RchiOBHm_Chr2g0115771

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000702
Physical Location & Seq
Reverse (-)
27969798 .. 27971294
1497 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ48891

Sequence Viewer

Length: 1179 bp
ATGAATGTCAACTTAGCCTTAGGCGCAACTGCTTCAGTCACTTACACTGTGACAAGTCTGGGAGCAAATCCTGATGGCAAGACCGACTCAACCAAATCATTTCTCTCTGCATGGGCCAAAGCTTGTGTCTCCGCCAAACCTGCTGTCATTTATGTCCCGGTAGGGAGGTTCTTGCTTCGCAAATCGGTTTTTAATGGGCCATGCAAGAATAGCGCCATCACATTTCAAATTGCCGGCACACTCGTCTCCCCATCAGATTACTGGGTAATAGGAAATGCCGGTAACTGGCTTTTCTTTGAGCATGTGAATGGGGTTACCATCTCCGGTGGTATTCTTGACGGACAAGGCACTGGATTGTGGGACTGCAAGACCTCCGGCAAGGGTTGCCCGAAAGGAGCGACTGTAAAATTTAATTTCTGTATCTGGATTATATGCAAACGTACACTTGGTTTTTCCAATTCGAACAACATTGTGATGAATGAAGTGTCATCCCTAAACAGCCAAATGTTTCACATAGTGATCAACGGCTGCCACAACGTGAAAATGCTAGGTATTAGGGTTTCTGCCTCTGGCAACAGCCCTAACACAGATGGCATTCACGTTCAAATGTCTACCAGTGTCACTATTCTCAACTCCAAAACTGCGACGGGAGATGATTGTGTTTCAATTGGCCCCGGCACCAGTAATTTGTGGATTGAAAACGTCGCATGTGGTCCGGGGCATGGAATTAGCATTGGGAGTTTAGGCAAGGAGCAAGAGGAAGTGGGAGTACAAAACGTAACAGTTAAAACAGTTACATTCACCGGTACTCAGAATGGGGTGAGGATCAAGTCATGGGGTAGACCCAGTACTGGGTTTGCCAGGAACATTCTTTTTCAACATGCTGTAATGGTCAATGTCAAAAATCCTGTTGTTATTGATCAAAATTACTGCCCCGACGAAAAGCATTGCCCTGGTCAGGAGTCTGGAGTTCAAATTAGCGATATTATGTACCAAGACATTCACGGCACATCAGCAACAGAAGTTGCCGTGAAATTCGATTGCATGTCCAAATATCCTTGTAACAAAATCACATTGGAGGATGTTAAGCTCACTTACAAGAACCAAGCTGCTGAAGCTTCTTGTAGCCATGCAGGTGGAACAGCTGAGGGTACGGTTCAACCTACAAGTTGTCTGTAG
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

392

Amino Acids

41.57

Weight (kDa)

8.3

Isoelectric Point (pI)

30.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 17 - 63 8.2e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 42 - 376 4.4e-80 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)
AarI CACCTGC 1 cut(s) 1124
Acc36I ACCTGC 2 cut(s) 148, 1124
AccB1I GGYRCC 1 cut(s) 677
AccI GTMKAC 2 cut(s) 611, 841
AciI CCGC 1 cut(s) 132
AclWI GGATC 1 cut(s) 833
AcsI RAATTY 2 cut(s) 407, 1034
AcuI CTGAAG 2 cut(s) 18, 1134
AdeI CACNNNGTG 2 cut(s) 517, 538
AfaI GTAC 6 cut(s) 442, 771, 808, 850, 992, 1153
AfiI CCNNNNNNNGG 5 cut(s) 285, 722, 851, 852, 958
AgeI ACCGGT 1 cut(s) 803
AgsI TTSAA 7 cut(s) 227, 605, 666, 698, 878, 974, 1160
AjnI CCWGG 2 cut(s) 860, 952
AluBI AGCT 5 cut(s) 122, 1090, 1109, 1118, 1145
AluI AGCT 5 cut(s) 122, 1090, 1109, 1118, 1145
Alw26I GTCTC 2 cut(s) 133, 250
AlwI GGATC 1 cut(s) 833
AoxI GGCC 3 cut(s) 114, 197, 670
ApeKI GCWGC 2 cut(s) 528, 1109
ApoI RAATTY 2 cut(s) 407, 1034
ArsI GACNNNNNNTTYG 4 cut(s) 111, 129, 143, 161
AsiGI ACCGGT 1 cut(s) 803
AspLEI GCGC 2 cut(s) 26, 215
AspS9I GGNCC 4 cut(s) 114, 197, 671, 713
AsuC2I CCSGG 3 cut(s) 158, 675, 717
AsuHPI GGTGA 2 cut(s) 793, 832
AsuII TTCGAA 1 cut(s) 461
AvaII GGWCC 1 cut(s) 713
AxyI CCTNAGG 1 cut(s) 19
BanI GGYRCC 1 cut(s) 677
BarI GAAGNNNNNNTAC 2 cut(s) 753, 785
BbvCI CCTCAGC 1 cut(s) 1146
BbvI GCAGC 2 cut(s) 515, 1096
BccI CCATC 5 cut(s) 68, 224, 259, 326, 584
BceAI ACGGC 3 cut(s) 541, 1013, 1021
BciT130I CCWGG 2 cut(s) 862, 954
BclI TGATCA 2 cut(s) 519, 919
BcnI CCSGG 3 cut(s) 158, 675, 717
BcoDI GTCTC 2 cut(s) 133, 250
BfaI CTAG 1 cut(s) 548
BfmI CTRYAG 1 cut(s) 1175
BfoI RGCGCY 1 cut(s) 216
BfuAI ACCTGC 2 cut(s) 148, 1124
BisI GCNGC 2 cut(s) 529, 1110
BlsI GCNGC 2 cut(s) 530, 1111
BmcAI AGTACT 1 cut(s) 850
Bme1390I CCNGG 5 cut(s) 158, 675, 717, 862, 954
Bme18I GGWCC 1 cut(s) 713
BmgT120I GGNCC 4 cut(s) 114, 197, 671, 713
BmiI GGNNCC 2 cut(s) 673, 679
BmrFI CCNGG 5 cut(s) 158, 675, 717, 862, 954
BmrI ACTGGG 3 cut(s) 271, 840, 861
BmuI ACTGGG 3 cut(s) 271, 840, 861
BpmI CTGGAG 1 cut(s) 987
Bpu10I CCTNAGC 1 cut(s) 1146
Bpu14I TTCGAA 1 cut(s) 461
BpuMI CCSGG 3 cut(s) 158, 675, 717
BsaJI CCNNGG 3 cut(s) 673, 716, 952
BsaWI WCCGGW 2 cut(s) 323, 803
BsaXI ACNNNNNCTCC 2 cut(s) 387, 417
Bsc4I CCNNNNNNNGG 5 cut(s) 285, 722, 851, 852, 958
Bse118I RCCGGY 3 cut(s) 233, 278, 803
Bse1I ACTGG 7 cut(s) 266, 290, 355, 615, 681, 846, 856
Bse21I CCTNAGG 1 cut(s) 19
Bse3DI GCAATG 1 cut(s) 946
BseBI CCWGG 2 cut(s) 862, 954
BseDI CCNNGG 3 cut(s) 673, 716, 952
BseGI GGATG 2 cut(s) 488, 1087
BseLI CCNNNNNNNGG 5 cut(s) 285, 722, 851, 852, 958
BseMI GCAATG 1 cut(s) 946
BseMII CTCAG 2 cut(s) 824, 1137
BseNI ACTGG 7 cut(s) 266, 290, 355, 615, 681, 846, 856
BseXI GCAGC 2 cut(s) 515, 1096
BshFI GGCC 3 cut(s) 116, 199, 672
BshNI GGYRCC 1 cut(s) 677
BshTI ACCGGT 1 cut(s) 803
BsiSI CCGG 8 cut(s) 158, 234, 279, 324, 375, 675, 716, 804
BslFI GGGAC 2 cut(s) 140, 374
BslI CCNNNNNNNGG 5 cut(s) 285, 722, 851, 852, 958
BsmAI GTCTC 2 cut(s) 133, 250
BsmBI CGTCTC 1 cut(s) 250
BsmFI GGGAC 2 cut(s) 140, 374
BsmI GAATGC 1 cut(s) 594
BsnI GGCC 3 cut(s) 116, 199, 672
Bsp119I TTCGAA 1 cut(s) 461
Bsp143I GATC 3 cut(s) 519, 825, 919
BspACI CCGC 1 cut(s) 132
BspANI GGCC 3 cut(s) 116, 199, 672
BspCNI CTCAG 2 cut(s) 823, 1138
BspLI GGNNCC 2 cut(s) 673, 679
BspMI ACCTGC 2 cut(s) 148, 1124
BspPI GGATC 1 cut(s) 833
BspT104I TTCGAA 1 cut(s) 461
BspT107I GGYRCC 1 cut(s) 677
BsrDI GCAATG 1 cut(s) 946
BsrFI RCCGGY 3 cut(s) 233, 278, 803
BsrI ACTGG 7 cut(s) 266, 290, 355, 615, 681, 846, 856
BssAI RCCGGY 3 cut(s) 233, 278, 803
BssECI CCNNGG 3 cut(s) 673, 716, 952
BssMI GATC 3 cut(s) 519, 825, 919
Bst2UI CCWGG 2 cut(s) 862, 954
Bst4CI ACNGT 5 cut(s) 49, 403, 784, 793, 1156
BstAPI GCANNNNNTGC 1 cut(s) 384
BstBI TTCGAA 1 cut(s) 461
BstC8I GCNNGC 1 cut(s) 235
BstDEI CTNAG 4 cut(s) 13, 19, 810, 1146
BstEII GGTNACC 1 cut(s) 313
BstF5I GGATG 2 cut(s) 488, 1087
BstH2I RGCGCY 1 cut(s) 216
BstHHI GCGC 2 cut(s) 26, 215
BstKTI GATC 3 cut(s) 522, 828, 922
BstMAI GTCTC 2 cut(s) 133, 250
BstMBI GATC 3 cut(s) 519, 825, 919
BstMWI GCNNNNNNNGC 5 cut(s) 23, 140, 210, 384, 1115
BstNI CCWGG 2 cut(s) 862, 954
BstNSI RCATGY 4 cut(s) 305, 711, 884, 1048
BstPI GGTNACC 1 cut(s) 313
BstSCI CCNGG 5 cut(s) 156, 673, 715, 860, 952
BstSFI CTRYAG 1 cut(s) 1175
BstV1I GCAGC 2 cut(s) 515, 1096
BstXI CCANNNNNNTGG 1 cut(s) 1136
Bsu36I CCTNAGG 1 cut(s) 19
BsuRI GGCC 3 cut(s) 116, 199, 672
BtsCI GGATG 2 cut(s) 488, 1087
BtsIMutI CAGTG 3 cut(s) 45, 348, 622
BveI ACCTGC 2 cut(s) 148, 1124
Cac8I GCNNGC 1 cut(s) 235
CfoI GCGC 2 cut(s) 26, 215
Cfr10I RCCGGY 3 cut(s) 233, 278, 803
Cfr13I GGNCC 4 cut(s) 114, 197, 671, 713
Csp6I GTAC 6 cut(s) 441, 770, 807, 849, 991, 1152
CspAI ACCGGT 1 cut(s) 803
CviAII CATG 9 cut(s) 111, 201, 302, 708, 722, 834, 881, 1045, 1130
CviQI GTAC 6 cut(s) 441, 770, 807, 849, 991, 1152
DdeI CTNAG 4 cut(s) 13, 19, 810, 1146
DpnI GATC 3 cut(s) 521, 827, 921
DpnII GATC 3 cut(s) 519, 825, 919
DraIII CACNNNGTG 2 cut(s) 517, 538
EciI GGCGGA 1 cut(s) 121
Eco47I GGWCC 1 cut(s) 713
Eco57I CTGAAG 2 cut(s) 18, 1134
Eco81I CCTNAGG 1 cut(s) 19
Eco91I GGTNACC 1 cut(s) 313
EcoO65I GGTNACC 1 cut(s) 313
EcoRII CCWGG 2 cut(s) 860, 952
Esp3I CGTCTC 1 cut(s) 250
FaeI CATG 9 cut(s) 114, 204, 305, 711, 725, 837, 884, 1048, 1133
FaqI GGGAC 2 cut(s) 140, 374
FatI CATG 9 cut(s) 110, 200, 301, 707, 721, 833, 880, 1044, 1129
FbaI TGATCA 2 cut(s) 519, 919
FblI GTMKAC 2 cut(s) 611, 841
Fnu4HI GCNGC 2 cut(s) 529, 1110
FokI GGATG 2 cut(s) 475, 1094
Fsp4HI GCNGC 2 cut(s) 529, 1110
FspBI CTAG 1 cut(s) 548
GlaI GCGC 2 cut(s) 25, 214
GluI GCNGC 2 cut(s) 529, 1110
GsuI CTGGAG 1 cut(s) 987
HaeII RGCGCY 1 cut(s) 216
HaeIII GGCC 3 cut(s) 116, 199, 672
HapII CCGG 8 cut(s) 158, 234, 279, 324, 375, 675, 716, 804
HhaI GCGC 2 cut(s) 26, 215
Hin1II CATG 9 cut(s) 114, 204, 305, 711, 725, 837, 884, 1048, 1133
Hin6I GCGC 2 cut(s) 24, 213
HinP1I GCGC 2 cut(s) 24, 213
HincII GTYRAC 1 cut(s) 10
HindII GTYRAC 1 cut(s) 10
HindIII AAGCTT 2 cut(s) 120, 1116
HinfI GANTC 2 cut(s) 86, 962
HpaII CCGG 8 cut(s) 158, 234, 279, 324, 375, 675, 716, 804
HphI GGTGA 2 cut(s) 793, 832
Hpy166II GTNNAC 4 cut(s) 10, 443, 612, 842
Hpy188I TCNGA 2 cut(s) 256, 813
Hpy188III TCNNGA 5 cut(s) 71, 335, 424, 959, 966
Hpy8I GTNNAC 4 cut(s) 10, 443, 612, 842
Hpy99I CGWCG 3 cut(s) 649, 707, 941
HpyCH4III ACNGT 5 cut(s) 49, 403, 784, 793, 1156
HpyCH4IV ACGT 5 cut(s) 439, 537, 600, 702, 777
HpyCH4V TGCA 6 cut(s) 110, 204, 366, 435, 1044, 1133
HpyF10VI GCNNNNNNNGC 5 cut(s) 23, 140, 210, 384, 1115
HpyF3I CTNAG 4 cut(s) 13, 19, 810, 1146
HpySE526I ACGT 5 cut(s) 439, 537, 600, 702, 777
Hsp92II CATG 9 cut(s) 114, 204, 305, 711, 725, 837, 884, 1048, 1133
HspAI GCGC 2 cut(s) 24, 213
KroI GCCGGC 1 cut(s) 233
KroNI GCCGGC 1 cut(s) 235
Ksp22I TGATCA 2 cut(s) 519, 919
Kzo9I GATC 3 cut(s) 519, 825, 919
LmnI GCTCC 3 cut(s) 62, 395, 751
Lsp1109I GCAGC 2 cut(s) 515, 1096
MaeI CTAG 1 cut(s) 548
MaeII ACGT 5 cut(s) 439, 537, 600, 702, 777
MaeIII GTNAC 8 cut(s) 37, 49, 281, 313, 619, 778, 793, 1061
MalI GATC 3 cut(s) 521, 827, 921
MboI GATC 3 cut(s) 519, 825, 919
MfeI CAATTG 1 cut(s) 666
MlyI GAGTC 2 cut(s) 80, 971
MnlI CCTC 7 cut(s) 159, 382, 577, 751, 816, 1072, 1141
MroNI GCCGGC 1 cut(s) 233
MseI TTAA 4 cut(s) 192, 411, 786, 1086
MslI CAYNNNNRTG 3 cut(s) 306, 473, 1134
MspA1I CMGCKG 1 cut(s) 1145
MspI CCGG 8 cut(s) 158, 234, 279, 324, 375, 675, 716, 804
MspR9I CCNGG 5 cut(s) 158, 675, 717, 862, 954
MunI CAATTG 1 cut(s) 666
Mva1269I GAATGC 1 cut(s) 594
MvaI CCWGG 2 cut(s) 862, 954
MwoI GCNNNNNNNGC 5 cut(s) 23, 140, 210, 384, 1115
NaeI GCCGGC 1 cut(s) 235
NciI CCSGG 3 cut(s) 158, 675, 717
NdeII GATC 3 cut(s) 519, 825, 919
NgoMIV GCCGGC 1 cut(s) 233
NlaIII CATG 9 cut(s) 114, 204, 305, 711, 725, 837, 884, 1048, 1133
NlaIV GGNNCC 2 cut(s) 673, 679
NmuCI GTSAC 3 cut(s) 37, 49, 619
NspI RCATGY 4 cut(s) 305, 711, 884, 1048
NspV TTCGAA 1 cut(s) 461
PaqCI CACCTGC 1 cut(s) 1124
PctI GAATGC 1 cut(s) 594
PdiI GCCGGC 1 cut(s) 235
PinAI ACCGGT 1 cut(s) 803
PkrI GCNGC 2 cut(s) 530, 1111
PleI GAGTC 2 cut(s) 80, 970
PpsI GAGTC 2 cut(s) 80, 970
Psp6I CCWGG 2 cut(s) 860, 952
PspEI GGTNACC 1 cut(s) 313
PspGI CCWGG 2 cut(s) 860, 952
PspN4I GGNNCC 2 cut(s) 673, 679
PspPI GGNCC 4 cut(s) 114, 197, 671, 713
PvuII CAGCTG 1 cut(s) 1145
RsaI GTAC 6 cut(s) 442, 771, 808, 850, 992, 1153
RsaNI GTAC 6 cut(s) 441, 770, 807, 849, 991, 1152
RseI CAYNNNNRTG 3 cut(s) 306, 473, 1134
SaqAI TTAA 4 cut(s) 192, 411, 786, 1086
SatI GCNGC 2 cut(s) 529, 1110
Sau3AI GATC 3 cut(s) 519, 825, 919
Sau96I GGNCC 4 cut(s) 114, 197, 671, 713
ScaI AGTACT 1 cut(s) 850
SchI GAGTC 2 cut(s) 80, 971
ScrFI CCNGG 5 cut(s) 158, 675, 717, 862, 954
SfcI CTRYAG 1 cut(s) 1175
SfuI TTCGAA 1 cut(s) 461
SinI GGWCC 1 cut(s) 713
SmiMI CAYNNNNRTG 3 cut(s) 306, 473, 1134
SsiI CCGC 1 cut(s) 132
SspMI CTAG 1 cut(s) 548
StyD4I CCNGG 5 cut(s) 156, 673, 715, 860, 952
TaaI ACNGT 5 cut(s) 49, 403, 784, 793, 1156
TaiI ACGT 5 cut(s) 442, 540, 603, 705, 780
TaqI TCGA 2 cut(s) 461, 1038
TaqII GACCGA 1 cut(s) 98
TatI WGTACW 2 cut(s) 769, 848
Tru1I TTAA 4 cut(s) 192, 411, 786, 1086
Tru9I TTAA 4 cut(s) 192, 411, 786, 1086
TscAI CASTG 3 cut(s) 52, 355, 622
TseFI GTSAC 3 cut(s) 37, 49, 619
TseI GCWGC 2 cut(s) 528, 1109
Tsp45I GTSAC 3 cut(s) 37, 49, 619
TspDTI ATGAA 3 cut(s) 17, 491, 495
TspGWI ACGGA 1 cut(s) 354
TspRI CASTG 3 cut(s) 52, 355, 622
VpaK11BI GGWCC 1 cut(s) 713
XapI RAATTY 2 cut(s) 407, 1034
XceI RCATGY 4 cut(s) 305, 711, 884, 1048
XcmI CCANNNNNNNNNTGG 1 cut(s) 258
XmiI GTMKAC 2 cut(s) 611, 841
XspI CTAG 1 cut(s) 548
ZrmI AGTACT 1 cut(s) 850
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.