Rh3AG237700
ERF Family

Pectate lyase superfamily protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0013425
Physical Location & Seq
Forward (+)
24664581 .. 24667514
2934 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG237700.1

Sequence Viewer

Length: 1080 bp
ATGTTTTTCTTTTCCTTCTATTTTAAGCCATCAAGCTTTTTAGTCAGGTACAGAGCCAAACTGAGTAACTGGTTGTTGGACTTGAAAACAGAGCCCCAATCCGAAATGGCAACACTCTTCTTCTTCCCCTTTCTACTTACTCTCCTCCACTCCACCTCCGCCACGTCATCATCCCCACCCACCATCGAGCTCTTCCGCAACCTCACCGCCGCTCTCTCCGTCACCGACTTCGGCGCCACCGGAGACGGCGTCACCTACGACACCTCCGCCATCGAATCAGCCATCGACAGCTGCCGCACCACCCCCTGCCACGTCACCTTCCCGAGTGGAGGCACCTACCTGACCGCGACGATCCGCCTCAAATCCGGCGTCGTTTTGCACATCAAAGAGGGCGCGACTCTCCTCGGCGGCACGCGGCTGCGGGACTACCCGATCGAGCAGGAGCGGTGGTACGTGGTGCTGGCCGAGAACACCACCGATGTAGGGATCACCGGCGGCGGAGTCGTCGACGGCCAGGGTCTTGAGTTCGTGAAGAGATTCGATGAGAAGAAGAATGTGATGGTCAGCTGGAACTGGACCGGGGCTTGTTTGGGAGACGAGTGCCGGCCCAGGCTCGTCGGCTTCATTGACTGCAGAAATGTCAAGCTTTCCAATATTGAGTTGCGTCAGCCGGCTTACTGGTGCTTGCACATTGTACGTTGTGAACACATTACTATTCAAGATGTTTCAATTTATGGAGATTTCAATACACCCAATAATGATGGGATAGATATTGAGGATTCAAATAATACAGTCATTACTAGATGCCATATCGATACCGGAGATGATGCTATCTGTCCAAAGACGTACACTGGCCCCCTTTATAACTTAACTGTAACAAATTGCTGGATTCGGACCAAATCTTCCGCAATCAAACTTGGCAGTGCTAGTTGGTTTGATTTTAAAGGTCTGGTGTTTGACAATATCACTATTGCAGATTCTCATAGAGGGCTGGGATTCCAGATACGTGATGGAGGTAGTAAAAAAACATCTCTAGCTTTTTTGCATCATTGTTATTACCATTACTTCTGCAGAAAATAA
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

359

Amino Acids

40.23

Weight (kDa)

6.55

Isoelectric Point (pI)

45.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 73 - 126 4.4e-10 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 103 - 331 2.1e-20 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: 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)
AanI TTATAA 1 cut(s) 864
AccB1I GGYRCC 2 cut(s) 233, 332
AccBSI CCGCTC 2 cut(s) 212, 445
AccI GTMKAC 1 cut(s) 507
AccII CGCG 3 cut(s) 347, 395, 415
AclWI GGATC 2 cut(s) 346, 494
AcoI YGGCCR 2 cut(s) 462, 511
AcyI GRCGYC 3 cut(s) 234, 249, 369
AfaI GTAC 4 cut(s) 50, 452, 696, 848
AfiI CCNNNNNNNGG 2 cut(s) 329, 483
AgsI TTSAA 5 cut(s) 85, 719, 729, 745, 783
AjiI CACGTC 2 cut(s) 165, 313
AjnI CCWGG 2 cut(s) 513, 608
AluBI AGCT 6 cut(s) 36, 190, 291, 567, 646, 1037
AluI AGCT 6 cut(s) 36, 190, 291, 567, 646, 1037
Alw21I GWGCWC 1 cut(s) 192
Alw26I GTCTC 2 cut(s) 237, 588
AlwI GGATC 2 cut(s) 346, 494
Ama87I CYCGRG 1 cut(s) 322
AoxI GGCC 4 cut(s) 462, 511, 605, 853
ApeKI GCWGC 2 cut(s) 291, 418
ArsI GACNNNNNNTTYG 2 cut(s) 354, 386
Asp700I GAANNNNTTC 1 cut(s) 536
AspLEI GCGC 2 cut(s) 236, 395
AspS9I GGNCC 4 cut(s) 576, 606, 854, 894
AsuC2I CCSGG 1 cut(s) 580
AsuHPI GGTGA 5 cut(s) 196, 214, 244, 307, 481
AvaI CYCGRG 1 cut(s) 322
AvaII GGWCC 2 cut(s) 576, 894
BanI GGYRCC 2 cut(s) 233, 332
BanII GRGCYC 2 cut(s) 96, 192
Bbv12I GWGCWC 1 cut(s) 192
BbvI GCAGC 2 cut(s) 278, 405
BccI CCATC 7 cut(s) 37, 191, 278, 290, 553, 755, 1004
BceAI ACGGC 2 cut(s) 262, 526
BciT130I CCWGG 2 cut(s) 515, 610
BcnI CCSGG 1 cut(s) 580
BcoDI GTCTC 2 cut(s) 237, 588
BfaI CTAG 3 cut(s) 801, 927, 1034
BfmI CTRYAG 2 cut(s) 631, 1069
BfoI RGCGCY 1 cut(s) 237
BisI GCNGC 7 cut(s) 210, 292, 295, 409, 416, 419, 496
BlsI GCNGC 7 cut(s) 211, 293, 296, 410, 417, 420, 497
Bme1390I CCNGG 3 cut(s) 515, 580, 610
Bme18I GGWCC 2 cut(s) 576, 894
BmeT110I CYCGRG 1 cut(s) 322
BmgBI CACGTC 2 cut(s) 165, 313
BmgT120I GGNCC 4 cut(s) 576, 606, 854, 894
BmiI GGNNCC 3 cut(s) 235, 334, 856
BmrFI CCNGG 3 cut(s) 515, 580, 610
BmsI GCATC 3 cut(s) 794, 817, 1054
BpuEI CTTGAG 1 cut(s) 542
BpuMI CCSGG 1 cut(s) 580
Bsa29I ATCGAT 1 cut(s) 813
BsaAI YACGTR 2 cut(s) 454, 1007
BsaHI GRCGYC 3 cut(s) 234, 249, 369
BsaJI CCNNGG 4 cut(s) 403, 514, 579, 608
BsaWI WCCGGW 2 cut(s) 239, 818
Bsc4I CCNNNNNNNGG 2 cut(s) 329, 483
Bse118I RCCGGY 3 cut(s) 491, 603, 670
Bse1I ACTGG 4 cut(s) 74, 578, 683, 856
BseBI CCWGG 2 cut(s) 515, 610
BseCI ATCGAT 1 cut(s) 813
BseDI CCNNGG 4 cut(s) 403, 514, 579, 608
BseGI GGATG 1 cut(s) 170
BseLI CCNNNNNNNGG 2 cut(s) 329, 483
BseMII CTCAG 1 cut(s) 53
BseNI ACTGG 4 cut(s) 74, 578, 683, 856
BseRI GAGGAG 2 cut(s) 134, 392
BseXI GCAGC 2 cut(s) 278, 405
BseYI CCCAGC 1 cut(s) 991
Bsh1236I CGCG 3 cut(s) 347, 395, 415
Bsh1285I CGRYCG 1 cut(s) 435
BshFI GGCC 4 cut(s) 464, 513, 607, 855
BshNI GGYRCC 2 cut(s) 233, 332
BshVI ATCGAT 1 cut(s) 813
BsiEI CGRYCG 1 cut(s) 435
BsiHKAI GWGCWC 1 cut(s) 192
BsiHKCI CYCGRG 1 cut(s) 322
BsiSI CCGG 7 cut(s) 240, 366, 492, 579, 604, 671, 819
BslFI GGGAC 1 cut(s) 437
BslI CCNNNNNNNGG 2 cut(s) 329, 483
BsmAI GTCTC 2 cut(s) 237, 588
BsmBI CGTCTC 2 cut(s) 237, 588
BsmFI GGGAC 1 cut(s) 437
BsnI GGCC 4 cut(s) 464, 513, 607, 855
BsoBI CYCGRG 1 cut(s) 322
Bsp1286I GDGCHC 2 cut(s) 96, 192
Bsp143I GATC 3 cut(s) 351, 432, 486
BspANI GGCC 4 cut(s) 464, 513, 607, 855
BspCNI CTCAG 1 cut(s) 54
BspDI ATCGAT 1 cut(s) 813
BspFNI CGCG 3 cut(s) 347, 395, 415
BspLI GGNNCC 3 cut(s) 235, 334, 856
BspMAI CTGCAG 2 cut(s) 635, 1073
BspPI GGATC 2 cut(s) 346, 494
BspQI GCTCTTC 1 cut(s) 197
BspT107I GGYRCC 2 cut(s) 233, 332
BsrBI CCGCTC 2 cut(s) 212, 445
BsrFI RCCGGY 3 cut(s) 491, 603, 670
BsrI ACTGG 4 cut(s) 74, 578, 683, 856
BssAI RCCGGY 3 cut(s) 491, 603, 670
BssECI CCNNGG 4 cut(s) 403, 514, 579, 608
BssMI GATC 3 cut(s) 351, 432, 486
BssNI GRCGYC 3 cut(s) 234, 249, 369
Bst2UI CCWGG 2 cut(s) 515, 610
Bst4CI ACNGT 2 cut(s) 793, 874
Bst6I CTCTTC 3 cut(s) 122, 197, 527
BstACI GRCGYC 3 cut(s) 234, 249, 369
BstBAI YACGTR 2 cut(s) 454, 1007
BstC8I GCNNGC 5 cut(s) 413, 462, 605, 672, 686
BstDEI CTNAG 1 cut(s) 62
BstF5I GGATG 1 cut(s) 170
BstFNI CGCG 3 cut(s) 347, 395, 415
BstH2I RGCGCY 1 cut(s) 237
BstHHI GCGC 2 cut(s) 236, 395
BstKTI GATC 3 cut(s) 354, 435, 489
BstMAI GTCTC 2 cut(s) 237, 588
BstMBI GATC 3 cut(s) 351, 432, 486
BstMCI CGRYCG 1 cut(s) 435
BstNI CCWGG 2 cut(s) 515, 610
BstSCI CCNGG 3 cut(s) 513, 578, 608
BstSFI CTRYAG 2 cut(s) 631, 1069
BstUI CGCG 3 cut(s) 347, 395, 415
BstV1I GCAGC 2 cut(s) 278, 405
Bsu15I ATCGAT 1 cut(s) 813
BsuRI GGCC 4 cut(s) 464, 513, 607, 855
BsuTUI ATCGAT 1 cut(s) 813
BtrI CACGTC 2 cut(s) 165, 313
BtsCI GGATG 1 cut(s) 170
BtsI GCAGTG 1 cut(s) 928
BtsIMutI CAGTG 2 cut(s) 849, 928
Cac8I GCNNGC 5 cut(s) 413, 462, 605, 672, 686
CfoI GCGC 2 cut(s) 236, 395
Cfr10I RCCGGY 3 cut(s) 491, 603, 670
Cfr13I GGNCC 4 cut(s) 576, 606, 854, 894
ClaI ATCGAT 1 cut(s) 813
CseI GACGC 3 cut(s) 238, 358, 653
Csp6I GTAC 4 cut(s) 49, 451, 695, 847
CviQI GTAC 4 cut(s) 49, 451, 695, 847
DdeI CTNAG 1 cut(s) 62
DinI GGCGCC 1 cut(s) 235
DpnI GATC 3 cut(s) 353, 434, 488
DpnII GATC 3 cut(s) 351, 432, 486
DraI TTTAAA 1 cut(s) 943
EaeI YGGCCR 2 cut(s) 462, 511
Eam1104I CTCTTC 3 cut(s) 122, 197, 527
EarI CTCTTC 3 cut(s) 122, 197, 527
EciI GGCGGA 4 cut(s) 148, 256, 344, 513
Ecl136II GAGCTC 1 cut(s) 190
Eco24I GRGCYC 2 cut(s) 96, 192
Eco47I GGWCC 2 cut(s) 576, 894
Eco53kI GAGCTC 1 cut(s) 190
Eco88I CYCGRG 1 cut(s) 322
EcoICRI GAGCTC 1 cut(s) 190
EcoRII CCWGG 2 cut(s) 513, 608
EcoT38I GRGCYC 2 cut(s) 96, 192
EgeI GGCGCC 1 cut(s) 235
EheI GGCGCC 1 cut(s) 235
Esp3I CGTCTC 2 cut(s) 237, 588
FaiI YATR 4 cut(s) 735, 810, 864, 984
FaqI GGGAC 1 cut(s) 437
FauI CCCGC 1 cut(s) 414
FblI GTMKAC 1 cut(s) 507
Fnu4HI GCNGC 7 cut(s) 210, 292, 295, 409, 416, 419, 496
FokI GGATG 1 cut(s) 157
FriOI GRGCYC 2 cut(s) 96, 192
Fsp4HI GCNGC 7 cut(s) 210, 292, 295, 409, 416, 419, 496
FspBI CTAG 3 cut(s) 801, 927, 1034
GlaI GCGC 2 cut(s) 235, 394
GluI GCNGC 7 cut(s) 210, 292, 295, 409, 416, 419, 496
GsaI CCCAGC 1 cut(s) 995
HaeII RGCGCY 1 cut(s) 237
HaeIII GGCC 4 cut(s) 464, 513, 607, 855
HapII CCGG 7 cut(s) 240, 366, 492, 579, 604, 671, 819
HgaI GACGC 3 cut(s) 238, 358, 653
HhaI GCGC 2 cut(s) 236, 395
Hin1I GRCGYC 3 cut(s) 234, 249, 369
Hin6I GCGC 2 cut(s) 234, 393
HinP1I GCGC 2 cut(s) 234, 393
HincII GTYRAC 1 cut(s) 508
HindII GTYRAC 1 cut(s) 508
HindIII AAGCTT 2 cut(s) 34, 644
HinfI GANTC 8 cut(s) 275, 397, 501, 537, 779, 889, 977, 996
HpaII CCGG 7 cut(s) 240, 366, 492, 579, 604, 671, 819
HphI GGTGA 5 cut(s) 196, 214, 244, 307, 481
Hpy166II GTNNAC 3 cut(s) 508, 704, 849
Hpy188I TCNGA 2 cut(s) 103, 894
Hpy188III TCNNGA 5 cut(s) 322, 521, 529, 719, 1000
Hpy8I GTNNAC 3 cut(s) 508, 704, 849
Hpy99I CGWCG 5 cut(s) 352, 374, 509, 512, 620
HpyAV CCTTC 2 cut(s) 25, 328
HpyCH4III ACNGT 2 cut(s) 793, 874
HpyCH4IV ACGT 6 cut(s) 164, 312, 453, 697, 845, 1006
HpyCH4V TGCA 6 cut(s) 379, 633, 688, 974, 1045, 1071
HpyF3I CTNAG 1 cut(s) 62
HpySE526I ACGT 6 cut(s) 164, 312, 453, 697, 845, 1006
Hsp92I GRCGYC 3 cut(s) 234, 249, 369
HspAI GCGC 2 cut(s) 234, 393
KasI GGCGCC 1 cut(s) 233
KroI GCCGGC 2 cut(s) 603, 670
KroNI GCCGGC 2 cut(s) 605, 672
Kzo9I GATC 3 cut(s) 351, 432, 486
LguI GCTCTTC 1 cut(s) 197
LmnI GCTCC 1 cut(s) 442
Lsp1109I GCAGC 2 cut(s) 278, 405
LweI GCATC 3 cut(s) 794, 817, 1054
MaeI CTAG 3 cut(s) 801, 927, 1034
MaeII ACGT 6 cut(s) 164, 312, 453, 697, 845, 1006
MaeIII GTNAC 5 cut(s) 65, 220, 250, 313, 874
MalI GATC 3 cut(s) 353, 434, 488
MbiI CCGCTC 2 cut(s) 212, 445
MboI GATC 3 cut(s) 351, 432, 486
MboII GAAGA 8 cut(s) 109, 112, 115, 184, 544, 559, 562, 894
MhlI GDGCHC 2 cut(s) 96, 192
MluCI AATT 2 cut(s) 729, 880
Mly113I GGCGCC 1 cut(s) 234
MlyI GAGTC 2 cut(s) 391, 510
MmeI TCCRAC 1 cut(s) 57
MroNI GCCGGC 2 cut(s) 603, 670
MroXI GAANNNNTTC 1 cut(s) 536
MseI TTAA 3 cut(s) 24, 869, 942
MspA1I CMGCKG 2 cut(s) 291, 567
MspI CCGG 7 cut(s) 240, 366, 492, 579, 604, 671, 819
MspR9I CCNGG 3 cut(s) 515, 580, 610
MvaI CCWGG 2 cut(s) 515, 610
MvnI CGCG 3 cut(s) 347, 395, 415
NaeI GCCGGC 2 cut(s) 605, 672
NarI GGCGCC 1 cut(s) 234
NciI CCSGG 1 cut(s) 580
NdeII GATC 3 cut(s) 351, 432, 486
NgoMIV GCCGGC 2 cut(s) 603, 670
NlaIV GGNNCC 3 cut(s) 235, 334, 856
NmeAIII GCCGAG 2 cut(s) 384, 490
NmuCI GTSAC 3 cut(s) 220, 250, 313
PciSI GCTCTTC 1 cut(s) 197
PdiI GCCGGC 2 cut(s) 605, 672
PdmI GAANNNNTTC 1 cut(s) 536
PfeI GAWTC 6 cut(s) 275, 537, 779, 889, 977, 996
PflFI GACNNNGTC 1 cut(s) 248
PkrI GCNGC 7 cut(s) 211, 293, 296, 410, 417, 420, 497
Ple19I CGATCG 1 cut(s) 435
PleI GAGTC 2 cut(s) 391, 509
PluTI GGCGCC 1 cut(s) 237
PpsI GAGTC 2 cut(s) 391, 509
Ppu21I YACGTR 2 cut(s) 454, 1007
PsiI TTATAA 1 cut(s) 864
Psp124BI GAGCTC 1 cut(s) 192
Psp6I CCWGG 2 cut(s) 513, 608
PspFI CCCAGC 1 cut(s) 991
PspGI CCWGG 2 cut(s) 513, 608
PspN4I GGNNCC 3 cut(s) 235, 334, 856
PspPI GGNCC 4 cut(s) 576, 606, 854, 894
PstI CTGCAG 2 cut(s) 635, 1073
PsyI GACNNNGTC 1 cut(s) 248
PvuI CGATCG 1 cut(s) 435
PvuII CAGCTG 2 cut(s) 291, 567
RsaI GTAC 4 cut(s) 50, 452, 696, 848
RsaNI GTAC 4 cut(s) 49, 451, 695, 847
SacI GAGCTC 1 cut(s) 192
SalI GTCGAC 1 cut(s) 506
SapI GCTCTTC 1 cut(s) 197
SaqAI TTAA 3 cut(s) 24, 869, 942
SatI GCNGC 7 cut(s) 210, 292, 295, 409, 416, 419, 496
Sau3AI GATC 3 cut(s) 351, 432, 486
Sau96I GGNCC 4 cut(s) 576, 606, 854, 894
SchI GAGTC 2 cut(s) 391, 510
ScrFI CCNGG 3 cut(s) 515, 580, 610
SduI GDGCHC 2 cut(s) 96, 192
SfaNI GCATC 3 cut(s) 794, 817, 1054
SfcI CTRYAG 2 cut(s) 631, 1069
SfoI GGCGCC 1 cut(s) 235
SgrAI CRCCGGYG 1 cut(s) 491
SgrDI CGTCGACG 1 cut(s) 506
SinI GGWCC 2 cut(s) 576, 894
SmlI CTYRAG 1 cut(s) 521
SmoI CTYRAG 1 cut(s) 521
Sse9I AATT 2 cut(s) 729, 880
SspDI GGCGCC 1 cut(s) 233
SspI AATATT 1 cut(s) 655
SspMI CTAG 3 cut(s) 801, 927, 1034
SstI GAGCTC 1 cut(s) 192
StyD4I CCNGG 3 cut(s) 513, 578, 608
TaaI ACNGT 2 cut(s) 793, 874
TaiI ACGT 6 cut(s) 167, 315, 456, 700, 848, 1009
TaqI TCGA 7 cut(s) 186, 273, 285, 435, 507, 540, 813
TasI AATT 2 cut(s) 729, 880
TauI GCSGC 5 cut(s) 212, 297, 411, 418, 498
TfiI GAWTC 6 cut(s) 275, 537, 779, 889, 977, 996
Tru1I TTAA 3 cut(s) 24, 869, 942
Tru9I TTAA 3 cut(s) 24, 869, 942
TscAI CASTG 2 cut(s) 856, 928
TseFI GTSAC 3 cut(s) 220, 250, 313
TseI GCWGC 2 cut(s) 291, 418
Tsp45I GTSAC 3 cut(s) 220, 250, 313
TspDTI ATGAA 1 cut(s) 613
TspGWI ACGGA 1 cut(s) 208
TspRI CASTG 2 cut(s) 856, 928
Tth111I GACNNNGTC 1 cut(s) 248
VpaK11BI GGWCC 2 cut(s) 576, 894
XcmI CCANNNNNNNNNTGG 1 cut(s) 1007
XmiI GTMKAC 1 cut(s) 507
XmnI GAANNNNTTC 1 cut(s) 536
XspI CTAG 3 cut(s) 801, 927, 1034
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.