Rh2BG267500

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000702
Physical Location & Seq
Reverse (-)
28755067 .. 28756643
1577 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG267500.1

Sequence Viewer

Length: 1188 bp
ATGGCAAACTACATAAGCCTTTTTGTTCTCTCACTTGTCCTTGTCTTCATGAATGTCAACTTAGCCTTAGGCGCAACTGCTTCAGTCACTTACACTGTGACAAGTCTGGGAGCGAATCCTGATGGCAAGACCGACTCAACCAAAGCATTCCTCTCTGCATGGGCCAAAGCTTGTGTCTCCGCCAAGCCTGCTGTCATTTATGTCCCGGTAGGGAGGTTCTTGCTTCGCAAATCGCTCTTCAACGGGCCATGCAAGAATAGCGCCATCACATTTCAAATTGCCGGCACATTCGTTGCCCCATCAGATTACCGGGTAATAGGAAATGCCGGTAACTGGCTTTTCTTTGAGCATGTGAATGGGGTTACCATCTCCGGTGGTATTCTTGACGGACAAGGCACTGGATTGTGGGACTGCAAGGACTCCGGCAAGGGTTGCCCCAAAGGAGCGACTACACTTGCTTTTTCCAATTCGAACAACATTGTGATGAATGGAGTGTCATCCCTAAACAGCCAAATGTTTCACATAGTGATCAACGGCTGCCACAACCTGAAAATGCTAGGTGTTAGGGTTTCTGCCTCTGGCAACAGCCCCAACACAGATGGCATTCACGTTCAAATGTCTACCGGTGTCACTATTCTCAACTCCAAAATTGCGAGGGGAGATGATTGTGTTTCAATTGGCCCCGGCACCAGTAATTTGTGGATTGAAAACGTTGCATGTGGTCCTGGGCATGGAATTAGCATTGGGAGTTTAGGCAAGGAGCAAGAGGAAGTGGGAGTGCAAAACGTAACAGTTAAAACAGTTACATTCACCGGTACTCAGAATGGGGTGAGGATCAAGTCATGGGGTAGACCCAGTACTGGGTTTGCCAGGAACATTCTTTTTCAACATGCTGTAATGGTCACTGTCAAAAATCCTATTGTTATTGATCAAAATTACTGCCCCGACGAAAAGCATTGCCCTGGTCAGGAGTTTGGAGTTCAAATTAGCGACATTATGTACCAAGACATTCACGGCACATCAGCAACAGAAGTTGCCGTGAAATTCGATTGCAGCTCCAAATATCCTTGTAACAAAATCACATTGGAGGATGTTAAGCTCACTTACAAGAACCAAGCTGCTGAAGCTTCTTGTAGCCATGCAGATGGAACAGCTGAGGGTACGGTTCAACCTACAAGTTGTCTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

395

Amino Acids

41.79

Weight (kDa)

7.91

Isoelectric Point (pI)

26.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 33 - 283 8.1e-12 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 58 - 381 3.7e-85 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000702)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G43870 AT3G59850 AT3G59850
fragaria_vesca FvH4_1g00290 FvH4_1g00290 FvH4_1g21842 FvH4_1g21850 FvH4_1g21851
malus_domestica MD00G1070500.v1.1 MD00G1087900.v1.1
prunus_persica Prupe.4G261700_v2.0.a1 Prupe.4G261800_v2.0.a1 Prupe.4G261900_v2.0.a1 Prupe.4G262200_v2.0.a1 Prupe.4G262200_v2.0.a1 Prupe.7G269200_v2.0.a1
pyrus_communis pycom02g00030 pycom03g19680
rosa_chinensis RchiOBHm_Chr2g0084591 RchiOBHm_Chr2g0085391 RchiOBHm_Chr2g0115741 RchiOBHm_Chr2g0115771 RchiOBHm_Chr2g0115801 RchiOBHm_Chr2g0115811 RchiOBHm_Chr2g0115821 RchiOBHm_Chr5g0021021 RchiOBHm_Chr5g0021031
rosa_laevigata RLG00000015683 RLG00000018208 RLG00000018211 RLG00000018212
rosa_multiflora Rmu_co8137638.1_g000001 Rmu_sc0000742.1_g000006 Rmu_sc0004926.1_g000013 Rmu_sc0008355.1_g000010 Rmu_sc0011452.1_g000015 Rmu_ssc0000197.1_g000031 Rmu_ssc0000197.1_g000032 Rmu_ssc0000197.1_g000056
rosa_roxburghii Rroxscaffold_2G00127770 Rroxscaffold_2G00127780 Rroxscaffold_2G00127790 Rroxscaffold_2G00127830 Rroxscaffold_2G00127850 Rroxscaffold_2G00128630 Rroxscaffold_2G00128640 Rroxscaffold_2G00128680 Rroxscaffold_2G00128730 Rroxscaffold_2G00128740
rosa_rugosa Rorug01G0455200 Rorug01G0460100 Rorug02G0199800 Rorug02G0199900
rosa_samantha Rh2BG003000 Rh2BG267500 Rh2BG267700 Rh2BG267800 Rh2BG267900 Rh2CG003400 Rh2CG010000 Rh2CG262800 Rh2CG263200 Rh2CG263300 Rh2CG263400 Rh5CG165700 Rh5CG165800
rosa_wichuraiana Rw0G014320 Rw0G014330 Rw1G010220 Rw2G000800 Rw2G020110 Rw2G020130 Rw2G020150 Rw2G020160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 686
AccI GTMKAC 2 cut(s) 620, 850
AciI CCGC 1 cut(s) 180
AclI AACGTT 1 cut(s) 711
AclWI GGATC 1 cut(s) 842
AcsI RAATTY 1 cut(s) 1043
AcuI CTGAAG 2 cut(s) 66, 1143
AdeI CACNNNGTG 1 cut(s) 526
AfaI GTAC 4 cut(s) 817, 859, 1001, 1162
AfiI CCNNNNNNNGG 5 cut(s) 333, 731, 860, 861, 967
AgeI ACCGGT 2 cut(s) 623, 812
AgsI TTSAA 8 cut(s) 241, 275, 614, 675, 707, 887, 983, 1169
AjnI CCWGG 3 cut(s) 724, 869, 961
AluBI AGCT 6 cut(s) 170, 1056, 1099, 1118, 1127, 1154
AluI AGCT 6 cut(s) 170, 1056, 1099, 1118, 1127, 1154
Alw26I GTCTC 1 cut(s) 181
AlwI GGATC 1 cut(s) 842
AoxI GGCC 3 cut(s) 162, 245, 679
ApeKI GCWGC 3 cut(s) 537, 1053, 1118
ApoI RAATTY 1 cut(s) 1043
ArsI GACNNNNNNTTYG 2 cut(s) 159, 191
AsiGI ACCGGT 2 cut(s) 623, 812
AspLEI GCGC 2 cut(s) 74, 263
AspS9I GGNCC 4 cut(s) 162, 245, 680, 722
AsuC2I CCSGG 3 cut(s) 206, 311, 684
AsuHPI GGTGA 2 cut(s) 802, 841
AsuII TTCGAA 1 cut(s) 470
AvaII GGWCC 1 cut(s) 722
AxyI CCTNAGG 1 cut(s) 67
BanI GGYRCC 1 cut(s) 686
BbsI GAAGAC 1 cut(s) 37
BbvCI CCTCAGC 1 cut(s) 1155
BbvI GCAGC 3 cut(s) 524, 1065, 1105
BccI CCATC 6 cut(s) 116, 272, 307, 374, 593, 1139
BceAI ACGGC 3 cut(s) 550, 1022, 1030
BciT130I CCWGG 3 cut(s) 726, 871, 963
BclI TGATCA 2 cut(s) 528, 928
BcnI CCSGG 3 cut(s) 206, 311, 684
BcoDI GTCTC 1 cut(s) 181
BfaI CTAG 1 cut(s) 557
BfmI CTRYAG 1 cut(s) 1184
BfoI RGCGCY 1 cut(s) 264
BisI GCNGC 3 cut(s) 538, 1054, 1119
BlsI GCNGC 3 cut(s) 539, 1055, 1120
BmcAI AGTACT 1 cut(s) 859
Bme1390I CCNGG 6 cut(s) 206, 311, 684, 726, 871, 963
Bme18I GGWCC 1 cut(s) 722
BmgT120I GGNCC 4 cut(s) 162, 245, 680, 722
BmiI GGNNCC 2 cut(s) 682, 688
BmrFI CCNGG 6 cut(s) 206, 311, 684, 726, 871, 963
BmrI ACTGGG 2 cut(s) 849, 870
BmuI ACTGGG 2 cut(s) 849, 870
BpiI GAAGAC 1 cut(s) 37
Bpu10I CCTNAGC 1 cut(s) 1155
Bpu14I TTCGAA 1 cut(s) 470
BpuMI CCSGG 3 cut(s) 206, 311, 684
BsaJI CCNNGG 3 cut(s) 682, 725, 961
BsaWI WCCGGW 3 cut(s) 371, 623, 812
Bsc4I CCNNNNNNNGG 5 cut(s) 333, 731, 860, 861, 967
Bse118I RCCGGY 4 cut(s) 281, 326, 623, 812
Bse1I ACTGG 5 cut(s) 338, 403, 690, 855, 865
Bse21I CCTNAGG 1 cut(s) 67
Bse3DI GCAATG 1 cut(s) 955
BseBI CCWGG 3 cut(s) 726, 871, 963
BseDI CCNNGG 3 cut(s) 682, 725, 961
BseGI GGATG 2 cut(s) 497, 1096
BseLI CCNNNNNNNGG 5 cut(s) 333, 731, 860, 861, 967
BseMI GCAATG 1 cut(s) 955
BseMII CTCAG 2 cut(s) 833, 1146
BseNI ACTGG 5 cut(s) 338, 403, 690, 855, 865
BseXI GCAGC 3 cut(s) 524, 1065, 1105
BshFI GGCC 3 cut(s) 164, 247, 681
BshNI GGYRCC 1 cut(s) 686
BshTI ACCGGT 2 cut(s) 623, 812
BsiSI CCGG 9 cut(s) 206, 282, 310, 327, 372, 423, 624, 684, 813
BslFI GGGAC 2 cut(s) 188, 422
BslI CCNNNNNNNGG 5 cut(s) 333, 731, 860, 861, 967
BsmAI GTCTC 1 cut(s) 181
BsmFI GGGAC 2 cut(s) 188, 422
BsmI GAATGC 2 cut(s) 146, 603
BsnI GGCC 3 cut(s) 164, 247, 681
Bsp119I TTCGAA 1 cut(s) 470
Bsp143I GATC 3 cut(s) 528, 834, 928
BspACI CCGC 1 cut(s) 180
BspANI GGCC 3 cut(s) 164, 247, 681
BspCNI CTCAG 2 cut(s) 832, 1147
BspHI TCATGA 1 cut(s) 48
BspLI GGNNCC 2 cut(s) 682, 688
BspPI GGATC 1 cut(s) 842
BspQI GCTCTTC 1 cut(s) 242
BspT104I TTCGAA 1 cut(s) 470
BspT107I GGYRCC 1 cut(s) 686
BsrDI GCAATG 1 cut(s) 955
BsrFI RCCGGY 4 cut(s) 281, 326, 623, 812
BsrI ACTGG 5 cut(s) 338, 403, 690, 855, 865
BssAI RCCGGY 4 cut(s) 281, 326, 623, 812
BssECI CCNNGG 3 cut(s) 682, 725, 961
BssMI GATC 3 cut(s) 528, 834, 928
Bst2UI CCWGG 3 cut(s) 726, 871, 963
Bst4CI ACNGT 5 cut(s) 97, 793, 802, 907, 1165
Bst6I CTCTTC 1 cut(s) 242
BstAPI GCANNNNNTGC 1 cut(s) 432
BstBI TTCGAA 1 cut(s) 470
BstC8I GCNNGC 2 cut(s) 189, 283
BstDEI CTNAG 4 cut(s) 61, 67, 819, 1155
BstEII GGTNACC 1 cut(s) 361
BstF5I GGATG 2 cut(s) 497, 1096
BstH2I RGCGCY 1 cut(s) 264
BstHHI GCGC 2 cut(s) 74, 263
BstKTI GATC 3 cut(s) 531, 837, 931
BstMAI GTCTC 1 cut(s) 181
BstMBI GATC 3 cut(s) 528, 834, 928
BstMWI GCNNNNNNNGC 5 cut(s) 71, 188, 258, 432, 1124
BstNI CCWGG 3 cut(s) 726, 871, 963
BstNSI RCATGY 3 cut(s) 353, 720, 893
BstPI GGTNACC 1 cut(s) 361
BstSCI CCNGG 6 cut(s) 204, 309, 682, 724, 869, 961
BstSFI CTRYAG 1 cut(s) 1184
BstV1I GCAGC 3 cut(s) 524, 1065, 1105
BstV2I GAAGAC 1 cut(s) 37
BstXI CCANNNNNNTGG 1 cut(s) 1145
Bsu36I CCTNAGG 1 cut(s) 67
BsuRI GGCC 3 cut(s) 164, 247, 681
BtsCI GGATG 2 cut(s) 497, 1096
BtsIMutI CAGTG 3 cut(s) 93, 396, 903
Cac8I GCNNGC 2 cut(s) 189, 283
CciI TCATGA 1 cut(s) 48
CfoI GCGC 2 cut(s) 74, 263
Cfr10I RCCGGY 4 cut(s) 281, 326, 623, 812
Cfr13I GGNCC 4 cut(s) 162, 245, 680, 722
Csp6I GTAC 4 cut(s) 816, 858, 1000, 1161
CspAI ACCGGT 2 cut(s) 623, 812
CviAII CATG 9 cut(s) 49, 159, 249, 350, 717, 731, 843, 890, 1139
CviQI GTAC 4 cut(s) 816, 858, 1000, 1161
DdeI CTNAG 4 cut(s) 61, 67, 819, 1155
DpnI GATC 3 cut(s) 530, 836, 930
DpnII GATC 3 cut(s) 528, 834, 928
DraIII CACNNNGTG 1 cut(s) 526
Eam1104I CTCTTC 1 cut(s) 242
EarI CTCTTC 1 cut(s) 242
EciI GGCGGA 1 cut(s) 169
Eco47I GGWCC 1 cut(s) 722
Eco57I CTGAAG 2 cut(s) 66, 1143
Eco81I CCTNAGG 1 cut(s) 67
Eco91I GGTNACC 1 cut(s) 361
EcoO65I GGTNACC 1 cut(s) 361
EcoRII CCWGG 3 cut(s) 724, 869, 961
FaeI CATG 9 cut(s) 52, 162, 252, 353, 720, 734, 846, 893, 1142
FaqI GGGAC 2 cut(s) 188, 422
FatI CATG 9 cut(s) 48, 158, 248, 349, 716, 730, 842, 889, 1138
FbaI TGATCA 2 cut(s) 528, 928
FblI GTMKAC 2 cut(s) 620, 850
Fnu4HI GCNGC 3 cut(s) 538, 1054, 1119
FokI GGATG 2 cut(s) 484, 1103
Fsp4HI GCNGC 3 cut(s) 538, 1054, 1119
FspBI CTAG 1 cut(s) 557
GlaI GCGC 2 cut(s) 73, 262
GluI GCNGC 3 cut(s) 538, 1054, 1119
HaeII RGCGCY 1 cut(s) 264
HaeIII GGCC 3 cut(s) 164, 247, 681
HapII CCGG 9 cut(s) 206, 282, 310, 327, 372, 423, 624, 684, 813
HhaI GCGC 2 cut(s) 74, 263
Hin1II CATG 9 cut(s) 52, 162, 252, 353, 720, 734, 846, 893, 1142
Hin6I GCGC 2 cut(s) 72, 261
HinP1I GCGC 2 cut(s) 72, 261
HincII GTYRAC 1 cut(s) 58
HindII GTYRAC 1 cut(s) 58
HindIII AAGCTT 2 cut(s) 168, 1125
HinfI GANTC 3 cut(s) 115, 134, 419
HpaII CCGG 9 cut(s) 206, 282, 310, 327, 372, 423, 624, 684, 813
HphI GGTGA 2 cut(s) 802, 841
Hpy166II GTNNAC 3 cut(s) 58, 621, 851
Hpy188I TCNGA 2 cut(s) 304, 822
Hpy188III TCNNGA 4 cut(s) 49, 119, 383, 968
Hpy8I GTNNAC 3 cut(s) 58, 621, 851
Hpy99I CGWCG 1 cut(s) 950
HpyCH4III ACNGT 5 cut(s) 97, 793, 802, 907, 1165
HpyCH4IV ACGT 3 cut(s) 609, 711, 786
HpyCH4V TGCA 7 cut(s) 158, 252, 414, 716, 781, 1053, 1142
HpyF10VI GCNNNNNNNGC 5 cut(s) 71, 188, 258, 432, 1124
HpyF3I CTNAG 4 cut(s) 61, 67, 819, 1155
HpySE526I ACGT 3 cut(s) 609, 711, 786
Hsp92II CATG 9 cut(s) 52, 162, 252, 353, 720, 734, 846, 893, 1142
HspAI GCGC 2 cut(s) 72, 261
KroI GCCGGC 1 cut(s) 281
KroNI GCCGGC 1 cut(s) 283
Ksp22I TGATCA 2 cut(s) 528, 928
Kzo9I GATC 3 cut(s) 528, 834, 928
LguI GCTCTTC 1 cut(s) 242
LmnI GCTCC 4 cut(s) 110, 443, 760, 1061
Lsp1109I GCAGC 3 cut(s) 524, 1065, 1105
MaeI CTAG 1 cut(s) 557
MaeII ACGT 3 cut(s) 609, 711, 786
MaeIII GTNAC 9 cut(s) 85, 97, 329, 361, 628, 787, 802, 901, 1070
MalI GATC 3 cut(s) 530, 836, 930
MboI GATC 3 cut(s) 528, 834, 928
MboII GAAGA 2 cut(s) 37, 229
MfeI CAATTG 1 cut(s) 675
MluCI AATT 9 cut(s) 276, 466, 648, 675, 694, 735, 934, 984, 1043
MlyI GAGTC 2 cut(s) 128, 413
MnlI CCTC 8 cut(s) 161, 207, 586, 648, 760, 825, 1081, 1150
MroNI GCCGGC 1 cut(s) 281
MseI TTAA 2 cut(s) 795, 1095
MslI CAYNNNNRTG 3 cut(s) 354, 482, 1143
MspA1I CMGCKG 1 cut(s) 1154
MspI CCGG 9 cut(s) 206, 282, 310, 327, 372, 423, 624, 684, 813
MspR9I CCNGG 6 cut(s) 206, 311, 684, 726, 871, 963
MunI CAATTG 1 cut(s) 675
Mva1269I GAATGC 2 cut(s) 146, 603
MvaI CCWGG 3 cut(s) 726, 871, 963
MwoI GCNNNNNNNGC 5 cut(s) 71, 188, 258, 432, 1124
NaeI GCCGGC 1 cut(s) 283
NciI CCSGG 3 cut(s) 206, 311, 684
NdeII GATC 3 cut(s) 528, 834, 928
NgoMIV GCCGGC 1 cut(s) 281
NlaIII CATG 9 cut(s) 52, 162, 252, 353, 720, 734, 846, 893, 1142
NlaIV GGNNCC 2 cut(s) 682, 688
NmuCI GTSAC 4 cut(s) 85, 97, 628, 901
NspI RCATGY 3 cut(s) 353, 720, 893
NspV TTCGAA 1 cut(s) 470
PagI TCATGA 1 cut(s) 48
PciSI GCTCTTC 1 cut(s) 242
PctI GAATGC 2 cut(s) 146, 603
PdiI GCCGGC 1 cut(s) 283
PfeI GAWTC 1 cut(s) 115
PinAI ACCGGT 2 cut(s) 623, 812
PkrI GCNGC 3 cut(s) 539, 1055, 1120
PleI GAGTC 2 cut(s) 128, 413
PpsI GAGTC 2 cut(s) 128, 413
Psp1406I AACGTT 1 cut(s) 711
Psp6I CCWGG 3 cut(s) 724, 869, 961
PspEI GGTNACC 1 cut(s) 361
PspGI CCWGG 3 cut(s) 724, 869, 961
PspN4I GGNNCC 2 cut(s) 682, 688
PspPI GGNCC 4 cut(s) 162, 245, 680, 722
PvuII CAGCTG 1 cut(s) 1154
RsaI GTAC 4 cut(s) 817, 859, 1001, 1162
RsaNI GTAC 4 cut(s) 816, 858, 1000, 1161
RseI CAYNNNNRTG 3 cut(s) 354, 482, 1143
SapI GCTCTTC 1 cut(s) 242
SaqAI TTAA 2 cut(s) 795, 1095
SatI GCNGC 3 cut(s) 538, 1054, 1119
Sau3AI GATC 3 cut(s) 528, 834, 928
Sau96I GGNCC 4 cut(s) 162, 245, 680, 722
ScaI AGTACT 1 cut(s) 859
SchI GAGTC 2 cut(s) 128, 413
ScrFI CCNGG 6 cut(s) 206, 311, 684, 726, 871, 963
SfcI CTRYAG 1 cut(s) 1184
SfuI TTCGAA 1 cut(s) 470
SinI GGWCC 1 cut(s) 722
SmiMI CAYNNNNRTG 3 cut(s) 354, 482, 1143
Sse9I AATT 9 cut(s) 276, 466, 648, 675, 694, 735, 934, 984, 1043
SsiI CCGC 1 cut(s) 180
SspMI CTAG 1 cut(s) 557
StyD4I CCNGG 6 cut(s) 204, 309, 682, 724, 869, 961
TaaI ACNGT 5 cut(s) 97, 793, 802, 907, 1165
TaiI ACGT 3 cut(s) 612, 714, 789
TaqI TCGA 2 cut(s) 470, 1047
TaqII GACCGA 1 cut(s) 146
TasI AATT 9 cut(s) 276, 466, 648, 675, 694, 735, 934, 984, 1043
TatI WGTACW 1 cut(s) 857
TfiI GAWTC 1 cut(s) 115
Tru1I TTAA 2 cut(s) 795, 1095
Tru9I TTAA 2 cut(s) 795, 1095
TscAI CASTG 3 cut(s) 100, 403, 910
TseFI GTSAC 4 cut(s) 85, 97, 628, 901
TseI GCWGC 3 cut(s) 537, 1053, 1118
Tsp45I GTSAC 4 cut(s) 85, 97, 628, 901
TspDTI ATGAA 3 cut(s) 37, 65, 500
TspGWI ACGGA 1 cut(s) 402
TspRI CASTG 3 cut(s) 100, 403, 910
VpaK11BI GGWCC 1 cut(s) 722
XapI RAATTY 1 cut(s) 1043
XceI RCATGY 3 cut(s) 353, 720, 893
XmiI GTMKAC 2 cut(s) 620, 850
XspI CTAG 1 cut(s) 557
ZrmI AGTACT 1 cut(s) 859
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.