Rh2CG262800

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0000702
Physical Location & Seq
Reverse (-)
28216483 .. 28217413
931 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2CG262800.1

Sequence Viewer

Length: 675 bp
ATGTTTCACATAGTGATCAACGGCTGCCACAACGTGAAAATGCTAGGTATTAGGGTTTCTGCCTCTGGCAACAGCCCTAACACAGATGGCATTCACGTTCAAATGTCTACCAGTGTCACTATTCTCAACTCCAAAACTGCGACGGGAGATGATTGTGTTTCAATTGGCCCCGGCACCAGTAATTTGTGGATTGAAAACGTCGCATGTGGTCCGGGGCATGGAATTAGCATTGGGAGTTTAGGCAAGGAGCAAGAGGAAGTGGGAGTACAAAACGTAACAGTTAAAACAGTTACATTCACCGGTACTCAGAATGGGGTGAGGATCAAGTCATGGGGTAGACCCAGTACTGGGTTTGCCAGGAACATTCTTTTTCAACATGCTGTAATGGTCAATGTCAAAAATCCTGTTGTTATTGATCAAAATTACTGCCCCGACGAAAAGCATTGCCCTGGTCAGGAGTCTGGAGTTCAAATTAGCGATATTATGTACCAAGACATTCACGGCACATCAGCAACAGAAGTTGCCGTGAAATTCGATTGCATGTCCAAATATCCTTGTAACAAAATCACATTGGAGGATGTTAAGCTCACTTACAAGAACCAAGCTGCTGAAGCTTCTTGTAGCCATGCAGGTGGAACAGCTGAGGGTACGGTTCAACCTACAAGTTGTCTGTAG
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

224

Amino Acids

23.81

Weight (kDa)

6.22

Isoelectric Point (pI)

40.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 2 - 208 6.9e-66 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)
AarI CACCTGC 1 cut(s) 620
Acc36I ACCTGC 1 cut(s) 620
AccB1I GGYRCC 1 cut(s) 173
AccI GTMKAC 2 cut(s) 107, 337
AclWI GGATC 1 cut(s) 329
AcsI RAATTY 1 cut(s) 530
AcuI CTGAAG 1 cut(s) 630
AdeI CACNNNGTG 2 cut(s) 13, 34
AfaI GTAC 5 cut(s) 267, 304, 346, 488, 649
AfiI CCNNNNNNNGG 4 cut(s) 218, 347, 348, 454
AgeI ACCGGT 1 cut(s) 299
AgsI TTSAA 6 cut(s) 101, 162, 194, 374, 470, 656
AjnI CCWGG 2 cut(s) 356, 448
AluBI AGCT 4 cut(s) 586, 605, 614, 641
AluI AGCT 4 cut(s) 586, 605, 614, 641
AlwI GGATC 1 cut(s) 329
AoxI GGCC 1 cut(s) 166
ApeKI GCWGC 2 cut(s) 24, 605
ApoI RAATTY 1 cut(s) 530
AsiGI ACCGGT 1 cut(s) 299
AspS9I GGNCC 2 cut(s) 167, 209
AsuC2I CCSGG 2 cut(s) 171, 213
AsuHPI GGTGA 2 cut(s) 289, 328
AvaII GGWCC 1 cut(s) 209
BanI GGYRCC 1 cut(s) 173
BarI GAAGNNNNNNTAC 2 cut(s) 249, 281
BbvCI CCTCAGC 1 cut(s) 642
BbvI GCAGC 2 cut(s) 11, 592
BccI CCATC 1 cut(s) 80
BceAI ACGGC 3 cut(s) 37, 509, 517
BciT130I CCWGG 2 cut(s) 358, 450
BclI TGATCA 2 cut(s) 15, 415
BcnI CCSGG 2 cut(s) 171, 213
BfaI CTAG 1 cut(s) 44
BfmI CTRYAG 1 cut(s) 671
BfuAI ACCTGC 1 cut(s) 620
BisI GCNGC 2 cut(s) 25, 606
BlsI GCNGC 2 cut(s) 26, 607
BmcAI AGTACT 1 cut(s) 346
Bme1390I CCNGG 4 cut(s) 171, 213, 358, 450
Bme18I GGWCC 1 cut(s) 209
BmgT120I GGNCC 2 cut(s) 167, 209
BmiI GGNNCC 2 cut(s) 169, 175
BmrFI CCNGG 4 cut(s) 171, 213, 358, 450
BmrI ACTGGG 2 cut(s) 336, 357
BmuI ACTGGG 2 cut(s) 336, 357
BpmI CTGGAG 1 cut(s) 483
Bpu10I CCTNAGC 1 cut(s) 642
BpuMI CCSGG 2 cut(s) 171, 213
BsaJI CCNNGG 3 cut(s) 169, 212, 448
BsaWI WCCGGW 1 cut(s) 299
Bsc4I CCNNNNNNNGG 4 cut(s) 218, 347, 348, 454
Bse118I RCCGGY 1 cut(s) 299
Bse1I ACTGG 4 cut(s) 111, 177, 342, 352
Bse3DI GCAATG 1 cut(s) 442
BseBI CCWGG 2 cut(s) 358, 450
BseDI CCNNGG 3 cut(s) 169, 212, 448
BseGI GGATG 1 cut(s) 583
BseLI CCNNNNNNNGG 4 cut(s) 218, 347, 348, 454
BseMI GCAATG 1 cut(s) 442
BseMII CTCAG 2 cut(s) 320, 633
BseNI ACTGG 4 cut(s) 111, 177, 342, 352
BseXI GCAGC 2 cut(s) 11, 592
BshFI GGCC 1 cut(s) 168
BshNI GGYRCC 1 cut(s) 173
BshTI ACCGGT 1 cut(s) 299
BsiSI CCGG 3 cut(s) 171, 212, 300
BslI CCNNNNNNNGG 4 cut(s) 218, 347, 348, 454
BsmI GAATGC 1 cut(s) 90
BsnI GGCC 1 cut(s) 168
Bsp143I GATC 3 cut(s) 15, 321, 415
BspANI GGCC 1 cut(s) 168
BspCNI CTCAG 2 cut(s) 319, 634
BspLI GGNNCC 2 cut(s) 169, 175
BspMI ACCTGC 1 cut(s) 620
BspPI GGATC 1 cut(s) 329
BspT107I GGYRCC 1 cut(s) 173
BsrDI GCAATG 1 cut(s) 442
BsrFI RCCGGY 1 cut(s) 299
BsrI ACTGG 4 cut(s) 111, 177, 342, 352
BssAI RCCGGY 1 cut(s) 299
BssECI CCNNGG 3 cut(s) 169, 212, 448
BssMI GATC 3 cut(s) 15, 321, 415
Bst2UI CCWGG 2 cut(s) 358, 450
Bst4CI ACNGT 3 cut(s) 280, 289, 652
BstDEI CTNAG 2 cut(s) 306, 642
BstF5I GGATG 1 cut(s) 583
BstKTI GATC 3 cut(s) 18, 324, 418
BstMBI GATC 3 cut(s) 15, 321, 415
BstMWI GCNNNNNNNGC 1 cut(s) 611
BstNI CCWGG 2 cut(s) 358, 450
BstNSI RCATGY 3 cut(s) 207, 380, 544
BstSCI CCNGG 4 cut(s) 169, 211, 356, 448
BstSFI CTRYAG 1 cut(s) 671
BstV1I GCAGC 2 cut(s) 11, 592
BstXI CCANNNNNNTGG 1 cut(s) 632
BsuRI GGCC 1 cut(s) 168
BtsCI GGATG 1 cut(s) 583
BtsIMutI CAGTG 1 cut(s) 118
BveI ACCTGC 1 cut(s) 620
Cfr10I RCCGGY 1 cut(s) 299
Cfr13I GGNCC 2 cut(s) 167, 209
Csp6I GTAC 5 cut(s) 266, 303, 345, 487, 648
CspAI ACCGGT 1 cut(s) 299
CviAII CATG 6 cut(s) 204, 218, 330, 377, 541, 626
CviJI RGCY 8 cut(s) 24, 75, 168, 586, 605, 614, 624, 641
CviKI_1 RGCY 8 cut(s) 24, 75, 168, 586, 605, 614, 624, 641
CviQI GTAC 5 cut(s) 266, 303, 345, 487, 648
DdeI CTNAG 2 cut(s) 306, 642
DpnI GATC 3 cut(s) 17, 323, 417
DpnII GATC 3 cut(s) 15, 321, 415
DraIII CACNNNGTG 2 cut(s) 13, 34
Eco47I GGWCC 1 cut(s) 209
Eco57I CTGAAG 1 cut(s) 630
EcoRII CCWGG 2 cut(s) 356, 448
FaeI CATG 6 cut(s) 207, 221, 333, 380, 544, 629
FaiI YATR 8 cut(s) 11, 205, 219, 331, 378, 485, 542, 627
FatI CATG 6 cut(s) 203, 217, 329, 376, 540, 625
FbaI TGATCA 2 cut(s) 15, 415
FblI GTMKAC 2 cut(s) 107, 337
Fnu4HI GCNGC 2 cut(s) 25, 606
FokI GGATG 1 cut(s) 590
Fsp4HI GCNGC 2 cut(s) 25, 606
FspBI CTAG 1 cut(s) 44
GluI GCNGC 2 cut(s) 25, 606
GsuI CTGGAG 1 cut(s) 483
HaeIII GGCC 1 cut(s) 168
HapII CCGG 3 cut(s) 171, 212, 300
Hin1II CATG 6 cut(s) 207, 221, 333, 380, 544, 629
HindIII AAGCTT 1 cut(s) 612
HinfI GANTC 1 cut(s) 458
HpaII CCGG 3 cut(s) 171, 212, 300
HphI GGTGA 2 cut(s) 289, 328
Hpy166II GTNNAC 2 cut(s) 108, 338
Hpy188I TCNGA 1 cut(s) 309
Hpy188III TCNNGA 2 cut(s) 455, 462
Hpy8I GTNNAC 2 cut(s) 108, 338
Hpy99I CGWCG 3 cut(s) 145, 203, 437
HpyCH4III ACNGT 3 cut(s) 280, 289, 652
HpyCH4IV ACGT 4 cut(s) 33, 96, 198, 273
HpyCH4V TGCA 2 cut(s) 540, 629
HpyF10VI GCNNNNNNNGC 1 cut(s) 611
HpyF3I CTNAG 2 cut(s) 306, 642
HpySE526I ACGT 4 cut(s) 33, 96, 198, 273
Hsp92II CATG 6 cut(s) 207, 221, 333, 380, 544, 629
Ksp22I TGATCA 2 cut(s) 15, 415
Kzo9I GATC 3 cut(s) 15, 321, 415
LmnI GCTCC 1 cut(s) 247
Lsp1109I GCAGC 2 cut(s) 11, 592
MaeI CTAG 1 cut(s) 44
MaeII ACGT 4 cut(s) 33, 96, 198, 273
MaeIII GTNAC 4 cut(s) 115, 274, 289, 557
MalI GATC 3 cut(s) 17, 323, 417
MboI GATC 3 cut(s) 15, 321, 415
MfeI CAATTG 1 cut(s) 162
MluCI AATT 6 cut(s) 162, 181, 222, 421, 471, 530
MlyI GAGTC 1 cut(s) 467
MnlI CCTC 5 cut(s) 73, 247, 312, 568, 637
MseI TTAA 2 cut(s) 282, 582
MslI CAYNNNNRTG 1 cut(s) 630
MspA1I CMGCKG 1 cut(s) 641
MspI CCGG 3 cut(s) 171, 212, 300
MspR9I CCNGG 4 cut(s) 171, 213, 358, 450
MunI CAATTG 1 cut(s) 162
Mva1269I GAATGC 1 cut(s) 90
MvaI CCWGG 2 cut(s) 358, 450
MwoI GCNNNNNNNGC 1 cut(s) 611
NciI CCSGG 2 cut(s) 171, 213
NdeII GATC 3 cut(s) 15, 321, 415
NlaIII CATG 6 cut(s) 207, 221, 333, 380, 544, 629
NlaIV GGNNCC 2 cut(s) 169, 175
NmuCI GTSAC 1 cut(s) 115
NspI RCATGY 3 cut(s) 207, 380, 544
PaqCI CACCTGC 1 cut(s) 620
PctI GAATGC 1 cut(s) 90
PinAI ACCGGT 1 cut(s) 299
PkrI GCNGC 2 cut(s) 26, 607
PleI GAGTC 1 cut(s) 466
PpsI GAGTC 1 cut(s) 466
Psp6I CCWGG 2 cut(s) 356, 448
PspGI CCWGG 2 cut(s) 356, 448
PspN4I GGNNCC 2 cut(s) 169, 175
PspPI GGNCC 2 cut(s) 167, 209
PvuII CAGCTG 1 cut(s) 641
RsaI GTAC 5 cut(s) 267, 304, 346, 488, 649
RsaNI GTAC 5 cut(s) 266, 303, 345, 487, 648
RseI CAYNNNNRTG 1 cut(s) 630
SaqAI TTAA 2 cut(s) 282, 582
SatI GCNGC 2 cut(s) 25, 606
Sau3AI GATC 3 cut(s) 15, 321, 415
Sau96I GGNCC 2 cut(s) 167, 209
ScaI AGTACT 1 cut(s) 346
SchI GAGTC 1 cut(s) 467
ScrFI CCNGG 4 cut(s) 171, 213, 358, 450
SfcI CTRYAG 1 cut(s) 671
SinI GGWCC 1 cut(s) 209
SmiMI CAYNNNNRTG 1 cut(s) 630
Sse9I AATT 6 cut(s) 162, 181, 222, 421, 471, 530
SspMI CTAG 1 cut(s) 44
StyD4I CCNGG 4 cut(s) 169, 211, 356, 448
TaaI ACNGT 3 cut(s) 280, 289, 652
TaiI ACGT 4 cut(s) 36, 99, 201, 276
TaqI TCGA 1 cut(s) 534
TasI AATT 6 cut(s) 162, 181, 222, 421, 471, 530
TatI WGTACW 2 cut(s) 265, 344
Tru1I TTAA 2 cut(s) 282, 582
Tru9I TTAA 2 cut(s) 282, 582
TscAI CASTG 1 cut(s) 118
TseFI GTSAC 1 cut(s) 115
TseI GCWGC 2 cut(s) 24, 605
Tsp45I GTSAC 1 cut(s) 115
TspRI CASTG 1 cut(s) 118
VpaK11BI GGWCC 1 cut(s) 209
XapI RAATTY 1 cut(s) 530
XceI RCATGY 3 cut(s) 207, 380, 544
XmiI GTMKAC 2 cut(s) 107, 337
XspI CTAG 1 cut(s) 44
ZrmI AGTACT 1 cut(s) 346
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.