGTACA 1 cut(s) 246
BsrI ACTGG 2 cut(s) 483, 617
BssAI RCCGGY 2 cut(s) 5, 402
BssECI CCNNGG 2 cut(s) 483, 706
BssMI GATC 4 cut(s) 127, 157, 187, 217
BssNAI GTATAC 1 cut(s) 610
BssT1I CCWWGG 2 cut(s) 483, 706
Bst1107I GTATAC 1 cut(s) 610
Bst4CI ACNGT 3 cut(s) 356, 432, 448
BstAPI GCANNNNNTGC 1 cut(s) 24
BstAUI TGTACA 1 cut(s) 246
BstC8I GCNNGC 1 cut(s) 346
BstDEI CTNAG 2 cut(s) 678, 747
BstENI CCTNNNNNAGG 1 cut(s) 705
BstFNI CGCG 1 cut(s) 651
BstHHI GCGC 1 cut(s) 71
BstKTI GATC 4 cut(s) 130, 160, 190, 220
BstMBI GATC 4 cut(s) 127, 157, 187, 217
BstMWI GCNNNNNNNGC 4 cut(s) 15, 24, 500, 657
BstSCI CCNGG 1 cut(s) 457
BstSFI CTRYAG 1 cut(s) 582
BstUI CGCG 1 cut(s) 651
BstV1I GCAGC 2 cut(s) 21, 184
BstX2I RGATCY 1 cut(s) 217
BstYI RGATCY 1 cut(s) 217
BstZ17I GTATAC 1 cut(s) 610
BsuI GTATCC 1 cut(s) 420
BsuRI GGCC 2 cut(s) 402, 482
BtsIMutI CAGTG 1 cut(s) 444
BveI ACCTGC 1 cut(s) 32
Cac8I GCNNGC 1 cut(s) 346
CciI TCATGA 1 cut(s) 234
CfoI GCGC 1 cut(s) 71
Cfr10I RCCGGY 2 cut(s) 5, 402
Cfr13I GGNCC 1 cut(s) 740
Csp6I GTAC 2 cut(s) 247, 632
CviAII CATG 4 cut(s) 235, 420, 602, 715
CviJI RGCY 7 cut(s) 12, 89, 197, 402, 482, 494, 562
CviKI_1 RGCY 7 cut(s) 12, 89, 197, 402, 482, 494, 562
CviQI GTAC 2 cut(s) 247, 632
DdeI CTNAG 2 cut(s) 678, 747
DpnI GATC 4 cut(s) 129, 159, 189, 219
DpnII GATC 4 cut(s) 127, 157, 187, 217
DraIII CACNNNGTG 2 cut(s) 138, 168
EaeI YGGCCR 1 cut(s) 400
EciI GGCGGA 1 cut(s) 439
Eco130I CCWWGG 2 cut(s) 483, 706
Eco47I GGWCC 1 cut(s) 740
EcoNI CCTNNNNNAGG 1 cut(s) 705
EcoO109I RGGNCCY 1 cut(s) 740
EcoRI GAATTC 1 cut(s) 597
EcoT14I CCWWGG 2 cut(s) 483, 706
ErhI CCWWGG 2 cut(s) 483, 706
FaeI CATG 4 cut(s) 238, 423, 605, 718
FatI CATG 4 cut(s) 234, 419, 601, 714
FblI GTMKAC 1 cut(s) 609
Fnu4HI GCNGC 2 cut(s) 10, 198
Fsp4HI GCNGC 2 cut(s) 10, 198
FspBI CTAG 3 cut(s) 90, 345, 384
GlaI GCGC 1 cut(s) 70
GluI GCNGC 2 cut(s) 10, 198
GsuI CTGGAG 1 cut(s) 23
HaeIII GGCC 2 cut(s) 402, 482
HapII CCGG 4 cut(s) 6, 215, 403, 459
HhaI GCGC 1 cut(s) 71
Hin1II CATG 4 cut(s) 238, 423, 605, 718
Hin6I GCGC 1 cut(s) 69
HinP1I GCGC 1 cut(s) 69
HincII GTYRAC 1 cut(s) 523
HindII GTYRAC 1 cut(s) 523
HinfI GANTC 3 cut(s) 114, 256, 711
HpaI GTTAAC 1 cut(s) 523
HpaII CCGG 4 cut(s) 6, 215, 403, 459
HphI GGTGA 1 cut(s) 690
Hpy166II GTNNAC 2 cut(s) 523, 610
Hpy188I TCNGA 2 cut(s) 111, 748
Hpy188III TCNNGA 6 cut(s) 40, 125, 155, 185, 235, 684
Hpy8I GTNNAC 2 cut(s) 523, 610
Hpy99I CGWCG 1 cut(s) 575
HpyAV CCTTC 4 cut(s) 404, 647, 731, 753
HpyCH4III ACNGT 3 cut(s) 356, 432, 448
HpyCH4IV ACGT 1 cut(s) 295
HpyCH4V TGCA 2 cut(s) 503, 511
HpyF10VI GCNNNNNNNGC 4 cut(s) 15, 24, 500, 657
HpyF3I CTNAG 2 cut(s) 678, 747
HpySE526I ACGT 1 cut(s) 295
Hsp92II CATG 4 cut(s) 238, 423, 605, 718
HspAI GCGC 1 cut(s) 69
KspAI GTTAAC 1 cut(s) 523
Kzo9I GATC 4 cut(s) 127, 157, 187, 217
Lsp1109I GCAGC 2 cut(s) 21, 184
LweI GCATC 1 cut(s) 497
MaeI CTAG 3 cut(s) 90, 345, 384
MaeII ACGT 1 cut(s) 295
MaeIII GTNAC 2 cut(s) 291, 379
MalI GATC 4 cut(s) 129, 159, 189, 219
MboI GATC 4 cut(s) 127, 157, 187, 217
MflI RGATCY 1 cut(s) 217
MhlI GDGCHC 1 cut(s) 641
MluCI AATT 7 cut(s) 60, 75, 349, 506, 526, 597, 694
MlyI GAGTC 2 cut(s) 265, 720
MmeI TCCRAC 2 cut(s) 243, 251
MnlI CCTC 5 cut(s) 47, 117, 335, 352, 555
MseI TTAA 2 cut(s) 30, 522
MspA1I CMGCKG 1 cut(s) 197
MspI CCGG 4 cut(s) 6, 215, 403, 459
MspR9I CCNGG 1 cut(s) 459
Mva1269I GAATGC 4 cut(s) 120, 150, 180, 538
MvnI CGCG 1 cut(s) 651
MwoI GCNNNNNNNGC 4 cut(s) 15, 24, 500, 657
NciI CCSGG 1 cut(s) 459
NdeII GATC 4 cut(s) 127, 157, 187, 217
NheI GCTAGC 1 cut(s) 344
NlaIII CATG 4 cut(s) 238, 423, 605, 718
NlaIV GGNNCC 1 cut(s) 219
NmuCI GTSAC 2 cut(s) 291, 379
PagI TCATGA 1 cut(s) 234
PctI GAATGC 4 cut(s) 120, 150, 180, 538
PfeI GAWTC 1 cut(s) 114
PfoI TCCNGGA 1 cut(s) 457
PkrI GCNGC 2 cut(s) 11, 199
PleI GAGTC 2 cut(s) 264, 719
PpsI GAGTC 2 cut(s) 264, 719
PpuMI RGGWCCY 1 cut(s) 740
Psp5II RGGWCCY 1 cut(s) 740
PspN4I GGNNCC 1 cut(s) 219
PspPI GGNCC 1 cut(s) 740
PspPPI RGGWCCY 1 cut(s) 740
PsrI GAACNNNNNNTAC 2 cut(s) 230, 262
PsuI RGATCY 1 cut(s) 217
PvuII CAGCTG 1 cut(s) 197
RsaI GTAC 2 cut(s) 248, 633
RsaNI GTAC 2 cut(s) 247, 632
SaqAI TTAA 2 cut(s) 30, 522
SatI GCNGC 2 cut(s) 10, 198
Sau3AI GATC 4 cut(s) 127, 157, 187, 217
Sau96I GGNCC 1 cut(s) 740
SchI GAGTC 2 cut(s) 265, 720
ScrFI CCNGG 1 cut(s) 459
SduI GDGCHC 1 cut(s) 641
SfaNI GCATC 1 cut(s) 497
SfcI CTRYAG 1 cut(s) 582
SinI GGWCC 1 cut(s) 740
SmlI CTYRAG 1 cut(s) 375
SmoI CTYRAG 1 cut(s) 375
Sse9I AATT 7 cut(s) 60, 75, 349, 506, 526, 597, 694
SsiI CCGC 2 cut(s) 200, 424
SspMI CTAG 3 cut(s) 90, 345, 384
StyD4I CCNGG 1 cut(s) 457
StyI CCWWGG 2 cut(s) 483, 706
TaaI ACNGT 3 cut(s) 356, 432, 448
TaiI ACGT 1 cut(s) 298
TaqI TCGA 1 cut(s) 554
TasI AATT 7 cut(s) 60, 75, 349, 506, 526, 597, 694
TatI WGTACW 1 cut(s) 246
TfiI GAWTC 1 cut(s) 114
Tru1I TTAA 2 cut(s) 30, 522
Tru9I TTAA 2 cut(s) 30, 522
TscAI CASTG 1 cut(s) 451
TseFI GTSAC 2 cut(s) 291, 379
TseI GCWGC 2 cut(s) 9, 197
Tsp45I GTSAC 2 cut(s) 291, 379
TspDTI ATGAA 4 cut(s) 37, 251, 423, 590
TspRI CASTG 1 cut(s) 451
VpaK11BI GGWCC 1 cut(s) 740
XagI CCTNNNNNAGG 1 cut(s) 705
XapI RAATTY 1 cut(s) 597
XmiI GTMKAC 1 cut(s) 609
XspI CTAG 3 cut(s) 90, 345, 384
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.