RchiOBHm_Chr2g0110401

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000523
Physical Location & Seq
Forward (+)
21891152 .. 21893774
2623 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ48408

Sequence Viewer

Length: 915 bp
ATGGAGAAGATGAGGAAATGGGGTTGGCTTCTGGGGTCATTAGCAGCAATGCTTCTTCTGGTTTTGTTCTTGGCTGGTCATGGAACTTACGACGAGACGACGAGCCGAGTAAGTTTACGATCACTGAGGAGCATAACTCCTCGGCGACAACAGGGGGTCAATTTACTAACAAGGGACCCCAAGAGGGTTGTTTTGGATAATGGCATTGTCAAAGTCATTTTCTCTAATCCGGGCGGATACGTTGTTGGTATACAGTACAGAGGCCTTGGCATACTTGAAATGGGGAATGAAGAAAATAATAGAGGGTACTGGGATGTGGTCTGGAAAAAGAATATAACTGACAAACTAGAAGCAACAAAATTTAGGGTTATTACCGCGAGGTCAGACCAAGCAGAAATTTCCTTCCTAAGAACATATGATGTTTCCCTTGGTAACGGCACGAACACAATTCCCTTGACAGTAGACAAAAGGTACATACTGCAGCGGGGTAGTTCTGGTTTCTATGCATATGGAATATTCGAGCGCCTTGATGGGTGGCCAGCGGTACAGGATATGGATCAAATTAGAATGGTTTACAAGCTTGAACAAGCCAAATTTCATTATATGGCGTTATCAGACACCAGGCAAAGAAGCATGCCAACAGCAGCAGACCGTGGTCGTGGTCAGAAACTTGCGTATAAAGAAGCTTGTCTTTTGACTAATCCAAGCAATCCTGACTTTAGAGGAGAGGTAGATGACAAGTACCAGTACTCAATCGAGGACAAAGATAACAAAGTTCATGGTTGGATTAGTACTGATGAATCTGTGGGATTCTGGATGATCACACCCAGCGACGAATTTCGTACAGGAGGCCCCTTTAAGCAGGACCTCACCTCCCATGTTGGTCCAACCACCCTCTCCGTAAATGTTTGTTAG
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

304

Amino Acids

34.53

Weight (kDa)

9.04

Isoelectric Point (pI)

35.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 55 - 244 5.8e-74 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)
AccI GTMKAC 2 cut(s) 250, 462
AccII CGCG 1 cut(s) 377
AciI CCGC 4 cut(s) 234, 375, 484, 542
AclWI GGATC 1 cut(s) 564
AcoI YGGCCR 1 cut(s) 536
AcsI RAATTY 4 cut(s) 359, 396, 593, 836
AfaI GTAC 8 cut(s) 257, 308, 473, 546, 743, 749, 793, 844
AfiI CCNNNNNNNGG 1 cut(s) 184
AgsI TTSAA 2 cut(s) 278, 584
AjnI CCWGG 1 cut(s) 620
AluBI AGCT 2 cut(s) 580, 686
AluI AGCT 2 cut(s) 580, 686
Alw26I GTCTC 1 cut(s) 89
AlwI GGATC 1 cut(s) 564
AoxI GGCC 3 cut(s) 262, 536, 850
ApeKI GCWGC 3 cut(s) 44, 481, 644
ApoI RAATTY 4 cut(s) 359, 396, 593, 836
AspLEI GCGC 1 cut(s) 525
AspS9I GGNCC 4 cut(s) 175, 851, 865, 884
AsuC2I CCSGG 1 cut(s) 231
AsuHPI GGTGA 1 cut(s) 862
AvaII GGWCC 3 cut(s) 175, 865, 884
BalI TGGCCA 1 cut(s) 538
BbvI GCAGC 3 cut(s) 56, 493, 656
BccI CCATC 1 cut(s) 524
BceAI ACGGC 1 cut(s) 451
BciT130I CCWGG 1 cut(s) 622
BciVI GTATCC 1 cut(s) 230
BclI TGATCA 1 cut(s) 819
BcnI CCSGG 1 cut(s) 231
BcoDI GTCTC 1 cut(s) 89
BfaI CTAG 1 cut(s) 347
BfmI CTRYAG 1 cut(s) 479
BfoI RGCGCY 1 cut(s) 526
BfuI GTATCC 1 cut(s) 230
BisI GCNGC 3 cut(s) 45, 482, 645
BlsI GCNGC 3 cut(s) 46, 483, 646
BmcAI AGTACT 2 cut(s) 749, 793
Bme1390I CCNGG 2 cut(s) 231, 622
Bme18I GGWCC 3 cut(s) 175, 865, 884
BmgT120I GGNCC 4 cut(s) 175, 851, 865, 884
BmiI GGNNCC 3 cut(s) 176, 177, 853
BmrFI CCNGG 2 cut(s) 231, 622
BmrI ACTGGG 1 cut(s) 319
BmuI ACTGGG 1 cut(s) 319
BoxI GACNNNNGTC 1 cut(s) 654
BplI GAGNNNNNCTC 2 cut(s) 121, 153
BpuMI CCSGG 1 cut(s) 231
BsaBI GATNNNNATC 1 cut(s) 555
BsaJI CCNNGG 4 cut(s) 140, 265, 427, 652
BsaXI ACNNNNNCTCC 2 cut(s) 857, 887
Bsc4I CCNNNNNNNGG 1 cut(s) 184
Bse1I ACTGG 2 cut(s) 314, 745
Bse3DI GCAATG 1 cut(s) 54
Bse8I GATNNNNATC 1 cut(s) 555
BseBI CCWGG 1 cut(s) 622
BseDI CCNNGG 4 cut(s) 140, 265, 427, 652
BseGI GGATG 2 cut(s) 319, 822
BseJI GATNNNNATC 1 cut(s) 555
BseLI CCNNNNNNNGG 1 cut(s) 184
BseMI GCAATG 1 cut(s) 54
BseMII CTCAG 1 cut(s) 116
BseNI ACTGG 2 cut(s) 314, 745
BseRI GAGGAG 3 cut(s) 129, 142, 738
BseXI GCAGC 3 cut(s) 56, 493, 656
BseYI CCCAGC 1 cut(s) 827
Bsh1236I CGCG 1 cut(s) 377
BshFI GGCC 3 cut(s) 264, 538, 852
BsiSI CCGG 1 cut(s) 230
BslFI GGGAC 1 cut(s) 188
BslI CCNNNNNNNGG 1 cut(s) 184
BsmAI GTCTC 1 cut(s) 89
BsmBI CGTCTC 1 cut(s) 89
BsmFI GGGAC 1 cut(s) 188
BsnI GGCC 3 cut(s) 264, 538, 852
Bsp143I GATC 3 cut(s) 119, 556, 819
BspACI CCGC 4 cut(s) 234, 375, 484, 542
BspANI GGCC 3 cut(s) 264, 538, 852
BspCNI CTCAG 1 cut(s) 117
BspFNI CGCG 1 cut(s) 377
BspLI GGNNCC 3 cut(s) 176, 177, 853
BspMAI CTGCAG 1 cut(s) 483
BspPI GGATC 1 cut(s) 564
BsrDI GCAATG 1 cut(s) 54
BsrI ACTGG 2 cut(s) 314, 745
BssECI CCNNGG 4 cut(s) 140, 265, 427, 652
BssMI GATC 3 cut(s) 119, 556, 819
BssNAI GTATAC 1 cut(s) 251
BssT1I CCWWGG 2 cut(s) 265, 427
Bst1107I GTATAC 1 cut(s) 251
Bst2UI CCWGG 1 cut(s) 622
Bst4CI ACNGT 3 cut(s) 255, 460, 653
BstC8I GCNNGC 2 cut(s) 540, 635
BstDEI CTNAG 2 cut(s) 125, 407
BstDSI CCRYGG 1 cut(s) 652
BstF5I GGATG 2 cut(s) 319, 822
BstFNI CGCG 1 cut(s) 377
BstH2I RGCGCY 1 cut(s) 526
BstHHI GCGC 1 cut(s) 525
BstKTI GATC 3 cut(s) 122, 559, 822
BstMAI GTCTC 1 cut(s) 89
BstMBI GATC 3 cut(s) 119, 556, 819
BstNI CCWGG 1 cut(s) 622
BstNSI RCATGY 1 cut(s) 637
BstPAI GACNNNNGTC 1 cut(s) 654
BstSCI CCNGG 2 cut(s) 229, 620
BstSFI CTRYAG 1 cut(s) 479
BstUI CGCG 1 cut(s) 377
BstV1I GCAGC 3 cut(s) 56, 493, 656
BstZ17I GTATAC 1 cut(s) 251
BsuI GTATCC 1 cut(s) 230
BsuRI GGCC 3 cut(s) 264, 538, 852
BtgI CCRYGG 1 cut(s) 652
BtsCI GGATG 2 cut(s) 319, 822
BtsIMutI CAGTG 1 cut(s) 122
Cac8I GCNNGC 2 cut(s) 540, 635
CfoI GCGC 1 cut(s) 525
Cfr13I GGNCC 4 cut(s) 175, 851, 865, 884
Csp6I GTAC 8 cut(s) 256, 307, 472, 545, 742, 748, 792, 843
CviAII CATG 4 cut(s) 80, 634, 779, 878
CviJI RGCY 9 cut(s) 28, 74, 105, 264, 538, 580, 590, 686, 852
CviKI_1 RGCY 9 cut(s) 28, 74, 105, 264, 538, 580, 590, 686, 852
CviQI GTAC 8 cut(s) 256, 307, 472, 545, 742, 748, 792, 843
DdeI CTNAG 2 cut(s) 125, 407
DpnI GATC 3 cut(s) 121, 558, 821
DpnII GATC 3 cut(s) 119, 556, 819
EaeI YGGCCR 1 cut(s) 536
EciI GGCGGA 1 cut(s) 249
Eco130I CCWWGG 2 cut(s) 265, 427
Eco147I AGGCCT 1 cut(s) 264
Eco47I GGWCC 3 cut(s) 175, 865, 884
EcoO109I RGGNCCY 3 cut(s) 175, 851, 865
EcoRII CCWGG 1 cut(s) 620
EcoT14I CCWWGG 2 cut(s) 265, 427
EcoT22I ATGCAT 1 cut(s) 508
ErhI CCWWGG 2 cut(s) 265, 427
Esp3I CGTCTC 1 cut(s) 89
FaeI CATG 4 cut(s) 83, 637, 782, 881
FalI AAGNNNNNCTT 2 cut(s) 675, 707
FaqI GGGAC 1 cut(s) 188
FatI CATG 4 cut(s) 79, 633, 778, 877
FauI CCCGC 1 cut(s) 477
FauNDI CATATG 2 cut(s) 415, 508
FbaI TGATCA 1 cut(s) 819
FblI GTMKAC 2 cut(s) 250, 462
Fnu4HI GCNGC 3 cut(s) 45, 482, 645
FokI GGATG 2 cut(s) 326, 829
Fsp4HI GCNGC 3 cut(s) 45, 482, 645
FspBI CTAG 1 cut(s) 347
GlaI GCGC 1 cut(s) 524
GluI GCNGC 3 cut(s) 45, 482, 645
GsaI CCCAGC 1 cut(s) 831
HaeII RGCGCY 1 cut(s) 526
HaeIII GGCC 3 cut(s) 264, 538, 852
HapII CCGG 1 cut(s) 230
HhaI GCGC 1 cut(s) 525
Hin1II CATG 4 cut(s) 83, 637, 782, 881
Hin6I GCGC 1 cut(s) 523
HinP1I GCGC 1 cut(s) 523
HindIII AAGCTT 2 cut(s) 578, 684
HinfI GANTC 2 cut(s) 800, 810
HpaII CCGG 1 cut(s) 230
HphI GGTGA 1 cut(s) 862
Hpy166II GTNNAC 4 cut(s) 116, 251, 463, 574
Hpy188I TCNGA 3 cut(s) 385, 616, 666
Hpy188III TCNNGA 3 cut(s) 322, 713, 814
Hpy8I GTNNAC 4 cut(s) 116, 251, 463, 574
Hpy99I CGWCG 3 cut(s) 95, 103, 836
HpyAV CCTTC 1 cut(s) 412
HpyCH4III ACNGT 3 cut(s) 255, 460, 653
HpyCH4IV ACGT 1 cut(s) 240
HpyCH4V TGCA 2 cut(s) 481, 506
HpyF3I CTNAG 2 cut(s) 125, 407
HpySE526I ACGT 1 cut(s) 240
Hsp92II CATG 4 cut(s) 83, 637, 782, 881
HspAI GCGC 1 cut(s) 523
KflI GGGWCCC 1 cut(s) 175
Ksp22I TGATCA 1 cut(s) 819
Kzo9I GATC 3 cut(s) 119, 556, 819
LmnI GCTCC 1 cut(s) 129
Lsp1109I GCAGC 3 cut(s) 56, 493, 656
MaeI CTAG 1 cut(s) 347
MaeII ACGT 1 cut(s) 240
MaeIII GTNAC 1 cut(s) 431
MalI GATC 3 cut(s) 121, 558, 821
MboI GATC 3 cut(s) 119, 556, 819
MboII GAAGA 3 cut(s) 19, 47, 302
MlsI TGGCCA 1 cut(s) 538
MluCI AATT 7 cut(s) 160, 359, 396, 447, 561, 593, 836
MluNI TGGCCA 1 cut(s) 538
MmeI TCCRAC 2 cut(s) 764, 911
Mox20I TGGCCA 1 cut(s) 538
Mph1103I ATGCAT 1 cut(s) 508
MscI TGGCCA 1 cut(s) 538
MseI TTAA 1 cut(s) 858
Msp20I TGGCCA 1 cut(s) 538
MspA1I CMGCKG 2 cut(s) 484, 542
MspI CCGG 1 cut(s) 230
MspR9I CCNGG 2 cut(s) 231, 622
MvaI CCWGG 1 cut(s) 622
MvnI CGCG 1 cut(s) 377
NciI CCSGG 1 cut(s) 231
NdeI CATATG 2 cut(s) 415, 508
NdeII GATC 3 cut(s) 119, 556, 819
NlaIII CATG 4 cut(s) 83, 637, 782, 881
NlaIV GGNNCC 3 cut(s) 176, 177, 853
NmeAIII GCCGAG 2 cut(s) 121, 131
NsiI ATGCAT 1 cut(s) 508
NspI RCATGY 1 cut(s) 637
PaeI GCATGC 1 cut(s) 637
PceI AGGCCT 1 cut(s) 264
PfeI GAWTC 2 cut(s) 800, 810
PkrI GCNGC 3 cut(s) 46, 483, 646
PpuMI RGGWCCY 2 cut(s) 175, 865
PshAI GACNNNNGTC 1 cut(s) 654
Psp5II RGGWCCY 2 cut(s) 175, 865
Psp6I CCWGG 1 cut(s) 620
PspFI CCCAGC 1 cut(s) 827
PspGI CCWGG 1 cut(s) 620
PspN4I GGNNCC 3 cut(s) 176, 177, 853
PspPI GGNCC 4 cut(s) 175, 851, 865, 884
PspPPI RGGWCCY 2 cut(s) 175, 865
PstI CTGCAG 1 cut(s) 483
RsaI GTAC 8 cut(s) 257, 308, 473, 546, 743, 749, 793, 844
RsaNI GTAC 8 cut(s) 256, 307, 472, 545, 742, 748, 792, 843
SaqAI TTAA 1 cut(s) 858
SatI GCNGC 3 cut(s) 45, 482, 645
Sau3AI GATC 3 cut(s) 119, 556, 819
Sau96I GGNCC 4 cut(s) 175, 851, 865, 884
ScaI AGTACT 2 cut(s) 749, 793
ScrFI CCNGG 2 cut(s) 231, 622
SetI ASST 8 cut(s) 243, 383, 473, 582, 688, 732, 870, 875
SfcI CTRYAG 1 cut(s) 479
SinI GGWCC 3 cut(s) 175, 865, 884
SphI GCATGC 1 cut(s) 637
Sse9I AATT 7 cut(s) 160, 359, 396, 447, 561, 593, 836
SseBI AGGCCT 1 cut(s) 264
SsiI CCGC 4 cut(s) 234, 375, 484, 542
SspI AATATT 1 cut(s) 516
SspMI CTAG 1 cut(s) 347
StuI AGGCCT 1 cut(s) 264
StyD4I CCNGG 2 cut(s) 229, 620
StyI CCWWGG 2 cut(s) 265, 427
TaaI ACNGT 3 cut(s) 255, 460, 653
TaiI ACGT 1 cut(s) 243
TaqI TCGA 2 cut(s) 519, 756
TasI AATT 7 cut(s) 160, 359, 396, 447, 561, 593, 836
TatI WGTACW 3 cut(s) 255, 747, 791
TfiI GAWTC 2 cut(s) 800, 810
Tru1I TTAA 1 cut(s) 858
Tru9I TTAA 1 cut(s) 858
TscAI CASTG 1 cut(s) 129
TseI GCWGC 3 cut(s) 44, 481, 644
TspDTI ATGAA 4 cut(s) 303, 587, 767, 813
TspGWI ACGGA 1 cut(s) 889
TspRI CASTG 1 cut(s) 129
VpaK11BI GGWCC 3 cut(s) 175, 865, 884
XapI RAATTY 4 cut(s) 359, 396, 593, 836
XceI RCATGY 1 cut(s) 637
XmiI GTMKAC 2 cut(s) 250, 462
XspI CTAG 1 cut(s) 347
ZrmI AGTACT 2 cut(s) 749, 793
Zsp2I ATGCAT 1 cut(s) 508
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.