RchiOBHm_Chr2g0115741

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000702
Physical Location & Seq
Reverse (-)
27934258 .. 27941821
7564 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ48888

Sequence Viewer

Length: 582 bp
ATGGCATTCACGTTCGAAATGTCTACCAGTGTCACTATTCTCAACTCCAAAATTGCGACGGGAGATGATTGTGTTTCAATTGGCACCAGTAATTTGTGGATTGAAAACGTTGCATGTGGTCCTGGGCATGGAATTAGCATTGGGAGTTTAGGCAAGGAGCAAGAGGAAGTGGGAGTGCAAAACGTAACAGCTAAAACAGTTACATTCACCGGTACTCAGAATGGGGTGAGGATCAAGTCATGGGGTAGACCCAGTACTGGGTTTGCCAGGAACATTCTTTTTCAACATGCTGTAATGGTCGATGTCAAAAATCCTATTGTTATTGATCAAAATTACAGCCCTGACGAAAAGCATTGCCCTGGTCAGTCTGGAGTTCAAATTAGCGACATTATGTACCAAGACATTCACGGCACATCAGCAACAGAAGTTGCCGTGAAATTTGACTGCAGCTCCAAATATCCTTGTAACAAAATCACATTGGAGGATGTTAAGCTCACTTACAAGAACCAAGCTGCTGAAGCTTCTTGTAGCCATGCAGGTGGAACAGCTGAGGGTACGGTTCAACCTACAAGTTGTCTGTAG
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

193

Amino Acids

20.57

Weight (kDa)

5.47

Isoelectric Point (pI)

36.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 4 - 177 1.2e-52 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)
AarI CACCTGC 1 cut(s) 527
Acc36I ACCTGC 1 cut(s) 527
AccB1I GGYRCC 1 cut(s) 83
AccI GTMKAC 2 cut(s) 23, 247
AclI AACGTT 1 cut(s) 108
AclWI GGATC 1 cut(s) 239
AcsI RAATTY 1 cut(s) 437
AcuI CTGAAG 1 cut(s) 537
AfaI GTAC 4 cut(s) 214, 256, 395, 556
AfiI CCNNNNNNNGG 3 cut(s) 128, 257, 258
AgeI ACCGGT 1 cut(s) 209
AgsI TTSAA 5 cut(s) 78, 104, 284, 377, 563
AjnI CCWGG 3 cut(s) 121, 266, 358
AluBI AGCT 6 cut(s) 191, 450, 493, 512, 521, 548
AluI AGCT 6 cut(s) 191, 450, 493, 512, 521, 548
AlwI GGATC 1 cut(s) 239
ApeKI GCWGC 2 cut(s) 447, 512
ApoI RAATTY 1 cut(s) 437
AsiGI ACCGGT 1 cut(s) 209
AspS9I GGNCC 1 cut(s) 119
AsuHPI GGTGA 2 cut(s) 199, 238
AsuII TTCGAA 1 cut(s) 15
AvaII GGWCC 1 cut(s) 119
BanI GGYRCC 1 cut(s) 83
BbvCI CCTCAGC 1 cut(s) 549
BbvI GCAGC 2 cut(s) 459, 499
BceAI ACGGC 2 cut(s) 416, 424
BciT130I CCWGG 3 cut(s) 123, 268, 360
BclI TGATCA 1 cut(s) 325
BfmI CTRYAG 2 cut(s) 445, 578
BfuAI ACCTGC 1 cut(s) 527
BisI GCNGC 2 cut(s) 448, 513
BlsI GCNGC 2 cut(s) 449, 514
BmcAI AGTACT 1 cut(s) 256
Bme1390I CCNGG 3 cut(s) 123, 268, 360
Bme18I GGWCC 1 cut(s) 119
BmgT120I GGNCC 1 cut(s) 119
BmiI GGNNCC 1 cut(s) 85
BmrFI CCNGG 3 cut(s) 123, 268, 360
BmrI ACTGGG 2 cut(s) 246, 267
BmuI ACTGGG 2 cut(s) 246, 267
BpmI CTGGAG 1 cut(s) 390
Bpu10I CCTNAGC 1 cut(s) 549
Bpu14I TTCGAA 1 cut(s) 15
BsaJI CCNNGG 2 cut(s) 122, 358
BsaWI WCCGGW 1 cut(s) 209
BsaXI ACNNNNNCTCC 2 cut(s) 434, 464
Bsc4I CCNNNNNNNGG 3 cut(s) 128, 257, 258
Bse118I RCCGGY 1 cut(s) 209
Bse1I ACTGG 4 cut(s) 27, 87, 252, 262
Bse3DI GCAATG 1 cut(s) 352
BseBI CCWGG 3 cut(s) 123, 268, 360
BseDI CCNNGG 2 cut(s) 122, 358
BseGI GGATG 1 cut(s) 490
BseLI CCNNNNNNNGG 3 cut(s) 128, 257, 258
BseMI GCAATG 1 cut(s) 352
BseMII CTCAG 2 cut(s) 230, 540
BseNI ACTGG 4 cut(s) 27, 87, 252, 262
BseXI GCAGC 2 cut(s) 459, 499
BshNI GGYRCC 1 cut(s) 83
BshTI ACCGGT 1 cut(s) 209
BsiSI CCGG 1 cut(s) 210
BslI CCNNNNNNNGG 3 cut(s) 128, 257, 258
BsmI GAATGC 1 cut(s) 5
Bsp119I TTCGAA 1 cut(s) 15
Bsp143I GATC 2 cut(s) 231, 325
BspCNI CTCAG 2 cut(s) 229, 541
BspLI GGNNCC 1 cut(s) 85
BspMAI CTGCAG 1 cut(s) 449
BspMI ACCTGC 1 cut(s) 527
BspPI GGATC 1 cut(s) 239
BspT104I TTCGAA 1 cut(s) 15
BspT107I GGYRCC 1 cut(s) 83
BsrDI GCAATG 1 cut(s) 352
BsrFI RCCGGY 1 cut(s) 209
BsrI ACTGG 4 cut(s) 27, 87, 252, 262
BssAI RCCGGY 1 cut(s) 209
BssECI CCNNGG 2 cut(s) 122, 358
BssMI GATC 2 cut(s) 231, 325
Bst2UI CCWGG 3 cut(s) 123, 268, 360
Bst4CI ACNGT 2 cut(s) 199, 559
BstBI TTCGAA 1 cut(s) 15
BstDEI CTNAG 2 cut(s) 216, 549
BstF5I GGATG 1 cut(s) 490
BstKTI GATC 2 cut(s) 234, 328
BstMBI GATC 2 cut(s) 231, 325
BstMWI GCNNNNNNNGC 1 cut(s) 518
BstNI CCWGG 3 cut(s) 123, 268, 360
BstNSI RCATGY 2 cut(s) 117, 290
BstSCI CCNGG 3 cut(s) 121, 266, 358
BstSFI CTRYAG 2 cut(s) 445, 578
BstV1I GCAGC 2 cut(s) 459, 499
BstXI CCANNNNNNTGG 1 cut(s) 539
BtsCI GGATG 1 cut(s) 490
BtsIMutI CAGTG 1 cut(s) 34
BveI ACCTGC 1 cut(s) 527
Cfr10I RCCGGY 1 cut(s) 209
Cfr13I GGNCC 1 cut(s) 119
Csp6I GTAC 4 cut(s) 213, 255, 394, 555
CspAI ACCGGT 1 cut(s) 209
CviAII CATG 5 cut(s) 114, 128, 240, 287, 533
CviJI RGCY 8 cut(s) 191, 339, 450, 493, 512, 521, 531, 548
CviKI_1 RGCY 8 cut(s) 191, 339, 450, 493, 512, 521, 531, 548
CviQI GTAC 4 cut(s) 213, 255, 394, 555
DdeI CTNAG 2 cut(s) 216, 549
DpnI GATC 2 cut(s) 233, 327
DpnII GATC 2 cut(s) 231, 325
Eco47I GGWCC 1 cut(s) 119
Eco57I CTGAAG 1 cut(s) 537
EcoRII CCWGG 3 cut(s) 121, 266, 358
FaeI CATG 5 cut(s) 117, 131, 243, 290, 536
FaiI YATR 6 cut(s) 115, 129, 241, 288, 392, 534
FatI CATG 5 cut(s) 113, 127, 239, 286, 532
FbaI TGATCA 1 cut(s) 325
FblI GTMKAC 2 cut(s) 23, 247
Fnu4HI GCNGC 2 cut(s) 448, 513
FokI GGATG 1 cut(s) 497
Fsp4HI GCNGC 2 cut(s) 448, 513
GluI GCNGC 2 cut(s) 448, 513
GsuI CTGGAG 1 cut(s) 390
HapII CCGG 1 cut(s) 210
Hin1II CATG 5 cut(s) 117, 131, 243, 290, 536
HindIII AAGCTT 1 cut(s) 519
HpaII CCGG 1 cut(s) 210
HphI GGTGA 2 cut(s) 199, 238
Hpy166II GTNNAC 2 cut(s) 24, 248
Hpy188I TCNGA 1 cut(s) 219
Hpy188III TCNNGA 1 cut(s) 369
Hpy8I GTNNAC 2 cut(s) 24, 248
Hpy99I CGWCG 1 cut(s) 61
HpyCH4III ACNGT 2 cut(s) 199, 559
HpyCH4IV ACGT 3 cut(s) 11, 108, 183
HpyCH4V TGCA 4 cut(s) 113, 178, 447, 536
HpyF10VI GCNNNNNNNGC 1 cut(s) 518
HpyF3I CTNAG 2 cut(s) 216, 549
HpySE526I ACGT 3 cut(s) 11, 108, 183
Hsp92II CATG 5 cut(s) 117, 131, 243, 290, 536
Ksp22I TGATCA 1 cut(s) 325
Kzo9I GATC 2 cut(s) 231, 325
LmnI GCTCC 2 cut(s) 157, 455
Lsp1109I GCAGC 2 cut(s) 459, 499
MaeII ACGT 3 cut(s) 11, 108, 183
MaeIII GTNAC 4 cut(s) 31, 184, 199, 464
MalI GATC 2 cut(s) 233, 327
MboI GATC 2 cut(s) 231, 325
MfeI CAATTG 1 cut(s) 78
MluCI AATT 7 cut(s) 51, 78, 91, 132, 331, 378, 437
MnlI CCTC 4 cut(s) 157, 222, 475, 544
MseI TTAA 1 cut(s) 489
MslI CAYNNNNRTG 1 cut(s) 537
MspA1I CMGCKG 1 cut(s) 548
MspI CCGG 1 cut(s) 210
MspR9I CCNGG 3 cut(s) 123, 268, 360
MunI CAATTG 1 cut(s) 78
Mva1269I GAATGC 1 cut(s) 5
MvaI CCWGG 3 cut(s) 123, 268, 360
MwoI GCNNNNNNNGC 1 cut(s) 518
NdeII GATC 2 cut(s) 231, 325
NlaIII CATG 5 cut(s) 117, 131, 243, 290, 536
NlaIV GGNNCC 1 cut(s) 85
NmuCI GTSAC 1 cut(s) 31
NspI RCATGY 2 cut(s) 117, 290
NspV TTCGAA 1 cut(s) 15
PaqCI CACCTGC 1 cut(s) 527
PctI GAATGC 1 cut(s) 5
PinAI ACCGGT 1 cut(s) 209
PkrI GCNGC 2 cut(s) 449, 514
Psp1406I AACGTT 1 cut(s) 108
Psp6I CCWGG 3 cut(s) 121, 266, 358
PspGI CCWGG 3 cut(s) 121, 266, 358
PspN4I GGNNCC 1 cut(s) 85
PspPI GGNCC 1 cut(s) 119
PstI CTGCAG 1 cut(s) 449
PvuII CAGCTG 1 cut(s) 548
RsaI GTAC 4 cut(s) 214, 256, 395, 556
RsaNI GTAC 4 cut(s) 213, 255, 394, 555
RseI CAYNNNNRTG 1 cut(s) 537
SaqAI TTAA 1 cut(s) 489
SatI GCNGC 2 cut(s) 448, 513
Sau3AI GATC 2 cut(s) 231, 325
Sau96I GGNCC 1 cut(s) 119
ScaI AGTACT 1 cut(s) 256
ScrFI CCNGG 3 cut(s) 123, 268, 360
SfcI CTRYAG 2 cut(s) 445, 578
SfuI TTCGAA 1 cut(s) 15
SinI GGWCC 1 cut(s) 119
SmiMI CAYNNNNRTG 1 cut(s) 537
Sse9I AATT 7 cut(s) 51, 78, 91, 132, 331, 378, 437
StyD4I CCNGG 3 cut(s) 121, 266, 358
TaaI ACNGT 2 cut(s) 199, 559
TaiI ACGT 3 cut(s) 14, 111, 186
TaqI TCGA 2 cut(s) 15, 300
TasI AATT 7 cut(s) 51, 78, 91, 132, 331, 378, 437
TatI WGTACW 1 cut(s) 254
Tru1I TTAA 1 cut(s) 489
Tru9I TTAA 1 cut(s) 489
TscAI CASTG 1 cut(s) 34
TseFI GTSAC 1 cut(s) 31
TseI GCWGC 2 cut(s) 447, 512
Tsp45I GTSAC 1 cut(s) 31
TspRI CASTG 1 cut(s) 34
VpaK11BI GGWCC 1 cut(s) 119
XapI RAATTY 1 cut(s) 437
XceI RCATGY 2 cut(s) 117, 290
XmiI GTMKAC 2 cut(s) 23, 247
ZrmI AGTACT 1 cut(s) 256
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.