Rroxscaffold_2G00127790

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000702
Physical Location & Seq
Forward (+)
63378881 .. 63381171
2291 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00127790.1

Sequence Viewer

Length: 603 bp
ATGGGGTTACCATCTCTCGGTGGAATTCTTGACGGACAAGGCACCGGTTTGTGGGATTGCAAGACCTCCGGCAAGGTTTGCGCCGGTGGAGCAACCACACCGGAGTTTTCCAACTCGAACAACATTGTTGTGAGTGGAGTGACATCCCTAAACGCCCAAATGTTCCACATAGTCATCAACGGCTGCAACAATGTGAAAGTGCAAGGTGTTAGGGTTTCGCCTCGGTCACGAGCCTCAAACACCGATGGAATCCACGTCCAAAACATTGGGAGTTTAGGCAAGGACCTGGAGGAGGATGGAGTGCAAAATGTAACGGTCAAAGCTGTTACATTTACGGCTGCTGATTTTGAAAGGGAAAACGCGAAAGCGCATCGTCTCATCCGCGAGCTAGACCAGCGTATTACTCAACATGCAGCGGATACCAAGCAACAAATCGCACAATCGAGAAAGCACCGAGGGCTCATGCCACGGGCATCGCTAATCGGCGAGTCGGCGCCGAAAGAAATCATGGATGCTATCGCGAACCAAAGCAAGCGTGCCGCGACAGAGATGGCGGGTCTTCGCAAGGATGGCGCTAACCTTGCTATTGAAGTGGCTATGTAG
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

200

Amino Acids

21.25

Weight (kDa)

8.86

Isoelectric Point (pI)

38.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 7 - 88 5.7e-13 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 2 cut(s) 41, 493
AccII CGCG 4 cut(s) 362, 384, 521, 542
AciI CCGC 4 cut(s) 382, 416, 540, 554
AcsI RAATTY 1 cut(s) 24
AcyI GRCGYC 1 cut(s) 494
AfiI CCNNNNNNNGG 3 cut(s) 17, 51, 292
AgeI ACCGGT 1 cut(s) 44
AgsI TTSAA 2 cut(s) 350, 590
AjiI CACGTC 1 cut(s) 256
AjnI CCWGG 1 cut(s) 285
AluBI AGCT 2 cut(s) 323, 388
AluI AGCT 2 cut(s) 323, 388
Alw26I GTCTC 1 cut(s) 380
ApeKI GCWGC 3 cut(s) 183, 338, 413
ApoI RAATTY 1 cut(s) 24
AsiGI ACCGGT 1 cut(s) 44
AspLEI GCGC 4 cut(s) 83, 370, 496, 575
AspS9I GGNCC 1 cut(s) 283
AvaII GGWCC 1 cut(s) 283
BanI GGYRCC 2 cut(s) 41, 493
BanII GRGCYC 1 cut(s) 462
BauI CACGAG 1 cut(s) 228
BbsI GAAGAC 1 cut(s) 551
BbvI GCAGC 3 cut(s) 170, 325, 425
BccI CCATC 5 cut(s) 19, 239, 290, 544, 563
BceAI ACGGC 2 cut(s) 196, 351
BciT130I CCWGG 1 cut(s) 287
BciVI GTATCC 1 cut(s) 412
BcoDI GTCTC 1 cut(s) 380
BfaI CTAG 1 cut(s) 389
BfoI RGCGCY 2 cut(s) 497, 576
BfuI GTATCC 1 cut(s) 412
BisI GCNGC 4 cut(s) 184, 339, 414, 540
BlsI GCNGC 4 cut(s) 185, 340, 415, 541
Bme1390I CCNGG 1 cut(s) 287
Bme18I GGWCC 1 cut(s) 283
BmgBI CACGTC 1 cut(s) 256
BmgT120I GGNCC 1 cut(s) 283
BmiI GGNNCC 2 cut(s) 43, 495
BmrFI CCNGG 1 cut(s) 287
BmsI GCATC 3 cut(s) 379, 482, 502
BpiI GAAGAC 1 cut(s) 551
BpmI CTGGAG 1 cut(s) 308
BsaHI GRCGYC 1 cut(s) 494
BsaJI CCNNGG 3 cut(s) 221, 454, 467
BsaWI WCCGGW 2 cut(s) 44, 100
Bsc4I CCNNNNNNNGG 3 cut(s) 17, 51, 292
Bse118I RCCGGY 2 cut(s) 44, 83
BseBI CCWGG 1 cut(s) 287
BseDI CCNNGG 3 cut(s) 221, 454, 467
BseGI GGATG 5 cut(s) 143, 301, 378, 517, 574
BseLI CCNNNNNNNGG 3 cut(s) 17, 51, 292
BseRI GAGGAG 1 cut(s) 305
BseXI GCAGC 3 cut(s) 170, 325, 425
Bsh1236I CGCG 4 cut(s) 362, 384, 521, 542
BshNI GGYRCC 2 cut(s) 41, 493
BshTI ACCGGT 1 cut(s) 44
BsiSI CCGG 4 cut(s) 45, 69, 84, 101
BslI CCNNNNNNNGG 3 cut(s) 17, 51, 292
BsmAI GTCTC 1 cut(s) 380
BsmBI CGTCTC 1 cut(s) 380
Bsp1286I GDGCHC 1 cut(s) 462
Bsp68I TCGCGA 1 cut(s) 521
BspACI CCGC 4 cut(s) 382, 416, 540, 554
BspFNI CGCG 4 cut(s) 362, 384, 521, 542
BspLI GGNNCC 2 cut(s) 43, 495
BspT107I GGYRCC 2 cut(s) 41, 493
BsrFI RCCGGY 2 cut(s) 44, 83
BssAI RCCGGY 2 cut(s) 44, 83
BssECI CCNNGG 3 cut(s) 221, 454, 467
BssNI GRCGYC 1 cut(s) 494
BssSI CACGAG 1 cut(s) 228
Bst2BI CACGAG 1 cut(s) 228
Bst2UI CCWGG 1 cut(s) 287
Bst4CI ACNGT 1 cut(s) 316
BstACI GRCGYC 1 cut(s) 494
BstAPI GCANNNNNTGC 1 cut(s) 78
BstC8I GCNNGC 3 cut(s) 386, 533, 537
BstDSI CCRYGG 1 cut(s) 467
BstEII GGTNACC 1 cut(s) 6
BstENI CCTNNNNNAGG 1 cut(s) 290
BstF5I GGATG 5 cut(s) 143, 301, 378, 517, 574
BstFNI CGCG 4 cut(s) 362, 384, 521, 542
BstH2I RGCGCY 2 cut(s) 497, 576
BstHHI GCGC 4 cut(s) 83, 370, 496, 575
BstMAI GTCTC 1 cut(s) 380
BstMWI GCNNNNNNNGC 6 cut(s) 78, 89, 394, 457, 570, 581
BstNI CCWGG 1 cut(s) 287
BstNSI RCATGY 1 cut(s) 413
BstPI GGTNACC 1 cut(s) 6
BstSCI CCNGG 1 cut(s) 285
BstUI CGCG 4 cut(s) 362, 384, 521, 542
BstV1I GCAGC 3 cut(s) 170, 325, 425
BstV2I GAAGAC 1 cut(s) 551
BstXI CCANNNNNNTGG 1 cut(s) 266
BsuI GTATCC 1 cut(s) 412
BtgI CCRYGG 1 cut(s) 467
BtgZI GCGATG 1 cut(s) 459
BtrI CACGTC 1 cut(s) 256
BtsCI GGATG 5 cut(s) 143, 301, 378, 517, 574
BtuMI TCGCGA 1 cut(s) 521
Cac8I GCNNGC 3 cut(s) 386, 533, 537
CfoI GCGC 4 cut(s) 83, 370, 496, 575
Cfr10I RCCGGY 2 cut(s) 44, 83
Cfr13I GGNCC 1 cut(s) 283
CspAI ACCGGT 1 cut(s) 44
CviAII CATG 3 cut(s) 410, 463, 508
CviJI RGCY 7 cut(s) 183, 233, 323, 338, 388, 460, 596
CviKI_1 RGCY 7 cut(s) 183, 233, 323, 338, 388, 460, 596
DinI GGCGCC 1 cut(s) 495
Eco24I GRGCYC 1 cut(s) 462
Eco47I GGWCC 1 cut(s) 283
Eco91I GGTNACC 1 cut(s) 6
EcoNI CCTNNNNNAGG 1 cut(s) 290
EcoO109I RGGNCCY 1 cut(s) 283
EcoO65I GGTNACC 1 cut(s) 6
EcoRI GAATTC 1 cut(s) 24
EcoRII CCWGG 1 cut(s) 285
EcoT38I GRGCYC 1 cut(s) 462
EgeI GGCGCC 1 cut(s) 495
EheI GGCGCC 1 cut(s) 495
Esp3I CGTCTC 1 cut(s) 380
FaeI CATG 3 cut(s) 413, 466, 511
FaiI YATR 5 cut(s) 170, 411, 464, 509, 599
FatI CATG 3 cut(s) 409, 462, 507
FauI CCCGC 1 cut(s) 547
Fnu4HI GCNGC 4 cut(s) 184, 339, 414, 540
FokI GGATG 5 cut(s) 130, 308, 365, 524, 581
FriOI GRGCYC 1 cut(s) 462
Fsp4HI GCNGC 4 cut(s) 184, 339, 414, 540
FspBI CTAG 1 cut(s) 389
GlaI GCGC 4 cut(s) 82, 369, 495, 574
GluI GCNGC 4 cut(s) 184, 339, 414, 540
GsuI CTGGAG 1 cut(s) 308
HaeII RGCGCY 2 cut(s) 497, 576
HapII CCGG 4 cut(s) 45, 69, 84, 101
HhaI GCGC 4 cut(s) 83, 370, 496, 575
Hin1I GRCGYC 1 cut(s) 494
Hin1II CATG 3 cut(s) 413, 466, 511
Hin6I GCGC 4 cut(s) 81, 368, 494, 573
HinP1I GCGC 4 cut(s) 81, 368, 494, 573
HinfI GANTC 2 cut(s) 249, 488
HpaII CCGG 4 cut(s) 45, 69, 84, 101
Hpy188III TCNNGA 4 cut(s) 29, 228, 444, 520
HpyCH4III ACNGT 1 cut(s) 316
HpyCH4IV ACGT 1 cut(s) 255
HpyCH4V TGCA 5 cut(s) 60, 186, 202, 304, 413
HpyF10VI GCNNNNNNNGC 6 cut(s) 78, 89, 394, 457, 570, 581
HpySE526I ACGT 1 cut(s) 255
Hsp92I GRCGYC 1 cut(s) 494
Hsp92II CATG 3 cut(s) 413, 466, 511
HspAI GCGC 4 cut(s) 81, 368, 494, 573
KasI GGCGCC 1 cut(s) 493
LmnI GCTCC 1 cut(s) 89
LpnPI CCDG 7 cut(s) 58, 82, 97, 114, 272, 299, 407
Lsp1109I GCAGC 3 cut(s) 170, 325, 425
LweI GCATC 3 cut(s) 379, 482, 502
MaeI CTAG 1 cut(s) 389
MaeII ACGT 1 cut(s) 255
MaeIII GTNAC 5 cut(s) 6, 139, 225, 310, 325
MboII GAAGA 1 cut(s) 551
MhlI GDGCHC 1 cut(s) 462
MluCI AATT 1 cut(s) 24
Mly113I GGCGCC 1 cut(s) 494
MlyI GAGTC 1 cut(s) 497
MmeI TCCRAC 1 cut(s) 135
MnlI CCTC 6 cut(s) 76, 231, 244, 283, 286, 449
MslI CAYNNNNRTG 1 cut(s) 128
MspA1I CMGCKG 1 cut(s) 416
MspI CCGG 4 cut(s) 45, 69, 84, 101
MspR9I CCNGG 1 cut(s) 287
MvaI CCWGG 1 cut(s) 287
MvnI CGCG 4 cut(s) 362, 384, 521, 542
MwoI GCNNNNNNNGC 6 cut(s) 78, 89, 394, 457, 570, 581
NarI GGCGCC 1 cut(s) 494
NlaIII CATG 3 cut(s) 413, 466, 511
NlaIV GGNNCC 2 cut(s) 43, 495
NmuCI GTSAC 2 cut(s) 139, 225
NruI TCGCGA 1 cut(s) 521
NspI RCATGY 1 cut(s) 413
PfeI GAWTC 1 cut(s) 249
PinAI ACCGGT 1 cut(s) 44
PkrI GCNGC 4 cut(s) 185, 340, 415, 541
PleI GAGTC 1 cut(s) 496
PluTI GGCGCC 1 cut(s) 497
PpsI GAGTC 1 cut(s) 496
PpuMI RGGWCCY 1 cut(s) 283
Psp5II RGGWCCY 1 cut(s) 283
Psp6I CCWGG 1 cut(s) 285
PspEI GGTNACC 1 cut(s) 6
PspGI CCWGG 1 cut(s) 285
PspN4I GGNNCC 2 cut(s) 43, 495
PspPI GGNCC 1 cut(s) 283
PspPPI RGGWCCY 1 cut(s) 283
RruI TCGCGA 1 cut(s) 521
RseI CAYNNNNRTG 1 cut(s) 128
SatI GCNGC 4 cut(s) 184, 339, 414, 540
Sau96I GGNCC 1 cut(s) 283
SchI GAGTC 1 cut(s) 497
ScrFI CCNGG 1 cut(s) 287
SduI GDGCHC 1 cut(s) 462
SetI ASST 8 cut(s) 68, 78, 208, 258, 288, 325, 390, 582
SfaNI GCATC 3 cut(s) 379, 482, 502
SfoI GGCGCC 1 cut(s) 495
SgrAI CRCCGGYG 1 cut(s) 83
SinI GGWCC 1 cut(s) 283
SmiMI CAYNNNNRTG 1 cut(s) 128
Sse9I AATT 1 cut(s) 24
SsiI CCGC 4 cut(s) 382, 416, 540, 554
SspDI GGCGCC 1 cut(s) 493
SspMI CTAG 1 cut(s) 389
StyD4I CCNGG 1 cut(s) 285
TaaI ACNGT 1 cut(s) 316
TaiI ACGT 1 cut(s) 258
TaqI TCGA 2 cut(s) 116, 443
TaqII GACCGA 1 cut(s) 213
TasI AATT 1 cut(s) 24
TauI GCSGC 1 cut(s) 542
TfiI GAWTC 1 cut(s) 249
TseFI GTSAC 2 cut(s) 139, 225
TseI GCWGC 3 cut(s) 183, 338, 413
Tsp45I GTSAC 2 cut(s) 139, 225
TspGWI ACGGA 1 cut(s) 48
VpaK11BI GGWCC 1 cut(s) 283
XagI CCTNNNNNAGG 1 cut(s) 290
XapI RAATTY 1 cut(s) 24
XceI RCATGY 1 cut(s) 413
XspI CTAG 1 cut(s) 389
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.