Rroxscaffold_2G00127830

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000702
Physical Location & Seq
Forward (+)
63398586 .. 63399317
732 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00127830.1

Sequence Viewer

Length: 561 bp
ATGTGTGGACTATTGCAGACGCTTGGGTTTTCCAACTCCAACAACATTGTCGTCAGCGGATTGACCTCCCTAAACAGCCAAATGTTTCACATAGTAATCAACGGCTGCAACAACGTGAAAATGCAAGGCGTTAGGGTTTCTGCCTCCGGTGACAGCCCAAACACCGACGGAATCCACGTCCAACAGTCCTCGGGCATCACTATTCTCGACTCTAAAATTGCAACCGGTGACGACTGTGTCTCAATTGGTCCTGGAACCACTAATTTGTGGATCGAAAACATTGCATGTGGACCAGGCCATGGTATCAGGTACGGAGTAATATCTTCCGATGGTGTGCAAAATGTAACAGTGAAAACTGTTACATTTACTGGTACTCAAAATGGGGTGAGAATTAAATCATGGGGGAGACCTAGCACGGGGTTTGCCAAGAACATTCTTTTCCAACACGCTGTGATGGTCGATGTCCAAAATCCTATCATCATTGATCAAAATTATTGCCCTGGCGAGAAAGGTTGTCCTGGTCAGGTAAGTTATCAATCAATCACTTATGGTCTTACGTAA
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

186

Amino Acids

19.62

Weight (kDa)

6.87

Isoelectric Point (pI)

34.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 8 - 171 1.8e-51 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AasI GACNNNNNNGTC 1 cut(s) 236
AccB7I CCANNNNNTGG 1 cut(s) 299
AciI CCGC 1 cut(s) 57
AclWI GGATC 1 cut(s) 278
AdeI CACNNNGTG 1 cut(s) 451
AfaI GTAC 2 cut(s) 311, 373
AfiI CCNNNNNNNGG 2 cut(s) 299, 416
AgeI ACCGGT 1 cut(s) 224
AjiI CACGTC 1 cut(s) 178
AjnI CCWGG 4 cut(s) 250, 292, 499, 517
Alw26I GTCTC 2 cut(s) 244, 400
AlwI GGATC 1 cut(s) 278
Ama87I CYCGRG 1 cut(s) 190
AoxI GGCC 1 cut(s) 295
ApeKI GCWGC 1 cut(s) 105
AsiGI ACCGGT 1 cut(s) 224
AspS9I GGNCC 2 cut(s) 248, 290
AsuHPI GGTGA 3 cut(s) 161, 239, 397
AvaI CYCGRG 1 cut(s) 190
AvaII GGWCC 2 cut(s) 248, 290
BbvI GCAGC 1 cut(s) 92
BccI CCATC 2 cut(s) 323, 448
BceAI ACGGC 1 cut(s) 118
BcgI CGANNNNNNTGC 2 cut(s) 263, 297
BciT130I CCWGG 4 cut(s) 252, 294, 501, 519
BclI TGATCA 1 cut(s) 484
BcoDI GTCTC 2 cut(s) 244, 400
BfaI CTAG 1 cut(s) 411
BisI GCNGC 1 cut(s) 106
BlsI GCNGC 1 cut(s) 107
Bme1390I CCNGG 4 cut(s) 252, 294, 501, 519
Bme18I GGWCC 2 cut(s) 248, 290
BmeT110I CYCGRG 1 cut(s) 190
BmgBI CACGTC 1 cut(s) 178
BmgT120I GGNCC 2 cut(s) 248, 290
BmiI GGNNCC 1 cut(s) 256
BmrFI CCNGG 4 cut(s) 252, 294, 501, 519
BmsI GCATC 1 cut(s) 204
BsaAI YACGTR 1 cut(s) 558
BsaI GGTCTC 1 cut(s) 400
BsaJI CCNNGG 3 cut(s) 189, 298, 499
BsaWI WCCGGW 2 cut(s) 146, 224
Bsc4I CCNNNNNNNGG 2 cut(s) 299, 416
Bse118I RCCGGY 1 cut(s) 224
Bse1I ACTGG 1 cut(s) 373
Bse3DI GCAATG 1 cut(s) 279
BseBI CCWGG 4 cut(s) 252, 294, 501, 519
BseDI CCNNGG 3 cut(s) 189, 298, 499
BseLI CCNNNNNNNGG 2 cut(s) 299, 416
BseMI GCAATG 1 cut(s) 279
BseNI ACTGG 1 cut(s) 373
BseXI GCAGC 1 cut(s) 92
BshFI GGCC 1 cut(s) 297
BshTI ACCGGT 1 cut(s) 224
BsiHKCI CYCGRG 1 cut(s) 190
BsiSI CCGG 2 cut(s) 147, 225
BslI CCNNNNNNNGG 2 cut(s) 299, 416
BsmAI GTCTC 2 cut(s) 244, 400
BsnI GGCC 1 cut(s) 297
Bso31I GGTCTC 1 cut(s) 400
BsoBI CYCGRG 1 cut(s) 190
Bsp143I GATC 2 cut(s) 270, 484
Bsp19I CCATGG 1 cut(s) 298
BspACI CCGC 1 cut(s) 57
BspANI GGCC 1 cut(s) 297
BspLI GGNNCC 1 cut(s) 256
BspPI GGATC 1 cut(s) 278
BspTNI GGTCTC 1 cut(s) 400
BsrDI GCAATG 1 cut(s) 279
BsrFI RCCGGY 1 cut(s) 224
BsrI ACTGG 1 cut(s) 373
BssAI RCCGGY 1 cut(s) 224
BssECI CCNNGG 3 cut(s) 189, 298, 499
BssMI GATC 2 cut(s) 270, 484
BssT1I CCWWGG 1 cut(s) 298
Bst2UI CCWGG 4 cut(s) 252, 294, 501, 519
Bst4CI ACNGT 4 cut(s) 186, 236, 349, 358
BstBAI YACGTR 1 cut(s) 558
BstDSI CCRYGG 1 cut(s) 298
BstKTI GATC 2 cut(s) 273, 487
BstMAI GTCTC 2 cut(s) 244, 400
BstMBI GATC 2 cut(s) 270, 484
BstNI CCWGG 4 cut(s) 252, 294, 501, 519
BstNSI RCATGY 1 cut(s) 288
BstSCI CCNGG 4 cut(s) 250, 292, 499, 517
BstSNI TACGTA 1 cut(s) 558
BstV1I GCAGC 1 cut(s) 92
BsuRI GGCC 1 cut(s) 297
BtgI CCRYGG 1 cut(s) 298
BtrI CACGTC 1 cut(s) 178
BtsIMutI CAGTG 1 cut(s) 354
Cfr10I RCCGGY 1 cut(s) 224
Cfr13I GGNCC 2 cut(s) 248, 290
CseI GACGC 1 cut(s) 28
Csp6I GTAC 2 cut(s) 310, 372
CspAI ACCGGT 1 cut(s) 224
CviAII CATG 3 cut(s) 285, 299, 399
CviJI RGCY 4 cut(s) 78, 105, 156, 297
CviKI_1 RGCY 4 cut(s) 78, 105, 156, 297
CviQI GTAC 2 cut(s) 310, 372
DpnI GATC 2 cut(s) 272, 486
DpnII GATC 2 cut(s) 270, 484
DraIII CACNNNGTG 1 cut(s) 451
DrdI GACNNNNNNGTC 1 cut(s) 236
DseDI GACNNNNNNGTC 1 cut(s) 236
Eco105I TACGTA 1 cut(s) 558
Eco130I CCWWGG 1 cut(s) 298
Eco31I GGTCTC 1 cut(s) 400
Eco47I GGWCC 2 cut(s) 248, 290
Eco88I CYCGRG 1 cut(s) 190
EcoRII CCWGG 4 cut(s) 250, 292, 499, 517
EcoT14I CCWWGG 1 cut(s) 298
ErhI CCWWGG 1 cut(s) 298
FaeI CATG 3 cut(s) 288, 302, 402
FaiI YATR 5 cut(s) 92, 286, 300, 400, 549
FatI CATG 3 cut(s) 284, 298, 398
FbaI TGATCA 1 cut(s) 484
Fnu4HI GCNGC 1 cut(s) 106
Fsp4HI GCNGC 1 cut(s) 106
FspBI CTAG 1 cut(s) 411
GluI GCNGC 1 cut(s) 106
HaeIII GGCC 1 cut(s) 297
HapII CCGG 2 cut(s) 147, 225
HgaI GACGC 1 cut(s) 28
Hin1II CATG 3 cut(s) 288, 302, 402
HinfI GANTC 2 cut(s) 171, 209
HpaII CCGG 2 cut(s) 147, 225
HphI GGTGA 3 cut(s) 161, 239, 397
Hpy166II GTNNAC 2 cut(s) 8, 290
Hpy188I TCNGA 1 cut(s) 328
Hpy188III TCNNGA 1 cut(s) 206
Hpy8I GTNNAC 2 cut(s) 8, 290
Hpy99I CGWCG 1 cut(s) 170
HpyCH4III ACNGT 4 cut(s) 186, 236, 349, 358
HpyCH4IV ACGT 3 cut(s) 114, 177, 557
HpyCH4V TGCA 6 cut(s) 16, 108, 124, 221, 284, 337
HpySE526I ACGT 3 cut(s) 114, 177, 557
Hsp92II CATG 3 cut(s) 288, 302, 402
Ksp22I TGATCA 1 cut(s) 484
Kzo9I GATC 2 cut(s) 270, 484
Lsp1109I GCAGC 1 cut(s) 92
LweI GCATC 1 cut(s) 204
MaeI CTAG 1 cut(s) 411
MaeII ACGT 3 cut(s) 114, 177, 557
MaeIII GTNAC 4 cut(s) 149, 227, 343, 358
MalI GATC 2 cut(s) 272, 486
MboI GATC 2 cut(s) 270, 484
MboII GAAGA 1 cut(s) 315
MfeI CAATTG 1 cut(s) 243
MluCI AATT 5 cut(s) 216, 243, 262, 390, 490
MlyI GAGTC 1 cut(s) 203
MmeI TCCRAC 4 cut(s) 57, 63, 205, 466
MnlI CCTC 3 cut(s) 76, 154, 199
MseI TTAA 1 cut(s) 393
MspA1I CMGCKG 1 cut(s) 57
MspI CCGG 2 cut(s) 147, 225
MspR9I CCNGG 4 cut(s) 252, 294, 501, 519
MunI CAATTG 1 cut(s) 243
MvaI CCWGG 4 cut(s) 252, 294, 501, 519
NcoI CCATGG 1 cut(s) 298
NdeII GATC 2 cut(s) 270, 484
NlaIII CATG 3 cut(s) 288, 302, 402
NlaIV GGNNCC 1 cut(s) 256
NmuCI GTSAC 2 cut(s) 149, 227
NspI RCATGY 1 cut(s) 288
PcsI WCGNNNNNNNCGW 1 cut(s) 174
PfeI GAWTC 1 cut(s) 171
PflFI GACNNNGTC 1 cut(s) 236
PflMI CCANNNNNTGG 1 cut(s) 299
PfoI TCCNGGA 1 cut(s) 250
PinAI ACCGGT 1 cut(s) 224
PkrI GCNGC 1 cut(s) 107
PleI GAGTC 1 cut(s) 203
PpsI GAGTC 1 cut(s) 203
Ppu21I YACGTR 1 cut(s) 558
Psp6I CCWGG 4 cut(s) 250, 292, 499, 517
PspGI CCWGG 4 cut(s) 250, 292, 499, 517
PspN4I GGNNCC 1 cut(s) 256
PspPI GGNCC 2 cut(s) 248, 290
PsyI GACNNNGTC 1 cut(s) 236
RsaI GTAC 2 cut(s) 311, 373
RsaNI GTAC 2 cut(s) 310, 372
SaqAI TTAA 1 cut(s) 393
SatI GCNGC 1 cut(s) 106
Sau3AI GATC 2 cut(s) 270, 484
Sau96I GGNCC 2 cut(s) 248, 290
SchI GAGTC 1 cut(s) 203
ScrFI CCNGG 4 cut(s) 252, 294, 501, 519
SetI ASST 8 cut(s) 68, 117, 180, 311, 412, 514, 528, 560
SfaNI GCATC 1 cut(s) 204
SinI GGWCC 2 cut(s) 248, 290
SnaBI TACGTA 1 cut(s) 558
Sse9I AATT 5 cut(s) 216, 243, 262, 390, 490
SsiI CCGC 1 cut(s) 57
SspMI CTAG 1 cut(s) 411
StyD4I CCNGG 4 cut(s) 250, 292, 499, 517
StyI CCWWGG 1 cut(s) 298
TaaI ACNGT 4 cut(s) 186, 236, 349, 358
TaiI ACGT 3 cut(s) 117, 180, 560
TaqI TCGA 3 cut(s) 207, 273, 459
TasI AATT 5 cut(s) 216, 243, 262, 390, 490
TfiI GAWTC 1 cut(s) 171
Tru1I TTAA 1 cut(s) 393
Tru9I TTAA 1 cut(s) 393
TscAI CASTG 1 cut(s) 354
TseFI GTSAC 2 cut(s) 149, 227
TseI GCWGC 1 cut(s) 105
Tsp45I GTSAC 2 cut(s) 149, 227
TspGWI ACGGA 2 cut(s) 183, 327
TspRI CASTG 1 cut(s) 354
Tth111I GACNNNGTC 1 cut(s) 236
Van91I CCANNNNNTGG 1 cut(s) 299
VpaK11BI GGWCC 2 cut(s) 248, 290
XceI RCATGY 1 cut(s) 288
XspI CTAG 1 cut(s) 411
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.