Rh2CG614500

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0014180
Physical Location & Seq
Reverse (-)
79107039 .. 79107416
378 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2CG614500.1

Sequence Viewer

Length: 378 bp
ATGTTCGCAAACATTCAAGTTTCAGAAGTCGAGTTCCCTATCATGATTGATCAATACTACTGTGACAAGGGGCATTGCGCAAACAAAACCTCAGCTGTGGCAGTTTCGGGTATAAACTACGTAAACATTCAAGGAACCTATACATCAAAACCTGCACATTTTGCATGCAGTGACAGCATACCATGTACTGGTGTATCCCTAGACACCATAGACCTAAAATCGGTTCAATCAGGGAGGCACTTGTATGACCCTTTCTGTTGGGAGGCATATGGAGACCTCAAGACAAACACTGTCCCCCCAATTGATTGCTTGATGAAAGGAAAGCCATCTTCAAGCAGCAGCACAGTCCAGTCTCAAGGTGGTGGCTATTCTTGCTAA

Protein Analysis

125

Amino Acids

13.48

Weight (kDa)

5.4

Isoelectric Point (pI)

50.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 2 - 75 9.5e-15 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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Orthologous Genes (Group: OG0014180)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G10640 AT1G60590
fragaria_vesca FvH4_4g34120
malus_domestica MD13G1094100.v1.1 MD16G1095400.v1.1
prunus_persica Prupe.1G251200_v2.0.a1
pyrus_communis pycom13g08200 pycom16g08130
rosa_chinensis RchiOBHm_Chr4g0443631
rosa_laevigata RLG00000005907
rosa_multiflora Rmu_co8340541.1_g000001 Rmu_sc0001118.1_g000012
rosa_roxburghii Rroxscaffold_5G00384180
rosa_samantha Rh2CG614500 Rh4AG405700 Rh4BG416700
rosa_wichuraiana Rw4G034830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 79
Acc36I ACCTGC 1 cut(s) 160
AccB7I CCANNNNNTGG 1 cut(s) 188
AfaI GTAC 1 cut(s) 187
AfiI CCNNNNNNNGG 2 cut(s) 188, 220
AgsI TTSAA 4 cut(s) 17, 131, 227, 333
AluBI AGCT 1 cut(s) 95
AluI AGCT 1 cut(s) 95
Alw26I GTCTC 2 cut(s) 267, 357
ApeKI GCWGC 2 cut(s) 336, 339
AspLEI GCGC 1 cut(s) 80
BaeI ACNNNNGTAYC 2 cut(s) 177, 210
BbvCI CCTCAGC 1 cut(s) 91
BbvI GCAGC 2 cut(s) 348, 351
BccI CCATC 1 cut(s) 334
BciVI GTATCC 1 cut(s) 205
BclI TGATCA 1 cut(s) 49
BcoDI GTCTC 2 cut(s) 267, 357
BfaI CTAG 1 cut(s) 200
BfuAI ACCTGC 1 cut(s) 160
BfuI GTATCC 1 cut(s) 205
BisI GCNGC 2 cut(s) 337, 340
BlsI GCNGC 2 cut(s) 338, 341
BmiI GGNNCC 1 cut(s) 136
Bpu10I CCTNAGC 1 cut(s) 91
BpuEI CTTGAG 2 cut(s) 263, 339
BsaAI YACGTR 1 cut(s) 121
BsaI GGTCTC 1 cut(s) 267
Bsc4I CCNNNNNNNGG 2 cut(s) 188, 220
Bse1I ACTGG 2 cut(s) 193, 349
Bse3DI GCAATG 1 cut(s) 73
BseLI CCNNNNNNNGG 2 cut(s) 188, 220
BseMI GCAATG 1 cut(s) 73
BseMII CTCAG 1 cut(s) 105
BseNI ACTGG 2 cut(s) 193, 349
BseXI GCAGC 2 cut(s) 348, 351
BsgI GTGCAG 1 cut(s) 138
BslFI GGGAC 1 cut(s) 278
BslI CCNNNNNNNGG 2 cut(s) 188, 220
BsmAI GTCTC 2 cut(s) 267, 357
BsmFI GGGAC 1 cut(s) 278
Bso31I GGTCTC 1 cut(s) 267
Bsp143I GATC 1 cut(s) 49
BspCNI CTCAG 1 cut(s) 104
BspHI TCATGA 1 cut(s) 42
BspLI GGNNCC 1 cut(s) 136
BspMI ACCTGC 1 cut(s) 160
BspTNI GGTCTC 1 cut(s) 267
BsrDI GCAATG 1 cut(s) 73
BsrI ACTGG 2 cut(s) 193, 349
BssMI GATC 1 cut(s) 49
Bst4CI ACNGT 3 cut(s) 62, 292, 346
BstAPI GCANNNNNTGC 1 cut(s) 161
BstBAI YACGTR 1 cut(s) 121
BstC8I GCNNGC 1 cut(s) 166
BstDEI CTNAG 1 cut(s) 91
BstHHI GCGC 1 cut(s) 80
BstKTI GATC 1 cut(s) 52
BstMAI GTCTC 2 cut(s) 267, 357
BstMBI GATC 1 cut(s) 49
BstMWI GCNNNNNNNGC 3 cut(s) 161, 174, 372
BstNSI RCATGY 1 cut(s) 168
BstSNI TACGTA 1 cut(s) 121
BstV1I GCAGC 2 cut(s) 348, 351
BsuI GTATCC 1 cut(s) 205
BtsI GCAGTG 1 cut(s) 175
BtsIMutI CAGTG 2 cut(s) 175, 288
BveI ACCTGC 1 cut(s) 160
Cac8I GCNNGC 1 cut(s) 166
CciI TCATGA 1 cut(s) 42
CfoI GCGC 1 cut(s) 80
Csp6I GTAC 1 cut(s) 186
CviAII CATG 3 cut(s) 43, 165, 183
CviJI RGCY 3 cut(s) 95, 325, 366
CviKI_1 RGCY 3 cut(s) 95, 325, 366
CviQI GTAC 1 cut(s) 186
DdeI CTNAG 1 cut(s) 91
DpnI GATC 1 cut(s) 51
DpnII GATC 1 cut(s) 49
Eco105I TACGTA 1 cut(s) 121
Eco31I GGTCTC 1 cut(s) 267
FaeI CATG 3 cut(s) 46, 168, 186
FaqI GGGAC 1 cut(s) 278
FatI CATG 3 cut(s) 42, 164, 182
FauNDI CATATG 1 cut(s) 268
FbaI TGATCA 1 cut(s) 49
Fnu4HI GCNGC 2 cut(s) 337, 340
Fsp4HI GCNGC 2 cut(s) 337, 340
FspBI CTAG 1 cut(s) 200
FspI TGCGCA 1 cut(s) 79
GlaI GCGC 1 cut(s) 79
GluI GCNGC 2 cut(s) 337, 340
HhaI GCGC 1 cut(s) 80
Hin1II CATG 3 cut(s) 46, 168, 186
Hin6I GCGC 1 cut(s) 78
HinP1I GCGC 1 cut(s) 78
Hpy166II GTNNAC 1 cut(s) 124
Hpy188I TCNGA 1 cut(s) 25
Hpy188III TCNNGA 2 cut(s) 43, 280
Hpy8I GTNNAC 1 cut(s) 124
HpyCH4III ACNGT 3 cut(s) 62, 292, 346
HpyCH4IV ACGT 1 cut(s) 120
HpyCH4V TGCA 3 cut(s) 155, 164, 168
HpyF10VI GCNNNNNNNGC 3 cut(s) 161, 174, 372
HpyF3I CTNAG 1 cut(s) 91
HpySE526I ACGT 1 cut(s) 120
Hsp92II CATG 3 cut(s) 46, 168, 186
HspAI GCGC 1 cut(s) 78
Ksp22I TGATCA 1 cut(s) 49
Kzo9I GATC 1 cut(s) 49
LpnPI CCDG 4 cut(s) 165, 174, 216, 362
Lsp1109I GCAGC 2 cut(s) 348, 351
MaeI CTAG 1 cut(s) 200
MaeII ACGT 1 cut(s) 120
MaeIII GTNAC 2 cut(s) 62, 170
MalI GATC 1 cut(s) 51
MboI GATC 1 cut(s) 49
MboII GAAGA 1 cut(s) 321
MfeI CAATTG 1 cut(s) 300
MluCI AATT 1 cut(s) 300
MnlI CCTC 4 cut(s) 100, 228, 256, 287
MslI CAYNNNNRTG 1 cut(s) 243
MspA1I CMGCKG 1 cut(s) 95
MunI CAATTG 1 cut(s) 300
MwoI GCNNNNNNNGC 3 cut(s) 161, 174, 372
NdeI CATATG 1 cut(s) 268
NdeII GATC 1 cut(s) 49
NlaIII CATG 3 cut(s) 46, 168, 186
NlaIV GGNNCC 1 cut(s) 136
NmuCI GTSAC 2 cut(s) 62, 170
NsbI TGCGCA 1 cut(s) 79
NspI RCATGY 1 cut(s) 168
PaeI GCATGC 1 cut(s) 168
PagI TCATGA 1 cut(s) 42
PflMI CCANNNNNTGG 1 cut(s) 188
PkrI GCNGC 2 cut(s) 338, 341
Ppu21I YACGTR 1 cut(s) 121
PspN4I GGNNCC 1 cut(s) 136
PvuII CAGCTG 1 cut(s) 95
RsaI GTAC 1 cut(s) 187
RsaNI GTAC 1 cut(s) 186
RseI CAYNNNNRTG 1 cut(s) 243
SatI GCNGC 2 cut(s) 337, 340
Sau3AI GATC 1 cut(s) 49
SetI ASST 8 cut(s) 92, 97, 123, 140, 154, 216, 279, 361
SmiMI CAYNNNNRTG 1 cut(s) 243
SmlI CTYRAG 2 cut(s) 278, 354
SmoI CTYRAG 2 cut(s) 278, 354
SnaBI TACGTA 1 cut(s) 121
SphI GCATGC 1 cut(s) 168
Sse9I AATT 1 cut(s) 300
SspMI CTAG 1 cut(s) 200
TaaI ACNGT 3 cut(s) 62, 292, 346
TaiI ACGT 1 cut(s) 123
TaqI TCGA 1 cut(s) 30
TasI AATT 1 cut(s) 300
TatI WGTACW 1 cut(s) 185
TscAI CASTG 2 cut(s) 175, 295
TseFI GTSAC 2 cut(s) 62, 170
TseI GCWGC 2 cut(s) 336, 339
Tsp45I GTSAC 2 cut(s) 62, 170
TspDTI ATGAA 1 cut(s) 329
TspRI CASTG 2 cut(s) 175, 295
Van91I CCANNNNNTGG 1 cut(s) 188
XceI RCATGY 1 cut(s) 168
XcmI CCANNNNNNNNNTGG 1 cut(s) 356
XspI CTAG 1 cut(s) 200
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.