Rw3G021290
ERF Family

Pectate lyase superfamily protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0013425
Physical Location & Seq
Forward (+)
25623375 .. 25625175
1801 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G021290.1

Sequence Viewer

Length: 591 bp
ATGGCCACACTCTTCTTCTTCCCCTTTCTACTTACTCTCCTCCACTCCACCTCCGCCACGTCATCATCCCCACCCACCATCGAGCTCTTCCGCAACCTCACCGCCGCTCCCTCCGTCACCGACTTCGGCGCCACCGGAGACGGCGTCACCTACGACACCTCCGCCATCCAATCAGCCATCGACAGCTGCCGCACCACCCCCTGCCACGTCACCTTCCCGAGTGGAGGCACCTACCTGACCGCGACGATCCGCCTCAAATCCGGCGTCGTTTTGCACATCGAAGAGGGCGCGACTCTCCTCGGCGGCACGCGGCTGCGGGACTACCCGATCGAGCAGGAGCGGTGGTACGTGGTGCTGGCCGAGAACGCCACCGATGTGGGGATCACCGGCGGCGGAGTCGTCGACGGCCAGGGGCTTGAGTTCGTGAAGAGATTCGATGAGAAGAAGAATGTGATGGTCAGCTGGAACTGGACCGGGGCTTGTTTGGGAGACGAGTGCCGGCCCAGGCTCGTCGGCTTCATTGACTGTAGAAATGTCAAGCTTTCCAATATTGAGTTGCGTCAGCCGGCTTACTGGTGGAAATGTGAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

196

Amino Acids

21.52

Weight (kDa)

5.41

Isoelectric Point (pI)

57.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 38 - 91 4.4e-11 Rhamnogalacturonase A/epimerase, pectate lyase-like
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: OG0013425)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G57790 AT3G57790
fragaria_vesca FvH4_6g22970
malus_domestica MD03G1162500.v1.1 MD12G1064100.v1.1
prunus_persica Prupe.7G070000_v2.0.a1
pyrus_communis pycom12g05590
rosa_chinensis RchiOBHm_Chr3g0480761
rosa_laevigata RLG00000023454
rosa_multiflora Rmu_co8289587.1_g000001 Rmu_sc0003902.1_g000012
rosa_roxburghii Rroxscaffold_6G00401090
rosa_rugosa Rorug03G0185600
rosa_samantha Rh3AG237700 Rh3BG271100 Rh3CG267200 Rh3DG263200
rosa_wichuraiana Rw3G021290

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 128, 227
AccBSI CCGCTC 2 cut(s) 107, 340
AccI GTMKAC 1 cut(s) 402
AccII CGCG 3 cut(s) 242, 290, 310
AclWI GGATC 2 cut(s) 241, 389
AcoI YGGCCR 3 cut(s) 3, 357, 406
AcyI GRCGYC 3 cut(s) 129, 144, 264
AfaI GTAC 1 cut(s) 347
AfiI CCNNNNNNNGG 2 cut(s) 224, 378
AjiI CACGTC 2 cut(s) 60, 208
AjnI CCWGG 2 cut(s) 408, 503
AleI CACNNNNGTG 1 cut(s) 374
AluBI AGCT 4 cut(s) 85, 186, 462, 541
AluI AGCT 4 cut(s) 85, 186, 462, 541
Alw21I GWGCWC 1 cut(s) 87
Alw26I GTCTC 2 cut(s) 132, 483
AlwI GGATC 2 cut(s) 241, 389
Ama87I CYCGRG 1 cut(s) 217
AoxI GGCC 4 cut(s) 3, 357, 406, 500
ApeKI GCWGC 2 cut(s) 186, 313
ArsI GACNNNNNNTTYG 2 cut(s) 249, 281
Asp700I GAANNNNTTC 1 cut(s) 431
AspLEI GCGC 2 cut(s) 131, 290
AspS9I GGNCC 2 cut(s) 471, 501
AsuC2I CCSGG 1 cut(s) 475
AsuHPI GGTGA 5 cut(s) 91, 109, 139, 202, 376
AvaI CYCGRG 1 cut(s) 217
AvaII GGWCC 1 cut(s) 471
BalI TGGCCA 1 cut(s) 5
BanI GGYRCC 2 cut(s) 128, 227
BanII GRGCYC 1 cut(s) 87
Bbv12I GWGCWC 1 cut(s) 87
BbvI GCAGC 2 cut(s) 173, 300
BccI CCATC 4 cut(s) 86, 173, 185, 448
BceAI ACGGC 2 cut(s) 157, 421
BciT130I CCWGG 2 cut(s) 410, 505
BcnI CCSGG 1 cut(s) 475
BcoDI GTCTC 2 cut(s) 132, 483
BfmI CTRYAG 1 cut(s) 526
BfoI RGCGCY 1 cut(s) 132
BisI GCNGC 7 cut(s) 105, 187, 190, 304, 311, 314, 391
BlsI GCNGC 7 cut(s) 106, 188, 191, 305, 312, 315, 392
Bme1390I CCNGG 3 cut(s) 410, 475, 505
Bme18I GGWCC 1 cut(s) 471
BmeT110I CYCGRG 1 cut(s) 217
BmgBI CACGTC 2 cut(s) 60, 208
BmgT120I GGNCC 2 cut(s) 471, 501
BmiI GGNNCC 2 cut(s) 130, 229
BmrFI CCNGG 3 cut(s) 410, 475, 505
BpuEI CTTGAG 1 cut(s) 437
BpuMI CCSGG 1 cut(s) 475
BsaAI YACGTR 1 cut(s) 349
BsaHI GRCGYC 3 cut(s) 129, 144, 264
BsaJI CCNNGG 4 cut(s) 298, 409, 474, 503
BsaWI WCCGGW 1 cut(s) 134
Bsc4I CCNNNNNNNGG 2 cut(s) 224, 378
Bse118I RCCGGY 3 cut(s) 386, 498, 565
Bse1I ACTGG 2 cut(s) 473, 578
BseBI CCWGG 2 cut(s) 410, 505
BseDI CCNNGG 4 cut(s) 298, 409, 474, 503
BseGI GGATG 2 cut(s) 65, 165
BseLI CCNNNNNNNGG 2 cut(s) 224, 378
BseNI ACTGG 2 cut(s) 473, 578
BseRI GAGGAG 2 cut(s) 29, 287
BseXI GCAGC 2 cut(s) 173, 300
Bsh1236I CGCG 3 cut(s) 242, 290, 310
Bsh1285I CGRYCG 1 cut(s) 330
BshFI GGCC 4 cut(s) 5, 359, 408, 502
BshNI GGYRCC 2 cut(s) 128, 227
BsiEI CGRYCG 1 cut(s) 330
BsiHKAI GWGCWC 1 cut(s) 87
BsiHKCI CYCGRG 1 cut(s) 217
BsiSI CCGG 6 cut(s) 135, 261, 387, 474, 499, 566
BslFI GGGAC 1 cut(s) 332
BslI CCNNNNNNNGG 2 cut(s) 224, 378
BsmAI GTCTC 2 cut(s) 132, 483
BsmBI CGTCTC 2 cut(s) 132, 483
BsmFI GGGAC 1 cut(s) 332
BsnI GGCC 4 cut(s) 5, 359, 408, 502
BsoBI CYCGRG 1 cut(s) 217
Bsp1286I GDGCHC 1 cut(s) 87
Bsp143I GATC 3 cut(s) 246, 327, 381
BspANI GGCC 4 cut(s) 5, 359, 408, 502
BspFNI CGCG 3 cut(s) 242, 290, 310
BspLI GGNNCC 2 cut(s) 130, 229
BspPI GGATC 2 cut(s) 241, 389
BspQI GCTCTTC 1 cut(s) 92
BspT107I GGYRCC 2 cut(s) 128, 227
BsrBI CCGCTC 2 cut(s) 107, 340
BsrFI RCCGGY 3 cut(s) 386, 498, 565
BsrI ACTGG 2 cut(s) 473, 578
BssAI RCCGGY 3 cut(s) 386, 498, 565
BssECI CCNNGG 4 cut(s) 298, 409, 474, 503
BssMI GATC 3 cut(s) 246, 327, 381
BssNI GRCGYC 3 cut(s) 129, 144, 264
Bst2UI CCWGG 2 cut(s) 410, 505
Bst4CI ACNGT 1 cut(s) 527
Bst6I CTCTTC 4 cut(s) 17, 92, 276, 422
BstACI GRCGYC 3 cut(s) 129, 144, 264
BstBAI YACGTR 1 cut(s) 349
BstC8I GCNNGC 4 cut(s) 308, 357, 500, 567
BstF5I GGATG 2 cut(s) 65, 165
BstFNI CGCG 3 cut(s) 242, 290, 310
BstH2I RGCGCY 1 cut(s) 132
BstHHI GCGC 2 cut(s) 131, 290
BstKTI GATC 3 cut(s) 249, 330, 384
BstMAI GTCTC 2 cut(s) 132, 483
BstMBI GATC 3 cut(s) 246, 327, 381
BstMCI CGRYCG 1 cut(s) 330
BstMWI GCNNNNNNNGC 1 cut(s) 365
BstNI CCWGG 2 cut(s) 410, 505
BstSCI CCNGG 3 cut(s) 408, 473, 503
BstSFI CTRYAG 1 cut(s) 526
BstUI CGCG 3 cut(s) 242, 290, 310
BstV1I GCAGC 2 cut(s) 173, 300
BstXI CCANNNNNNTGG 1 cut(s) 376
BsuRI GGCC 4 cut(s) 5, 359, 408, 502
BtrI CACGTC 2 cut(s) 60, 208
BtsCI GGATG 2 cut(s) 65, 165
Cac8I GCNNGC 4 cut(s) 308, 357, 500, 567
CfoI GCGC 2 cut(s) 131, 290
Cfr10I RCCGGY 3 cut(s) 386, 498, 565
Cfr13I GGNCC 2 cut(s) 471, 501
CseI GACGC 3 cut(s) 133, 253, 548
Csp6I GTAC 1 cut(s) 346
CviQI GTAC 1 cut(s) 346
DinI GGCGCC 1 cut(s) 130
DpnI GATC 3 cut(s) 248, 329, 383
DpnII GATC 3 cut(s) 246, 327, 381
EaeI YGGCCR 3 cut(s) 3, 357, 406
Eam1104I CTCTTC 4 cut(s) 17, 92, 276, 422
EarI CTCTTC 4 cut(s) 17, 92, 276, 422
EciI GGCGGA 4 cut(s) 43, 151, 239, 408
Ecl136II GAGCTC 1 cut(s) 85
Eco24I GRGCYC 1 cut(s) 87
Eco47I GGWCC 1 cut(s) 471
Eco53kI GAGCTC 1 cut(s) 85
Eco88I CYCGRG 1 cut(s) 217
EcoICRI GAGCTC 1 cut(s) 85
EcoRII CCWGG 2 cut(s) 408, 503
EcoT38I GRGCYC 1 cut(s) 87
EgeI GGCGCC 1 cut(s) 130
EheI GGCGCC 1 cut(s) 130
Esp3I CGTCTC 2 cut(s) 132, 483
FaqI GGGAC 1 cut(s) 332
FauI CCCGC 1 cut(s) 309
FblI GTMKAC 1 cut(s) 402
Fnu4HI GCNGC 7 cut(s) 105, 187, 190, 304, 311, 314, 391
FokI GGATG 2 cut(s) 52, 152
FriOI GRGCYC 1 cut(s) 87
Fsp4HI GCNGC 7 cut(s) 105, 187, 190, 304, 311, 314, 391
GlaI GCGC 2 cut(s) 130, 289
GluI GCNGC 7 cut(s) 105, 187, 190, 304, 311, 314, 391
HaeII RGCGCY 1 cut(s) 132
HaeIII GGCC 4 cut(s) 5, 359, 408, 502
HapII CCGG 6 cut(s) 135, 261, 387, 474, 499, 566
HgaI GACGC 3 cut(s) 133, 253, 548
HhaI GCGC 2 cut(s) 131, 290
Hin1I GRCGYC 3 cut(s) 129, 144, 264
Hin6I GCGC 2 cut(s) 129, 288
HinP1I GCGC 2 cut(s) 129, 288
HincII GTYRAC 1 cut(s) 403
HindII GTYRAC 1 cut(s) 403
HindIII AAGCTT 1 cut(s) 539
HinfI GANTC 3 cut(s) 292, 396, 432
HpaII CCGG 6 cut(s) 135, 261, 387, 474, 499, 566
HphI GGTGA 5 cut(s) 91, 109, 139, 202, 376
Hpy166II GTNNAC 1 cut(s) 403
Hpy188III TCNNGA 2 cut(s) 217, 424
Hpy8I GTNNAC 1 cut(s) 403
Hpy99I CGWCG 5 cut(s) 247, 269, 404, 407, 515
HpyAV CCTTC 1 cut(s) 223
HpyCH4III ACNGT 1 cut(s) 527
HpyCH4IV ACGT 3 cut(s) 59, 207, 348
HpyCH4V TGCA 1 cut(s) 274
HpyF10VI GCNNNNNNNGC 1 cut(s) 365
HpySE526I ACGT 3 cut(s) 59, 207, 348
Hsp92I GRCGYC 3 cut(s) 129, 144, 264
HspAI GCGC 2 cut(s) 129, 288
KasI GGCGCC 1 cut(s) 128
KroI GCCGGC 2 cut(s) 498, 565
KroNI GCCGGC 2 cut(s) 500, 567
Kzo9I GATC 3 cut(s) 246, 327, 381
LguI GCTCTTC 1 cut(s) 92
LmnI GCTCC 2 cut(s) 112, 337
Lsp1109I GCAGC 2 cut(s) 173, 300
MaeII ACGT 3 cut(s) 59, 207, 348
MaeIII GTNAC 3 cut(s) 115, 145, 208
MalI GATC 3 cut(s) 248, 329, 383
MbiI CCGCTC 2 cut(s) 107, 340
MboI GATC 3 cut(s) 246, 327, 381
MboII GAAGA 8 cut(s) 4, 7, 10, 79, 293, 439, 454, 457
MhlI GDGCHC 1 cut(s) 87
MlsI TGGCCA 1 cut(s) 5
MluNI TGGCCA 1 cut(s) 5
Mly113I GGCGCC 1 cut(s) 129
MlyI GAGTC 2 cut(s) 286, 405
MnlI CCTC 9 cut(s) 50, 61, 107, 121, 169, 218, 263, 277, 308
Mox20I TGGCCA 1 cut(s) 5
MroNI GCCGGC 2 cut(s) 498, 565
MroXI GAANNNNTTC 1 cut(s) 431
MscI TGGCCA 1 cut(s) 5
MslI CAYNNNNRTG 1 cut(s) 374
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 2 cut(s) 186, 462
MspI CCGG 6 cut(s) 135, 261, 387, 474, 499, 566
MspR9I CCNGG 3 cut(s) 410, 475, 505
MvaI CCWGG 2 cut(s) 410, 505
MvnI CGCG 3 cut(s) 242, 290, 310
MwoI GCNNNNNNNGC 1 cut(s) 365
NaeI GCCGGC 2 cut(s) 500, 567
NarI GGCGCC 1 cut(s) 129
NciI CCSGG 1 cut(s) 475
NdeII GATC 3 cut(s) 246, 327, 381
NgoMIV GCCGGC 2 cut(s) 498, 565
NlaIV GGNNCC 2 cut(s) 130, 229
NmeAIII GCCGAG 2 cut(s) 279, 385
NmuCI GTSAC 3 cut(s) 115, 145, 208
OliI CACNNNNGTG 1 cut(s) 374
PciSI GCTCTTC 1 cut(s) 92
PdiI GCCGGC 2 cut(s) 500, 567
PdmI GAANNNNTTC 1 cut(s) 431
PfeI GAWTC 1 cut(s) 432
PflFI GACNNNGTC 1 cut(s) 143
PkrI GCNGC 7 cut(s) 106, 188, 191, 305, 312, 315, 392
Ple19I CGATCG 1 cut(s) 330
PleI GAGTC 2 cut(s) 286, 404
PluTI GGCGCC 1 cut(s) 132
PpsI GAGTC 2 cut(s) 286, 404
Ppu21I YACGTR 1 cut(s) 349
Psp124BI GAGCTC 1 cut(s) 87
Psp6I CCWGG 2 cut(s) 408, 503
PspGI CCWGG 2 cut(s) 408, 503
PspN4I GGNNCC 2 cut(s) 130, 229
PspPI GGNCC 2 cut(s) 471, 501
PsyI GACNNNGTC 1 cut(s) 143
PvuI CGATCG 1 cut(s) 330
PvuII CAGCTG 2 cut(s) 186, 462
RsaI GTAC 1 cut(s) 347
RsaNI GTAC 1 cut(s) 346
RseI CAYNNNNRTG 1 cut(s) 374
SacI GAGCTC 1 cut(s) 87
SalI GTCGAC 1 cut(s) 401
SapI GCTCTTC 1 cut(s) 92
SatI GCNGC 7 cut(s) 105, 187, 190, 304, 311, 314, 391
Sau3AI GATC 3 cut(s) 246, 327, 381
Sau96I GGNCC 2 cut(s) 471, 501
SchI GAGTC 2 cut(s) 286, 405
ScrFI CCNGG 3 cut(s) 410, 475, 505
SduI GDGCHC 1 cut(s) 87
SfcI CTRYAG 1 cut(s) 526
SfoI GGCGCC 1 cut(s) 130
SgrAI CRCCGGYG 1 cut(s) 386
SgrDI CGTCGACG 1 cut(s) 401
SinI GGWCC 1 cut(s) 471
SmiMI CAYNNNNRTG 1 cut(s) 374
SmlI CTYRAG 1 cut(s) 416
SmoI CTYRAG 1 cut(s) 416
SspDI GGCGCC 1 cut(s) 128
SspI AATATT 1 cut(s) 550
SstI GAGCTC 1 cut(s) 87
StyD4I CCNGG 3 cut(s) 408, 473, 503
TaaI ACNGT 1 cut(s) 527
TaiI ACGT 3 cut(s) 62, 210, 351
TaqI TCGA 6 cut(s) 81, 180, 279, 330, 402, 435
TauI GCSGC 5 cut(s) 107, 192, 306, 313, 393
TfiI GAWTC 1 cut(s) 432
TseFI GTSAC 3 cut(s) 115, 145, 208
TseI GCWGC 2 cut(s) 186, 313
Tsp45I GTSAC 3 cut(s) 115, 145, 208
TspDTI ATGAA 1 cut(s) 508
TspGWI ACGGA 1 cut(s) 103
Tth111I GACNNNGTC 1 cut(s) 143
VpaK11BI GGWCC 1 cut(s) 471
XmiI GTMKAC 1 cut(s) 402
XmnI GAANNNNTTC 1 cut(s) 431
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.