Rh1DG063000

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000434
Physical Location & Seq
Reverse (-)
11061766 .. 11062956
1191 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG063000.1

Sequence Viewer

Length: 996 bp
ATGGGTCTCAAACTTGTCATTAATATGTTGTCAATACTTATGGTCTTATCCTCGACATCCGCAGGTAGATCTAGGGAGCTTTTAGCCGGTGCTGGCTTTGACGTGACCACTGCAAAATATGGTGCAAAGCCCAATTCTGATATTACTCAGGCTTTAGCAAATGCATGGAAAGATGCATGTGCATCAACATCGGCAAGTAGAGTTATTATTCCAAAAGGGACATACAAACTGAAAGAAGCAAGTTTCAAAGGTCCTTGCAAGGCTCCGATTGAGGTTCAGGTCCAAGGTACTTTGCAGGCGCCACCAGACGGCGCCCAACTATCGAAACCAGATACGTGGATCGAGTTTTCATACCTTGACAGGTTCACATTATCGGGTAGTGGAACCTTTGATGGCCAAGGACAAAAAGCTTGGAAAGAAAATGATTGCCACAAAAACCCAAAGTGTTCATCTATTACCGTTAATATGAGGTTCCACTCTGTCAAGAACTCATTAGTCAGGGATGTAACTTCACTTAACAGCAAGAATTTCCACGTGAATGTATTATCGTGCGAGCAACTTACATTCCAACATTTCACCGTCGCTGCACCAGGAGATAGCGTTAATACAGATGGAATACATATTGGGCGCTCAACCGGGGTCAATATTACTGATTCAAAGATTGGTACAGGGGACGATTGCATTTCGATTGGTGATGGCACCAAGCAACTAACTATAACTAAGGTAACTTGTGGACCAGGCCATGGAATAAGCATAGGAAGTCTTGGAAGGTACCCAAAAGAAGAACCTGTGAGTGGAATCCATATTAGGAACTGTACTCTCAGTAATACGTCCAACGGTGTTAGAATCAAGACATGGCCTAATTCTCCTGCAGCTAGCACTGCCTCGGATATTCACTTTGAGGATATCATCATGAATAATGTTGGTAACCCAATCGTCATTGATCAAGAATACTGCCCATGGAATCAGTGTAATAAACAGGTATTGTCCATATAA
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

331

Amino Acids

35.52

Weight (kDa)

8.47

Isoelectric Point (pI)

28.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 60 - 328 3.6e-90 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: OG0000434)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07820 AT3G07830 AT3G07840 AT5G48140
fragaria_vesca FvH4_1g26811 FvH4_2g02350 FvH4_6g41380 FvH4_6g41380 FvH4_6g41380 FvH4_6g41430 FvH4_6g41740 FvH4_6g43060 FvH4_7g02910
malus_domestica MD00G1117700.v1.1 MD00G1117800.v1.1 MD00G1117900.v1.1 MD09G1120000.v1.1 MD09G1120100.v1.1 MD09G1120200.v1.1 MD09G1120300.v1.1 MD12G1142000.v1.1 MD13G1218300.v1.1 MD13G1220100.v1.1 MD13G1220200.v1.1 MD16G1223300.v1.1 MD16G1223500.v1.1 MD16G1223600.v1.1 MD17G1110800.v1.1
prunus_persica Prupe.1G044900_v2.0.a1 Prupe.1G045000_v2.0.a1 Prupe.1G167700_v2.0.a1 Prupe.2G005600_v2.0.a1 Prupe.2G005700_v2.0.a1 Prupe.2G008600_v2.0.a1 Prupe.2G009200_v2.0.a1 Prupe.2G009300_v2.0.a1 Prupe.2G009400_v2.0.a1 Prupe.3G109100_v2.0.a1 Prupe.3G109200_v2.0.a1 Prupe.3G109400_v2.0.a1 Prupe.3G109500_v2.0.a1 Prupe.3G109700_v2.0.a1 Prupe.3G203300_v2.0.a1 Prupe.3G203600_v2.0.a1 Prupe.3G203900_v2.0.a1 Prupe.3G204000_v2.0.a1 Prupe.3G204100_v2.0.a1 Prupe.3G204200_v2.0.a1
pyrus_communis pycom09g04480 pycom09g04490 pycom09g04500 pycom12g13680
rosa_chinensis RchiOBHm_Chr1g0323871 RchiOBHm_Chr2g0156921 RchiOBHm_Chr2g0159061 RchiOBHm_Chr6g0246271 RchiOBHm_Chr6g0246281
rosa_laevigata RLG00000015266 RLG00000020954 RLG00000021134 RLG00000030246 RLG00000030250 RLG00000030295
rosa_multiflora Rmu_co8098394.1_g000001 Rmu_co8404671.1_g000001 Rmu_sc0000507.1_g000021 Rmu_sc0001066.1_g000011 Rmu_sc0001066.1_g000015 Rmu_sc0009451.1_g000001 Rmu_ssc0000408.1_g000005
rosa_roxburghii Rroxscaffold_2G00090810 Rroxscaffold_2G00092580 Rroxscaffold_4G00326280 Rroxscaffold_7G00214720
rosa_rugosa Rorug01G0040400 Rorug02G0457200 Rorug05G0520000
rosa_samantha Rh1AG057700 Rh1BG048800 Rh1CG059100 Rh1DG063000 Rh2AG522900 Rh2BG536200 Rh2BG553200 Rh2CG507800 Rh2DG545200 Rh6AG034100 Rh6BG029300 Rh6DG028700
rosa_wichuraiana Rw0G023110 Rw1G004930 Rw2G043170 Rw2G044730 Rw6G002760 Rw6G002920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 53
Acc65I GGTACC 1 cut(s) 771
AccB1I GGYRCC 4 cut(s) 298, 311, 698, 771
AccB7I CCANNNNNTGG 1 cut(s) 743
AciI CCGC 1 cut(s) 60
AclWI GGATC 1 cut(s) 347
AcoI YGGCCR 1 cut(s) 394
AcsI RAATTY 1 cut(s) 526
AcvI CACGTG 1 cut(s) 535
AcyI GRCGYC 2 cut(s) 299, 312
AfaI GTAC 4 cut(s) 289, 667, 773, 817
AfiI CCNNNNNNNGG 3 cut(s) 308, 743, 794
AgsI TTSAA 2 cut(s) 247, 657
AjiI CACGTC 1 cut(s) 103
AjnI CCWGG 2 cut(s) 589, 736
AluBI AGCT 3 cut(s) 79, 410, 875
AluI AGCT 3 cut(s) 79, 410, 875
Alw26I GTCTC 1 cut(s) 11
AlwI GGATC 1 cut(s) 347
AoxI GGCC 3 cut(s) 394, 739, 857
ApeKI GCWGC 2 cut(s) 584, 872
ApoI RAATTY 1 cut(s) 526
AseI ATTAAT 1 cut(s) 21
Asp718I GGTACC 1 cut(s) 771
AspLEI GCGC 3 cut(s) 301, 314, 630
AspS9I GGNCC 3 cut(s) 251, 280, 734
AsuC2I CCSGG 1 cut(s) 637
AsuHPI GGTGA 2 cut(s) 568, 704
AsuNHI GCTAGC 1 cut(s) 875
AvaII GGWCC 3 cut(s) 251, 280, 734
BalI TGGCCA 1 cut(s) 396
BanI GGYRCC 4 cut(s) 298, 311, 698, 771
BbrPI CACGTG 1 cut(s) 535
BbvI GCAGC 2 cut(s) 571, 884
BccI CCATC 3 cut(s) 386, 605, 689
BceAI ACGGC 1 cut(s) 325
BcgI CGANNNNNNTGC 2 cut(s) 171, 205
BciT130I CCWGG 2 cut(s) 591, 738
BclI TGATCA 1 cut(s) 943
BcnI CCSGG 1 cut(s) 637
BcoDI GTCTC 1 cut(s) 11
BfaI CTAG 2 cut(s) 72, 876
BfmI CTRYAG 1 cut(s) 870
BfoI RGCGCY 3 cut(s) 302, 315, 631
BfuAI ACCTGC 1 cut(s) 53
BglII AGATCT 1 cut(s) 68
BisI GCNGC 2 cut(s) 585, 873
BlsI GCNGC 2 cut(s) 586, 874
Bme1390I CCNGG 3 cut(s) 591, 637, 738
Bme18I GGWCC 3 cut(s) 251, 280, 734
BmgBI CACGTC 1 cut(s) 103
BmgT120I GGNCC 3 cut(s) 251, 280, 734
BmiI GGNNCC 7 cut(s) 264, 300, 313, 385, 473, 700, 773
BmrFI CCNGG 3 cut(s) 591, 637, 738
BmsI GCATC 2 cut(s) 163, 191
BmtI GCTAGC 1 cut(s) 879
BpuMI CCSGG 1 cut(s) 637
BsaAI YACGTR 2 cut(s) 336, 535
BsaHI GRCGYC 2 cut(s) 299, 312
BsaI GGTCTC 1 cut(s) 11
BsaJI CCNNGG 6 cut(s) 283, 397, 636, 742, 885, 959
BsaXI ACNNNNNCTCC 2 cut(s) 585, 615
Bsc4I CCNNNNNNNGG 3 cut(s) 308, 743, 794
Bse118I RCCGGY 1 cut(s) 86
BseBI CCWGG 2 cut(s) 591, 738
BseDI CCNNGG 6 cut(s) 283, 397, 636, 742, 885, 959
BseGI GGATG 2 cut(s) 56, 508
BseLI CCNNNNNNNGG 3 cut(s) 308, 743, 794
BseMII CTCAG 2 cut(s) 161, 835
BseXI GCAGC 2 cut(s) 571, 884
BsgI GTGCAG 1 cut(s) 570
BshFI GGCC 3 cut(s) 396, 741, 859
BshNI GGYRCC 4 cut(s) 298, 311, 698, 771
BsiSI CCGG 2 cut(s) 87, 636
BslFI GGGAC 2 cut(s) 232, 686
BslI CCNNNNNNNGG 3 cut(s) 308, 743, 794
BsmAI GTCTC 1 cut(s) 11
BsmFI GGGAC 2 cut(s) 232, 686
BsnI GGCC 3 cut(s) 396, 741, 859
Bso31I GGTCTC 1 cut(s) 11
Bsp143I GATC 3 cut(s) 68, 339, 943
Bsp19I CCATGG 2 cut(s) 742, 959
BspACI CCGC 1 cut(s) 60
BspANI GGCC 3 cut(s) 396, 741, 859
BspCNI CTCAG 2 cut(s) 160, 834
BspHI TCATGA 1 cut(s) 912
BspLI GGNNCC 7 cut(s) 264, 300, 313, 385, 473, 700, 773
BspMAI CTGCAG 1 cut(s) 874
BspMI ACCTGC 1 cut(s) 53
BspOI GCTAGC 1 cut(s) 879
BspPI GGATC 1 cut(s) 347
BspT107I GGYRCC 4 cut(s) 298, 311, 698, 771
BspTNI GGTCTC 1 cut(s) 11
BsrFI RCCGGY 1 cut(s) 86
BssAI RCCGGY 1 cut(s) 86
BssECI CCNNGG 6 cut(s) 283, 397, 636, 742, 885, 959
BssMI GATC 3 cut(s) 68, 339, 943
BssNI GRCGYC 2 cut(s) 299, 312
BssT1I CCWWGG 4 cut(s) 283, 397, 742, 959
Bst2UI CCWGG 2 cut(s) 591, 738
Bst4CI ACNGT 4 cut(s) 460, 580, 815, 839
BstACI GRCGYC 2 cut(s) 299, 312
BstBAI YACGTR 2 cut(s) 336, 535
BstC8I GCNNGC 4 cut(s) 94, 297, 554, 877
BstDEI CTNAG 3 cut(s) 147, 720, 821
BstDSI CCRYGG 2 cut(s) 742, 959
BstEII GGTNACC 1 cut(s) 926
BstF5I GGATG 2 cut(s) 56, 508
BstH2I RGCGCY 3 cut(s) 302, 315, 631
BstHHI GCGC 3 cut(s) 301, 314, 630
BstKTI GATC 3 cut(s) 71, 342, 946
BstMAI GTCTC 1 cut(s) 11
BstMBI GATC 3 cut(s) 68, 339, 943
BstMWI GCNNNNNNNGC 1 cut(s) 881
BstNI CCWGG 2 cut(s) 591, 738
BstNSI RCATGY 1 cut(s) 180
BstPI GGTNACC 1 cut(s) 926
BstSCI CCNGG 3 cut(s) 589, 635, 736
BstSFI CTRYAG 1 cut(s) 870
BstV1I GCAGC 2 cut(s) 571, 884
BstX2I RGATCY 1 cut(s) 68
BstXI CCANNNNNNTGG 1 cut(s) 336
BstYI RGATCY 1 cut(s) 68
BsuRI GGCC 3 cut(s) 396, 741, 859
BtgI CCRYGG 2 cut(s) 742, 959
BtrI CACGTC 1 cut(s) 103
BtsCI GGATG 2 cut(s) 56, 508
BtsI GCAGTG 2 cut(s) 108, 879
BtsIMutI CAGTG 3 cut(s) 108, 879, 974
BveI ACCTGC 1 cut(s) 53
Cac8I GCNNGC 4 cut(s) 94, 297, 554, 877
CciI TCATGA 1 cut(s) 912
CfoI GCGC 3 cut(s) 301, 314, 630
Cfr10I RCCGGY 1 cut(s) 86
Cfr13I GGNCC 3 cut(s) 251, 280, 734
Csp6I GTAC 4 cut(s) 288, 666, 772, 816
CviAII CATG 6 cut(s) 165, 177, 743, 855, 913, 960
CviQI GTAC 4 cut(s) 288, 666, 772, 816
DdeI CTNAG 3 cut(s) 147, 720, 821
DinI GGCGCC 2 cut(s) 300, 313
DpnI GATC 3 cut(s) 70, 341, 945
DpnII GATC 3 cut(s) 68, 339, 943
EaeI YGGCCR 1 cut(s) 394
Eco130I CCWWGG 4 cut(s) 283, 397, 742, 959
Eco31I GGTCTC 1 cut(s) 11
Eco32I GATATC 1 cut(s) 907
Eco47I GGWCC 3 cut(s) 251, 280, 734
Eco72I CACGTG 1 cut(s) 535
Eco91I GGTNACC 1 cut(s) 926
EcoO109I RGGNCCY 1 cut(s) 251
EcoO65I GGTNACC 1 cut(s) 926
EcoRII CCWGG 2 cut(s) 589, 736
EcoRV GATATC 1 cut(s) 907
EcoT14I CCWWGG 4 cut(s) 283, 397, 742, 959
EcoT22I ATGCAT 2 cut(s) 166, 178
EgeI GGCGCC 2 cut(s) 300, 313
EheI GGCGCC 2 cut(s) 300, 313
ErhI CCWWGG 4 cut(s) 283, 397, 742, 959
FaeI CATG 6 cut(s) 168, 180, 746, 858, 916, 963
FaqI GGGAC 2 cut(s) 232, 686
FatI CATG 6 cut(s) 164, 176, 742, 854, 912, 959
FbaI TGATCA 1 cut(s) 943
Fnu4HI GCNGC 2 cut(s) 585, 873
FokI GGATG 2 cut(s) 43, 515
Fsp4HI GCNGC 2 cut(s) 585, 873
FspBI CTAG 2 cut(s) 72, 876
GlaI GCGC 3 cut(s) 300, 313, 629
GluI GCNGC 2 cut(s) 585, 873
HaeII RGCGCY 3 cut(s) 302, 315, 631
HaeIII GGCC 3 cut(s) 396, 741, 859
HapII CCGG 2 cut(s) 87, 636
HhaI GCGC 3 cut(s) 301, 314, 630
Hin1I GRCGYC 2 cut(s) 299, 312
Hin1II CATG 6 cut(s) 168, 180, 746, 858, 916, 963
Hin6I GCGC 3 cut(s) 299, 312, 628
HinP1I GCGC 3 cut(s) 299, 312, 628
HindIII AAGCTT 1 cut(s) 408
HinfI GANTC 4 cut(s) 653, 798, 846, 964
HpaII CCGG 2 cut(s) 87, 636
HphI GGTGA 2 cut(s) 568, 704
Hpy166II GTNNAC 2 cut(s) 366, 734
Hpy188I TCNGA 3 cut(s) 139, 267, 889
Hpy188III TCNNGA 4 cut(s) 484, 850, 913, 947
Hpy8I GTNNAC 2 cut(s) 366, 734
Hpy99I CGWCG 1 cut(s) 584
HpyAV CCTTC 1 cut(s) 762
HpyCH4III ACNGT 4 cut(s) 460, 580, 815, 839
HpyCH4IV ACGT 4 cut(s) 102, 335, 534, 830
HpyF10VI GCNNNNNNNGC 1 cut(s) 881
HpyF3I CTNAG 3 cut(s) 147, 720, 821
HpySE526I ACGT 4 cut(s) 102, 335, 534, 830
Hsp92I GRCGYC 2 cut(s) 299, 312
Hsp92II CATG 6 cut(s) 168, 180, 746, 858, 916, 963
HspAI GCGC 3 cut(s) 299, 312, 628
KasI GGCGCC 2 cut(s) 298, 311
KpnI GGTACC 1 cut(s) 775
Ksp22I TGATCA 1 cut(s) 943
Kzo9I GATC 3 cut(s) 68, 339, 943
LmnI GCTCC 2 cut(s) 76, 268
Lsp1109I GCAGC 2 cut(s) 571, 884
LweI GCATC 2 cut(s) 163, 191
MaeI CTAG 2 cut(s) 72, 876
MaeII ACGT 4 cut(s) 102, 335, 534, 830
MaeIII GTNAC 4 cut(s) 103, 505, 724, 926
MalI GATC 3 cut(s) 70, 341, 945
MboI GATC 3 cut(s) 68, 339, 943
MboII GAAGA 1 cut(s) 794
MflI RGATCY 1 cut(s) 68
MlsI TGGCCA 1 cut(s) 396
MluCI AATT 3 cut(s) 133, 526, 862
MluNI TGGCCA 1 cut(s) 396
Mly113I GGCGCC 2 cut(s) 299, 312
MmeI TCCRAC 2 cut(s) 592, 858
MnlI CCTC 5 cut(s) 61, 265, 462, 895, 895
Mox20I TGGCCA 1 cut(s) 396
Mph1103I ATGCAT 2 cut(s) 166, 178
MscI TGGCCA 1 cut(s) 396
MseI TTAA 4 cut(s) 21, 462, 516, 603
MslI CAYNNNNRTG 2 cut(s) 23, 537
Msp20I TGGCCA 1 cut(s) 396
MspI CCGG 2 cut(s) 87, 636
MspR9I CCNGG 3 cut(s) 591, 637, 738
MvaI CCWGG 2 cut(s) 591, 738
MwoI GCNNNNNNNGC 1 cut(s) 881
NarI GGCGCC 2 cut(s) 299, 312
NciI CCSGG 1 cut(s) 637
NcoI CCATGG 2 cut(s) 742, 959
NdeII GATC 3 cut(s) 68, 339, 943
NheI GCTAGC 1 cut(s) 875
NlaIII CATG 6 cut(s) 168, 180, 746, 858, 916, 963
NlaIV GGNNCC 7 cut(s) 264, 300, 313, 385, 473, 700, 773
NmuCI GTSAC 1 cut(s) 103
NsiI ATGCAT 2 cut(s) 166, 178
NspI RCATGY 1 cut(s) 180
PagI TCATGA 1 cut(s) 912
PfeI GAWTC 4 cut(s) 653, 798, 846, 964
PflMI CCANNNNNTGG 1 cut(s) 743
PkrI GCNGC 2 cut(s) 586, 874
PluTI GGCGCC 2 cut(s) 302, 315
PmaCI CACGTG 1 cut(s) 535
PmlI CACGTG 1 cut(s) 535
Ppu21I YACGTR 2 cut(s) 336, 535
PpuMI RGGWCCY 1 cut(s) 251
PshBI ATTAAT 1 cut(s) 21
Psp5II RGGWCCY 1 cut(s) 251
Psp6I CCWGG 2 cut(s) 589, 736
PspCI CACGTG 1 cut(s) 535
PspEI GGTNACC 1 cut(s) 926
PspGI CCWGG 2 cut(s) 589, 736
PspN4I GGNNCC 7 cut(s) 264, 300, 313, 385, 473, 700, 773
PspPI GGNCC 3 cut(s) 251, 280, 734
PspPPI RGGWCCY 1 cut(s) 251
PstI CTGCAG 1 cut(s) 874
PsuI RGATCY 1 cut(s) 68
RsaI GTAC 4 cut(s) 289, 667, 773, 817
RsaNI GTAC 4 cut(s) 288, 666, 772, 816
RseI CAYNNNNRTG 2 cut(s) 23, 537
SaqAI TTAA 4 cut(s) 21, 462, 516, 603
SatI GCNGC 2 cut(s) 585, 873
Sau3AI GATC 3 cut(s) 68, 339, 943
Sau96I GGNCC 3 cut(s) 251, 280, 734
ScrFI CCNGG 3 cut(s) 591, 637, 738
SfaNI GCATC 2 cut(s) 163, 191
SfcI CTRYAG 1 cut(s) 870
SfoI GGCGCC 2 cut(s) 300, 313
SinI GGWCC 3 cut(s) 251, 280, 734
SmiMI CAYNNNNRTG 2 cut(s) 23, 537
Sse9I AATT 3 cut(s) 133, 526, 862
SsiI CCGC 1 cut(s) 60
SspDI GGCGCC 2 cut(s) 298, 311
SspI AATATT 1 cut(s) 646
SspMI CTAG 2 cut(s) 72, 876
StyD4I CCNGG 3 cut(s) 589, 635, 736
StyI CCWWGG 4 cut(s) 283, 397, 742, 959
TaaI ACNGT 4 cut(s) 460, 580, 815, 839
TaiI ACGT 4 cut(s) 105, 338, 537, 833
TaqI TCGA 4 cut(s) 53, 323, 342, 686
TasI AATT 3 cut(s) 133, 526, 862
TatI WGTACW 1 cut(s) 815
TfiI GAWTC 4 cut(s) 653, 798, 846, 964
Tru1I TTAA 4 cut(s) 21, 462, 516, 603
Tru9I TTAA 4 cut(s) 21, 462, 516, 603
TscAI CASTG 3 cut(s) 115, 886, 974
TseFI GTSAC 1 cut(s) 103
TseI GCWGC 2 cut(s) 584, 872
Tsp45I GTSAC 1 cut(s) 103
TspDTI ATGAA 3 cut(s) 339, 438, 929
TspRI CASTG 3 cut(s) 115, 886, 974
Van91I CCANNNNNTGG 1 cut(s) 743
VpaK11BI GGWCC 3 cut(s) 251, 280, 734
VspI ATTAAT 1 cut(s) 21
XapI RAATTY 1 cut(s) 526
XceI RCATGY 1 cut(s) 180
XspI CTAG 2 cut(s) 72, 876
Zsp2I ATGCAT 2 cut(s) 166, 178
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.