Rh6CG370500

Exopolygalacturonase clone

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0016557
Physical Location & Seq
Forward (+)
55757758 .. 55759712
1955 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG370500.1

Sequence Viewer

Length: 948 bp
ATGTCTATGGGATTGAGCTCGCCAAACATGGACACCGCAAGGAGATTGGAGGCTATTCTTCTCGTAGGCTTAGTTTTTCTCGCTTGCGCGGCCAATGGTGCATCCCGTCGACATCTTTTTGAGGTTGGTGCACCTCGTCGGAGCCTCACTGATACTACGAACCGAAAAGTATTCGACGTCACAGCCTTCGGTGCTAAGCCCGAAGCCGGCGATTCAAAAGGACGCAAAATGAGAGAGCTTCCCGGCGGTGGAGATATAGATGCTCCTCTACCACAACTTCCCGTTGCTGGTGGCGGCGACTCCGGCAGCGATGATGGGAATGATGACGGTTCGAATCCCGATGCTGACAATGATACTGGAATGGCATTCATTAAAACGTGGGTGGCCGCATGCAGGGGAGAGTACAAGGGTCCAGCAAAGGTTCTTATTCCAAAAGGCACATTTTTGGCCGGACCTGTTGTGTTCCAAGGGCCATGCACCAGCTCCAAGGAGCCAATCGTTTTGGAAATTCAGGGAGAAGTGAAAGCCACCACCGATTTGAGTGATTATTCCTCTCCTGAATGGATCTCGTTCGAAAATATTGACGGTTTGATTGTCACCGGTGATGGAGTTATCAATGGCCAAGGCGAGAAAACATGGAACGGTGCCGGCTGCCATAGCGACGACTGCCCTCATTCCCCATCCAAGGATCCAAACTCCGGAAAGCAATCCCTATATAAGCTCAGTGATATTCACTTCAGAAACATTAAGGGCACCTCGTCGTACAACGTTGCCGTGTCACTATCATGCAGCGCTACAAACCCTTGCGACGGGGTTGAATTGAATAACATCGACATTGCCTTAGGAGGAGCCGGCACCGCCAAAAAAACAGACGTTGCATCGGAATGTTACAACGCAAAGGTTACTACTAAGGGCACAATGAATCCAGCAGCACCAGCCTGCCAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003824 GO:0004553 GO:0004650 GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0016787 GO:0016798 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

315

Amino Acids

32.8

Weight (kDa)

5.1

Isoelectric Point (pI)

42.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 138 - 227 8.5e-13 Glycosyl hydrolases family 28
Glyco_hydro_28 PF00295 237 - 294 1.6e-07 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: OG0016557)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g26010
malus_domestica MD03G1291400.v1.1 MD11G1306900.v1.1
prunus_persica Prupe.8G264500_v2.0.a1
pyrus_communis pycom03g23080 pycom11g26850
rosa_chinensis RchiOBHm_Chr6g0294381
rosa_laevigata RLG00000011876
rosa_multiflora Rmu_sc0005369.1_g000014
rosa_roxburghii Rroxscaffold_7G00173430
rosa_rugosa Rorug06G0243900
rosa_samantha Rh6AG356500 Rh6CG370500
rosa_wichuraiana Rw6G031070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 180
AccB1I GGYRCC 3 cut(s) 644, 752, 854
AccI GTMKAC 1 cut(s) 109
AccII CGCG 1 cut(s) 89
AccIII TCCGGA 1 cut(s) 698
AciI CCGC 6 cut(s) 36, 89, 246, 294, 387, 858
AclI AACGTT 1 cut(s) 768
AclWI GGATC 3 cut(s) 572, 683, 696
AcoI YGGCCR 4 cut(s) 90, 384, 447, 619
AcsI RAATTY 1 cut(s) 507
AcuI CTGAAG 1 cut(s) 721
AcyI GRCGYC 1 cut(s) 177
AfaI GTAC 2 cut(s) 404, 764
AfeI AGCGCT 1 cut(s) 793
AfiI CCNNNNNNNGG 7 cut(s) 206, 248, 287, 393, 685, 698, 809
AgeI ACCGGT 1 cut(s) 599
AgsI TTSAA 3 cut(s) 216, 818, 823
AluBI AGCT 4 cut(s) 18, 238, 483, 721
AluI AGCT 4 cut(s) 18, 238, 483, 721
Alw21I GWGCWC 2 cut(s) 20, 133
Alw44I GTGCAC 1 cut(s) 129
AlwI GGATC 3 cut(s) 572, 683, 696
Aor13HI TCCGGA 1 cut(s) 698
Aor51HI AGCGCT 1 cut(s) 793
AoxI GGCC 5 cut(s) 90, 384, 447, 470, 619
ApaLI GTGCAC 1 cut(s) 129
ApeKI GCWGC 4 cut(s) 306, 651, 789, 929
ApoI RAATTY 1 cut(s) 507
AsiGI ACCGGT 1 cut(s) 599
AspLEI GCGC 2 cut(s) 89, 794
AspS9I GGNCC 3 cut(s) 410, 452, 470
AsuC2I CCSGG 1 cut(s) 243
AsuHPI GGTGA 2 cut(s) 589, 614
AsuII TTCGAA 2 cut(s) 332, 573
AvaII GGWCC 2 cut(s) 410, 452
AxyI CCTNAGG 1 cut(s) 841
BaeGI GKGCMC 3 cut(s) 133, 755, 917
BalI TGGCCA 1 cut(s) 621
BamHI GGATCC 1 cut(s) 688
BanI GGYRCC 3 cut(s) 644, 752, 854
BanII GRGCYC 1 cut(s) 20
Bbv12I GWGCWC 2 cut(s) 20, 133
BbvI GCAGC 4 cut(s) 318, 638, 801, 941
BccI CCATC 3 cut(s) 308, 599, 688
BceAI ACGGC 1 cut(s) 758
BcnI CCSGG 1 cut(s) 243
BfoI RGCGCY 1 cut(s) 795
BisI GCNGC 7 cut(s) 90, 295, 307, 387, 652, 790, 930
BlpI GCTNAGC 1 cut(s) 195
BlsI GCNGC 7 cut(s) 91, 296, 308, 388, 653, 791, 931
Bme1390I CCNGG 1 cut(s) 243
Bme18I GGWCC 2 cut(s) 410, 452
BmgT120I GGNCC 3 cut(s) 410, 452, 470
BmiI GGNNCC 8 cut(s) 143, 411, 492, 646, 690, 754, 850, 856
BmrFI CCNGG 1 cut(s) 243
BmsI GCATC 4 cut(s) 110, 250, 331, 887
Bpu1102I GCTNAGC 1 cut(s) 195
Bpu14I TTCGAA 2 cut(s) 332, 573
BpuMI CCSGG 1 cut(s) 243
BsaHI GRCGYC 1 cut(s) 177
BsaJI CCNNGG 4 cut(s) 466, 486, 622, 684
BsaWI WCCGGW 2 cut(s) 599, 698
Bsc4I CCNNNNNNNGG 7 cut(s) 206, 248, 287, 393, 685, 698, 809
Bse118I RCCGGY 4 cut(s) 206, 599, 647, 851
Bse1I ACTGG 1 cut(s) 361
Bse21I CCTNAGG 1 cut(s) 841
Bse3DI GCAATG 1 cut(s) 834
BseAI TCCGGA 1 cut(s) 698
BseDI CCNNGG 4 cut(s) 466, 486, 622, 684
BseGI GGATG 2 cut(s) 101, 680
BseLI CCNNNNNNNGG 7 cut(s) 206, 248, 287, 393, 685, 698, 809
BseMI GCAATG 1 cut(s) 834
BseMII CTCAG 1 cut(s) 736
BseNI ACTGG 1 cut(s) 361
BseRI GAGGAG 2 cut(s) 255, 861
BseSI GKGCMC 3 cut(s) 133, 755, 917
BseXI GCAGC 4 cut(s) 318, 638, 801, 941
Bsh1236I CGCG 1 cut(s) 89
BshFI GGCC 5 cut(s) 92, 386, 449, 472, 621
BshNI GGYRCC 3 cut(s) 644, 752, 854
BshTI ACCGGT 1 cut(s) 599
BsiHKAI GWGCWC 2 cut(s) 20, 133
BsiSI CCGG 8 cut(s) 207, 243, 303, 450, 600, 648, 699, 852
BslI CCNNNNNNNGG 7 cut(s) 206, 248, 287, 393, 685, 698, 809
BsmI GAATGC 1 cut(s) 365
BsnI GGCC 5 cut(s) 92, 386, 449, 472, 621
Bsp119I TTCGAA 2 cut(s) 332, 573
Bsp1286I GDGCHC 4 cut(s) 20, 133, 755, 917
Bsp13I TCCGGA 1 cut(s) 698
Bsp143I GATC 2 cut(s) 564, 688
Bsp1720I GCTNAGC 1 cut(s) 195
BspACI CCGC 6 cut(s) 36, 89, 246, 294, 387, 858
BspANI GGCC 5 cut(s) 92, 386, 449, 472, 621
BspCNI CTCAG 1 cut(s) 735
BspEI TCCGGA 1 cut(s) 698
BspFNI CGCG 1 cut(s) 89
BspLI GGNNCC 8 cut(s) 143, 411, 492, 646, 690, 754, 850, 856
BspPI GGATC 3 cut(s) 572, 683, 696
BspT104I TTCGAA 2 cut(s) 332, 573
BspT107I GGYRCC 3 cut(s) 644, 752, 854
BsrDI GCAATG 1 cut(s) 834
BsrFI RCCGGY 4 cut(s) 206, 599, 647, 851
BsrI ACTGG 1 cut(s) 361
BssAI RCCGGY 4 cut(s) 206, 599, 647, 851
BssECI CCNNGG 4 cut(s) 466, 486, 622, 684
BssMI GATC 2 cut(s) 564, 688
BssNI GRCGYC 1 cut(s) 177
BssT1I CCWWGG 4 cut(s) 466, 486, 622, 684
Bst4CI ACNGT 3 cut(s) 329, 587, 644
BstACI GRCGYC 1 cut(s) 177
BstBI TTCGAA 2 cut(s) 332, 573
BstC8I GCNNGC 7 cut(s) 20, 85, 208, 391, 649, 853, 940
BstDEI CTNAG 5 cut(s) 70, 195, 722, 841, 909
BstF5I GGATG 2 cut(s) 101, 680
BstFNI CGCG 1 cut(s) 89
BstH2I RGCGCY 1 cut(s) 795
BstHHI GCGC 2 cut(s) 89, 794
BstKTI GATC 2 cut(s) 567, 691
BstMBI GATC 2 cut(s) 564, 688
BstMWI GCNNNNNNNGC 8 cut(s) 89, 98, 191, 303, 657, 666, 857, 935
BstNSI RCATGY 1 cut(s) 393
BstSCI CCNGG 1 cut(s) 241
BstSLI GKGCMC 3 cut(s) 133, 755, 917
BstUI CGCG 1 cut(s) 89
BstV1I GCAGC 4 cut(s) 318, 638, 801, 941
BstX2I RGATCY 2 cut(s) 564, 688
BstYI RGATCY 2 cut(s) 564, 688
Bsu36I CCTNAGG 1 cut(s) 841
BsuRI GGCC 5 cut(s) 92, 386, 449, 472, 621
BtgZI GCGATG 1 cut(s) 324
BtsCI GGATG 2 cut(s) 101, 680
BtsIMutI CAGTG 2 cut(s) 147, 730
Cac8I GCNNGC 7 cut(s) 20, 85, 208, 391, 649, 853, 940
CfoI GCGC 2 cut(s) 89, 794
Cfr10I RCCGGY 4 cut(s) 206, 599, 647, 851
Cfr13I GGNCC 3 cut(s) 410, 452, 470
CseI GACGC 1 cut(s) 231
Csp6I GTAC 2 cut(s) 403, 763
CspAI ACCGGT 1 cut(s) 599
CviAII CATG 5 cut(s) 28, 390, 474, 636, 786
CviQI GTAC 2 cut(s) 403, 763
DdeI CTNAG 5 cut(s) 70, 195, 722, 841, 909
DpnI GATC 2 cut(s) 566, 690
DpnII GATC 2 cut(s) 564, 688
EaeI YGGCCR 4 cut(s) 90, 384, 447, 619
Ecl136II GAGCTC 1 cut(s) 18
Eco130I CCWWGG 4 cut(s) 466, 486, 622, 684
Eco24I GRGCYC 1 cut(s) 20
Eco47I GGWCC 2 cut(s) 410, 452
Eco47III AGCGCT 1 cut(s) 793
Eco53kI GAGCTC 1 cut(s) 18
Eco57I CTGAAG 1 cut(s) 721
Eco81I CCTNAGG 1 cut(s) 841
EcoICRI GAGCTC 1 cut(s) 18
EcoT14I CCWWGG 4 cut(s) 466, 486, 622, 684
EcoT38I GRGCYC 1 cut(s) 20
ErhI CCWWGG 4 cut(s) 466, 486, 622, 684
FaeI CATG 5 cut(s) 31, 393, 477, 639, 789
FatI CATG 5 cut(s) 27, 389, 473, 635, 785
FblI GTMKAC 1 cut(s) 109
Fnu4HI GCNGC 7 cut(s) 90, 295, 307, 387, 652, 790, 930
FokI GGATG 2 cut(s) 88, 667
FriOI GRGCYC 1 cut(s) 20
Fsp4HI GCNGC 7 cut(s) 90, 295, 307, 387, 652, 790, 930
GlaI GCGC 2 cut(s) 88, 793
GluI GCNGC 7 cut(s) 90, 295, 307, 387, 652, 790, 930
HaeII RGCGCY 1 cut(s) 795
HaeIII GGCC 5 cut(s) 92, 386, 449, 472, 621
HapII CCGG 8 cut(s) 207, 243, 303, 450, 600, 648, 699, 852
HgaI GACGC 1 cut(s) 231
HhaI GCGC 2 cut(s) 89, 794
Hin1I GRCGYC 1 cut(s) 177
Hin1II CATG 5 cut(s) 31, 393, 477, 639, 789
Hin6I GCGC 2 cut(s) 87, 792
HinP1I GCGC 2 cut(s) 87, 792
HincII GTYRAC 1 cut(s) 110
HindII GTYRAC 1 cut(s) 110
HinfI GANTC 4 cut(s) 212, 299, 334, 922
HpaII CCGG 8 cut(s) 207, 243, 303, 450, 600, 648, 699, 852
HphI GGTGA 2 cut(s) 589, 614
Hpy166II GTNNAC 2 cut(s) 110, 131
Hpy188I TCNGA 3 cut(s) 141, 740, 883
Hpy188III TCNNGA 3 cut(s) 338, 557, 699
Hpy8I GTNNAC 2 cut(s) 110, 131
Hpy99I CGWCG 6 cut(s) 111, 141, 179, 665, 763, 812
HpyAV CCTTC 1 cut(s) 196
HpyCH4III ACNGT 3 cut(s) 329, 587, 644
HpyCH4IV ACGT 4 cut(s) 177, 377, 768, 873
HpyCH4V TGCA 6 cut(s) 101, 131, 393, 477, 789, 878
HpyF10VI GCNNNNNNNGC 8 cut(s) 89, 98, 191, 303, 657, 666, 857, 935
HpyF3I CTNAG 5 cut(s) 70, 195, 722, 841, 909
HpySE526I ACGT 4 cut(s) 177, 377, 768, 873
Hsp92I GRCGYC 1 cut(s) 177
Hsp92II CATG 5 cut(s) 31, 393, 477, 639, 789
HspAI GCGC 2 cut(s) 87, 792
Kpn2I TCCGGA 1 cut(s) 698
KroI GCCGGC 3 cut(s) 206, 647, 851
KroNI GCCGGC 3 cut(s) 208, 649, 853
Kzo9I GATC 2 cut(s) 564, 688
LmnI GCTCC 5 cut(s) 141, 268, 488, 490, 848
Lsp1109I GCAGC 4 cut(s) 318, 638, 801, 941
LweI GCATC 4 cut(s) 110, 250, 331, 887
MaeII ACGT 4 cut(s) 177, 377, 768, 873
MaeIII GTNAC 5 cut(s) 178, 595, 777, 887, 901
MalI GATC 2 cut(s) 566, 690
MboI GATC 2 cut(s) 564, 688
MboII GAAGA 1 cut(s) 50
MflI RGATCY 2 cut(s) 564, 688
MhlI GDGCHC 4 cut(s) 20, 133, 755, 917
MlsI TGGCCA 1 cut(s) 621
MluCI AATT 2 cut(s) 507, 818
MluNI TGGCCA 1 cut(s) 621
MlyI GAGTC 1 cut(s) 293
MmeI TCCRAC 1 cut(s) 119
MnlI CCTC 9 cut(s) 43, 115, 144, 155, 276, 562, 681, 766, 839
Mox20I TGGCCA 1 cut(s) 621
MroI TCCGGA 1 cut(s) 698
MroNI GCCGGC 3 cut(s) 206, 647, 851
MscI TGGCCA 1 cut(s) 621
MseI TTAA 2 cut(s) 372, 747
MslI CAYNNNNRTG 2 cut(s) 784, 883
Msp20I TGGCCA 1 cut(s) 621
MspI CCGG 8 cut(s) 207, 243, 303, 450, 600, 648, 699, 852
MspR9I CCNGG 1 cut(s) 243
Mva1269I GAATGC 1 cut(s) 365
MvnI CGCG 1 cut(s) 89
MwoI GCNNNNNNNGC 8 cut(s) 89, 98, 191, 303, 657, 666, 857, 935
NaeI GCCGGC 3 cut(s) 208, 649, 853
NciI CCSGG 1 cut(s) 243
NdeII GATC 2 cut(s) 564, 688
NgoMIV GCCGGC 3 cut(s) 206, 647, 851
NlaIII CATG 5 cut(s) 31, 393, 477, 639, 789
NlaIV GGNNCC 8 cut(s) 143, 411, 492, 646, 690, 754, 850, 856
NmuCI GTSAC 3 cut(s) 178, 595, 777
NspI RCATGY 1 cut(s) 393
NspV TTCGAA 2 cut(s) 332, 573
PaeI GCATGC 1 cut(s) 393
PctI GAATGC 1 cut(s) 365
PdiI GCCGGC 3 cut(s) 208, 649, 853
PfeI GAWTC 3 cut(s) 212, 334, 922
PinAI ACCGGT 1 cut(s) 599
PkrI GCNGC 7 cut(s) 91, 296, 308, 388, 653, 791, 931
PleI GAGTC 1 cut(s) 293
PpsI GAGTC 1 cut(s) 293
Psp124BI GAGCTC 1 cut(s) 20
Psp1406I AACGTT 1 cut(s) 768
PspN4I GGNNCC 8 cut(s) 143, 411, 492, 646, 690, 754, 850, 856
PspPI GGNCC 3 cut(s) 410, 452, 470
PsuI RGATCY 2 cut(s) 564, 688
RsaI GTAC 2 cut(s) 404, 764
RsaNI GTAC 2 cut(s) 403, 763
RseI CAYNNNNRTG 2 cut(s) 784, 883
SacI GAGCTC 1 cut(s) 20
SalI GTCGAC 1 cut(s) 108
SaqAI TTAA 2 cut(s) 372, 747
SatI GCNGC 7 cut(s) 90, 295, 307, 387, 652, 790, 930
Sau3AI GATC 2 cut(s) 564, 688
Sau96I GGNCC 3 cut(s) 410, 452, 470
SchI GAGTC 1 cut(s) 293
ScrFI CCNGG 1 cut(s) 243
SduI GDGCHC 4 cut(s) 20, 133, 755, 917
SfaNI GCATC 4 cut(s) 110, 250, 331, 887
SfuI TTCGAA 2 cut(s) 332, 573
SgrAI CRCCGGYG 1 cut(s) 599
SinI GGWCC 2 cut(s) 410, 452
SmiMI CAYNNNNRTG 2 cut(s) 784, 883
SphI GCATGC 1 cut(s) 393
Sse9I AATT 2 cut(s) 507, 818
SsiI CCGC 6 cut(s) 36, 89, 246, 294, 387, 858
SspI AATATT 1 cut(s) 580
SstI GAGCTC 1 cut(s) 20
StyD4I CCNGG 1 cut(s) 241
StyI CCWWGG 4 cut(s) 466, 486, 622, 684
TaaI ACNGT 3 cut(s) 329, 587, 644
TaiI ACGT 4 cut(s) 180, 380, 771, 876
TaqI TCGA 5 cut(s) 109, 174, 332, 573, 831
TasI AATT 2 cut(s) 507, 818
TatI WGTACW 1 cut(s) 402
TauI GCSGC 3 cut(s) 92, 297, 389
TfiI GAWTC 3 cut(s) 212, 334, 922
Tru1I TTAA 2 cut(s) 372, 747
Tru9I TTAA 2 cut(s) 372, 747
TscAI CASTG 2 cut(s) 154, 730
TseFI GTSAC 3 cut(s) 178, 595, 777
TseI GCWGC 4 cut(s) 306, 651, 789, 929
Tsp45I GTSAC 3 cut(s) 178, 595, 777
TspDTI ATGAA 2 cut(s) 358, 935
TspRI CASTG 2 cut(s) 154, 730
VneI GTGCAC 1 cut(s) 129
VpaK11BI GGWCC 2 cut(s) 410, 452
XapI RAATTY 1 cut(s) 507
XceI RCATGY 1 cut(s) 393
XmiI GTMKAC 1 cut(s) 109
ZraI GACGTC 1 cut(s) 178
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.