Rroxscaffold_3G00239280

PB1 domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0016581
Physical Location & Seq
Forward (+)
29269612 .. 29270817
1206 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00239280.1

Sequence Viewer

Length: 1107 bp
ATGGCTTGTGAAGTTGGTGGCGGGGGTGGGCAAGACAACGCGTCGTCGGGTTTGGGATTGCCGAAGAAGAACAGGGATAGGATCAAGTTGCTGTGCAGCTATGGCGGGAAAATCCTACCCAGACCTTCCGACCGCATCCTAAAGTACGTTGGTGGCGAGACTCGTGTCCTTGCCTTGTCCCGCGACGCAACTTTTTCTGAATTGATGAAGAAATTGAGTGCAGTAGTTGATGGGGATATGGTGTTGAAGTACCAGTTAATCCCTGAAGATCTGGATGCCTTGGTCTCTGTTCGAAGCGATGAAGATGTAAAGCACATGCTGGACGAATATGATAGACAAGAAAACCAAGGCATGAGTCCTAGGCTAAGGACCTTCTTGTTTCCATCCAAGCCAATCATGATAGAAAACAGCAGCCACTCATTGGAGCTAGAGCAGCGTTACATTGACGCCATCAATGGCATAGTCCGTTCATCGAAACAACAGCCACCCTCAATCATAGGCAGCCCTCACATCGCCAGCACCAGCAGCATTGGGAATTGCAGCAGCCCCATAGCCAGCTACAGCCCCCTTGCTAGCTTTTCCTCTGCTTGTTCTTCCCCCAAGTCAGGATCGCCCGAACACCATTTTATGGTGGTACAAGAAGCTAACCAAATATTACAAGCCAGTAGATTTTCGCTTCCTCCTGTTATGCATAAAGTGCAGAGCTCTCCCAGCCTTTCTGGTAATCTTAATCTTCAACAATACCACAACCTAAACTTTGCTCACCGTCACCACCTGGGTGGTGGTGGTGGATACCATTACCAACAACCCCAAAGTGGCCACTACCAAATGTCTAGAAGCCTATCAAGAAACTCGCACCCCCACAACCACAGTAGAGGTGGTCTAGGCAGTCCCACCCCGCCCCATATGTCTCCCAGGGGAAGATCCGAGTCAGGGAGCGTGAGGAGCTTGATGGGTCAGTCTCGTCATAATTCGGGTTGCAGTAGCCCGAGACAACAAAACCAAAGACCAAATGCAGGAGGAGTCAACGATTATTGTGATGATCCATATGGCTACAACCGGGTTGATAGAGCTGAGAGTCTTCCAACAAGTCCACGACAATGTTAG
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
PB1

Protein Analysis

368

Amino Acids

40.2

Weight (kDa)

9.12

Isoelectric Point (pI)

76.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PB1 PF00564 47 - 126 3.7e-14 PB1 domain
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: OG0016581)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G49920
fragaria_vesca FvH4_5g28590
malus_domestica MD15G1436100.v1.1
prunus_persica Prupe.1G579900_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0220591
rosa_laevigata RLG00000002215
rosa_multiflora Rmu_ssc0000189.1_g000028
rosa_roxburghii Rroxscaffold_3G00239280
rosa_rugosa Rorug07G0195200
rosa_samantha Rh7AG336200 Rh7BG327300 Rh7CG353900 Rh7DG332500
rosa_wichuraiana Rw7G028680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 421, 628
AccII CGCG 2 cut(s) 41, 183
AciI CCGC 5 cut(s) 21, 105, 133, 181, 899
AclWI GGATC 4 cut(s) 89, 616, 918, 1037
AcoI YGGCCR 1 cut(s) 817
AcuI CTGAAG 1 cut(s) 285
AcyI GRCGYC 1 cut(s) 447
AfaI GTAC 3 cut(s) 146, 251, 636
AfiI CCNNNNNNNGG 6 cut(s) 421, 605, 628, 815, 933, 1016
AflIII ACRYGT 1 cut(s) 39
AgsI TTSAA 2 cut(s) 247, 737
AhdI GACNNNNNGTC 1 cut(s) 40
AjnI CCWGG 2 cut(s) 774, 914
AleI CACNNNNGTG 1 cut(s) 777
AluBI AGCT 8 cut(s) 99, 427, 558, 576, 644, 705, 948, 1073
AluI AGCT 8 cut(s) 99, 427, 558, 576, 644, 705, 948, 1073
Alw21I GWGCWC 1 cut(s) 707
Alw26I GTCTC 5 cut(s) 152, 289, 915, 966, 985
AlwI GGATC 4 cut(s) 89, 616, 918, 1037
Ama87I CYCGRG 1 cut(s) 988
AoxI GGCC 1 cut(s) 817
ApeKI GCWGC 7 cut(s) 96, 411, 433, 501, 525, 540, 543
AspA2I CCTAGG 1 cut(s) 359
AspS9I GGNCC 1 cut(s) 369
AsuC2I CCSGG 1 cut(s) 1061
AsuHPI GGTGA 2 cut(s) 755, 761
AsuII TTCGAA 1 cut(s) 292
AsuNHI GCTAGC 1 cut(s) 572
AvaI CYCGRG 1 cut(s) 988
AvaII GGWCC 1 cut(s) 369
AvrII CCTAGG 1 cut(s) 359
BalI TGGCCA 1 cut(s) 819
BanII GRGCYC 1 cut(s) 707
BauI CACGAG 1 cut(s) 162
BbsI GAAGAC 1 cut(s) 1073
Bbv12I GWGCWC 1 cut(s) 707
BbvI GCAGC 7 cut(s) 108, 423, 445, 513, 537, 552, 555
BccI CCATC 4 cut(s) 224, 391, 458, 946
BciT130I CCWGG 2 cut(s) 776, 916
BciVI GTATCC 1 cut(s) 785
BcnI CCSGG 1 cut(s) 1061
BcoDI GTCTC 5 cut(s) 152, 289, 915, 966, 985
BfaI CTAG 5 cut(s) 360, 428, 573, 834, 884
BfmI CTRYAG 1 cut(s) 559
BfuI GTATCC 1 cut(s) 785
BglII AGATCT 1 cut(s) 268
BisI GCNGC 7 cut(s) 97, 412, 434, 502, 526, 541, 544
BlnI CCTAGG 1 cut(s) 359
BlsI GCNGC 7 cut(s) 98, 413, 435, 503, 527, 542, 545
Bme1390I CCNGG 3 cut(s) 776, 916, 1061
Bme18I GGWCC 1 cut(s) 369
BmeRI GACNNNNNGTC 1 cut(s) 40
BmeT110I CYCGRG 1 cut(s) 988
BmgT120I GGNCC 1 cut(s) 369
BmrFI CCNGG 3 cut(s) 776, 916, 1061
BmsI GCATC 2 cut(s) 144, 265
BmtI GCTAGC 1 cut(s) 576
BoxI GACNNNNGTC 1 cut(s) 164
BpiI GAAGAC 1 cut(s) 1073
Bpu10I CCTNAGC 1 cut(s) 365
Bpu14I TTCGAA 1 cut(s) 292
BpuMI CCSGG 1 cut(s) 1061
BsaHI GRCGYC 1 cut(s) 447
BsaI GGTCTC 1 cut(s) 289
BsaJI CCNNGG 6 cut(s) 279, 346, 359, 775, 914, 915
Bsc4I CCNNNNNNNGG 6 cut(s) 421, 605, 628, 815, 933, 1016
Bse1I ACTGG 2 cut(s) 253, 663
BseBI CCWGG 2 cut(s) 776, 916
BseDI CCNNGG 6 cut(s) 279, 346, 359, 775, 914, 915
BseGI GGATG 3 cut(s) 135, 280, 383
BseLI CCNNNNNNNGG 6 cut(s) 421, 605, 628, 815, 933, 1016
BseMII CTCAG 1 cut(s) 1065
BseNI ACTGG 2 cut(s) 253, 663
BseRI GAGGAG 2 cut(s) 958, 1035
BseXI GCAGC 7 cut(s) 108, 423, 445, 513, 537, 552, 555
BseYI CCCAGC 1 cut(s) 710
BsgI GTGCAG 3 cut(s) 115, 240, 719
Bsh1236I CGCG 2 cut(s) 41, 183
Bsh1285I CGRYCG 1 cut(s) 133
BshFI GGCC 1 cut(s) 819
BsiEI CGRYCG 1 cut(s) 133
BsiHKAI GWGCWC 1 cut(s) 707
BsiHKCI CYCGRG 1 cut(s) 988
BsiSI CCGG 1 cut(s) 1060
BslFI GGGAC 2 cut(s) 163, 876
BslI CCNNNNNNNGG 6 cut(s) 421, 605, 628, 815, 933, 1016
BsmAI GTCTC 5 cut(s) 152, 289, 915, 966, 985
BsmFI GGGAC 2 cut(s) 163, 876
BsnI GGCC 1 cut(s) 819
Bso31I GGTCTC 1 cut(s) 289
BsoBI CYCGRG 1 cut(s) 988
Bsp119I TTCGAA 1 cut(s) 292
Bsp1286I GDGCHC 1 cut(s) 707
Bsp143I GATC 5 cut(s) 81, 268, 608, 923, 1042
BspACI CCGC 5 cut(s) 21, 105, 133, 181, 899
BspANI GGCC 1 cut(s) 819
BspCNI CTCAG 1 cut(s) 1066
BspFNI CGCG 2 cut(s) 41, 183
BspHI TCATGA 1 cut(s) 396
BspOI GCTAGC 1 cut(s) 576
BspPI GGATC 4 cut(s) 89, 616, 918, 1037
BspT104I TTCGAA 1 cut(s) 292
BspTNI GGTCTC 1 cut(s) 289
BsrI ACTGG 2 cut(s) 253, 663
BssECI CCNNGG 6 cut(s) 279, 346, 359, 775, 914, 915
BssMI GATC 5 cut(s) 81, 268, 608, 923, 1042
BssNI GRCGYC 1 cut(s) 447
BssSI CACGAG 1 cut(s) 162
BssT1I CCWWGG 3 cut(s) 279, 346, 359
Bst2BI CACGAG 1 cut(s) 162
Bst2UI CCWGG 2 cut(s) 776, 916
Bst4CI ACNGT 2 cut(s) 767, 872
BstACI GRCGYC 1 cut(s) 447
BstAPI GCANNNNNTGC 1 cut(s) 697
BstBI TTCGAA 1 cut(s) 292
BstC8I GCNNGC 3 cut(s) 517, 556, 574
BstDEI CTNAG 2 cut(s) 365, 1074
BstF5I GGATG 3 cut(s) 135, 280, 383
BstFNI CGCG 2 cut(s) 41, 183
BstKTI GATC 5 cut(s) 84, 271, 611, 926, 1045
BstMAI GTCTC 5 cut(s) 152, 289, 915, 966, 985
BstMBI GATC 5 cut(s) 81, 268, 608, 923, 1042
BstMCI CGRYCG 1 cut(s) 133
BstMWI GCNNNNNNNGC 6 cut(s) 102, 433, 525, 697, 711, 945
BstNI CCWGG 2 cut(s) 776, 916
BstNSI RCATGY 1 cut(s) 319
BstPAI GACNNNNGTC 1 cut(s) 164
BstSCI CCNGG 3 cut(s) 774, 914, 1059
BstSFI CTRYAG 1 cut(s) 559
BstUI CGCG 2 cut(s) 41, 183
BstV1I GCAGC 7 cut(s) 108, 423, 445, 513, 537, 552, 555
BstV2I GAAGAC 1 cut(s) 1073
BstX2I RGATCY 2 cut(s) 268, 923
BstXI CCANNNNNNTGG 1 cut(s) 779
BstYI RGATCY 2 cut(s) 268, 923
BsuI GTATCC 1 cut(s) 785
BsuRI GGCC 1 cut(s) 819
BtgZI GCGATG 2 cut(s) 312, 496
BtsCI GGATG 3 cut(s) 135, 280, 383
Cac8I GCNNGC 3 cut(s) 517, 556, 574
CciI TCATGA 1 cut(s) 396
Cfr13I GGNCC 1 cut(s) 369
CseI GACGC 3 cut(s) 30, 194, 455
Csp6I GTAC 3 cut(s) 145, 250, 635
CviAII CATG 3 cut(s) 316, 352, 397
CviQI GTAC 3 cut(s) 145, 250, 635
DdeI CTNAG 2 cut(s) 365, 1074
DpnI GATC 5 cut(s) 83, 270, 610, 925, 1044
DpnII GATC 5 cut(s) 81, 268, 608, 923, 1042
DriI GACNNNNNGTC 1 cut(s) 40
EaeI YGGCCR 1 cut(s) 817
Eam1105I GACNNNNNGTC 1 cut(s) 40
Ecl136II GAGCTC 1 cut(s) 705
Eco130I CCWWGG 3 cut(s) 279, 346, 359
Eco24I GRGCYC 1 cut(s) 707
Eco31I GGTCTC 1 cut(s) 289
Eco47I GGWCC 1 cut(s) 369
Eco53kI GAGCTC 1 cut(s) 705
Eco57I CTGAAG 1 cut(s) 285
Eco88I CYCGRG 1 cut(s) 988
EcoICRI GAGCTC 1 cut(s) 705
EcoO109I RGGNCCY 1 cut(s) 369
EcoRII CCWGG 2 cut(s) 774, 914
EcoT14I CCWWGG 3 cut(s) 279, 346, 359
EcoT22I ATGCAT 1 cut(s) 693
EcoT38I GRGCYC 1 cut(s) 707
ErhI CCWWGG 3 cut(s) 279, 346, 359
FaeI CATG 3 cut(s) 319, 355, 400
FaqI GGGAC 2 cut(s) 163, 876
FatI CATG 3 cut(s) 315, 351, 396
FauI CCCGC 4 cut(s) 14, 98, 188, 906
FauNDI CATATG 2 cut(s) 906, 1048
Fnu4HI GCNGC 7 cut(s) 97, 412, 434, 502, 526, 541, 544
FokI GGATG 3 cut(s) 122, 287, 370
FriOI GRGCYC 1 cut(s) 707
Fsp4HI GCNGC 7 cut(s) 97, 412, 434, 502, 526, 541, 544
FspBI CTAG 5 cut(s) 360, 428, 573, 834, 884
GluI GCNGC 7 cut(s) 97, 412, 434, 502, 526, 541, 544
GsaI CCCAGC 1 cut(s) 714
HaeIII GGCC 1 cut(s) 819
HapII CCGG 1 cut(s) 1060
HgaI GACGC 3 cut(s) 30, 194, 455
Hin1I GRCGYC 1 cut(s) 447
Hin1II CATG 3 cut(s) 319, 355, 400
HincII GTYRAC 1 cut(s) 1027
HindII GTYRAC 1 cut(s) 1027
HinfI GANTC 5 cut(s) 160, 355, 929, 1023, 1078
HpaII CCGG 1 cut(s) 1060
HphI GGTGA 2 cut(s) 755, 761
Hpy166II GTNNAC 2 cut(s) 1027, 1094
Hpy188I TCNGA 3 cut(s) 130, 199, 928
Hpy188III TCNNGA 5 cut(s) 272, 397, 606, 834, 846
Hpy8I GTNNAC 2 cut(s) 1027, 1094
Hpy99I CGWCG 3 cut(s) 46, 49, 188
HpyAV CCTTC 2 cut(s) 135, 382
HpyCH4III ACNGT 2 cut(s) 767, 872
HpyCH4IV ACGT 1 cut(s) 147
HpyCH4V TGCA 7 cut(s) 96, 221, 540, 691, 700, 981, 1016
HpyF10VI GCNNNNNNNGC 6 cut(s) 102, 433, 525, 697, 711, 945
HpyF3I CTNAG 2 cut(s) 365, 1074
HpySE526I ACGT 1 cut(s) 147
Hsp92I GRCGYC 1 cut(s) 447
Hsp92II CATG 3 cut(s) 319, 355, 400
Kzo9I GATC 5 cut(s) 81, 268, 608, 923, 1042
LmnI GCTCC 3 cut(s) 424, 936, 945
Lsp1109I GCAGC 7 cut(s) 108, 423, 445, 513, 537, 552, 555
LweI GCATC 2 cut(s) 144, 265
MaeI CTAG 5 cut(s) 360, 428, 573, 834, 884
MaeII ACGT 1 cut(s) 147
MaeIII GTNAC 2 cut(s) 437, 767
MalI GATC 5 cut(s) 83, 270, 610, 925, 1044
MboI GATC 5 cut(s) 81, 268, 608, 923, 1042
MboII GAAGA 9 cut(s) 76, 79, 220, 278, 314, 585, 725, 933, 1073
MflI RGATCY 2 cut(s) 268, 923
MhlI GDGCHC 1 cut(s) 707
MlsI TGGCCA 1 cut(s) 819
MluCI AATT 4 cut(s) 200, 212, 535, 970
MluI ACGCGT 1 cut(s) 39
MluNI TGGCCA 1 cut(s) 819
MlyI GAGTC 5 cut(s) 154, 364, 938, 1032, 1087
MmeI TCCRAC 1 cut(s) 153
MnlI CCTC 7 cut(s) 499, 516, 592, 690, 869, 936, 1013
Mox20I TGGCCA 1 cut(s) 819
Mph1103I ATGCAT 1 cut(s) 693
MscI TGGCCA 1 cut(s) 819
MseI TTAA 2 cut(s) 257, 729
MslI CAYNNNNRTG 2 cut(s) 777, 1099
Msp20I TGGCCA 1 cut(s) 819
MspI CCGG 1 cut(s) 1060
MspR9I CCNGG 3 cut(s) 776, 916, 1061
MvaI CCWGG 2 cut(s) 776, 916
MvnI CGCG 2 cut(s) 41, 183
MwoI GCNNNNNNNGC 6 cut(s) 102, 433, 525, 697, 711, 945
NciI CCSGG 1 cut(s) 1061
NdeI CATATG 2 cut(s) 906, 1048
NdeII GATC 5 cut(s) 81, 268, 608, 923, 1042
NheI GCTAGC 1 cut(s) 572
NlaIII CATG 3 cut(s) 319, 355, 400
NmuCI GTSAC 1 cut(s) 767
NsiI ATGCAT 1 cut(s) 693
NspI RCATGY 1 cut(s) 319
NspV TTCGAA 1 cut(s) 292
OliI CACNNNNGTG 1 cut(s) 777
PagI TCATGA 1 cut(s) 396
PasI CCCWGGG 1 cut(s) 915
PcsI WCGNNNNNNNCGW 1 cut(s) 153
PflMI CCANNNNNTGG 2 cut(s) 421, 628
PkrI GCNGC 7 cut(s) 98, 413, 435, 503, 527, 542, 545
PleI GAGTC 5 cut(s) 154, 363, 937, 1031, 1086
PpsI GAGTC 5 cut(s) 154, 363, 937, 1031, 1086
PpuMI RGGWCCY 1 cut(s) 369
PshAI GACNNNNGTC 1 cut(s) 164
Psp124BI GAGCTC 1 cut(s) 707
Psp5II RGGWCCY 1 cut(s) 369
Psp6I CCWGG 2 cut(s) 774, 914
PspFI CCCAGC 1 cut(s) 710
PspGI CCWGG 2 cut(s) 774, 914
PspPI GGNCC 1 cut(s) 369
PspPPI RGGWCCY 1 cut(s) 369
PsuI RGATCY 2 cut(s) 268, 923
RsaI GTAC 3 cut(s) 146, 251, 636
RsaNI GTAC 3 cut(s) 145, 250, 635
RseI CAYNNNNRTG 2 cut(s) 777, 1099
SacI GAGCTC 1 cut(s) 707
SaqAI TTAA 2 cut(s) 257, 729
SatI GCNGC 7 cut(s) 97, 412, 434, 502, 526, 541, 544
Sau3AI GATC 5 cut(s) 81, 268, 608, 923, 1042
Sau96I GGNCC 1 cut(s) 369
SchI GAGTC 5 cut(s) 154, 364, 938, 1032, 1087
ScrFI CCNGG 3 cut(s) 776, 916, 1061
SduI GDGCHC 1 cut(s) 707
SfaNI GCATC 2 cut(s) 144, 265
SfcI CTRYAG 1 cut(s) 559
SfuI TTCGAA 1 cut(s) 292
SinI GGWCC 1 cut(s) 369
SmiMI CAYNNNNRTG 2 cut(s) 777, 1099
Sse9I AATT 4 cut(s) 200, 212, 535, 970
SsiI CCGC 5 cut(s) 21, 105, 133, 181, 899
SspI AATATT 1 cut(s) 654
SspMI CTAG 5 cut(s) 360, 428, 573, 834, 884
SstI GAGCTC 1 cut(s) 707
StyD4I CCNGG 3 cut(s) 774, 914, 1059
StyI CCWWGG 3 cut(s) 279, 346, 359
TaaI ACNGT 2 cut(s) 767, 872
TaiI ACGT 1 cut(s) 150
TaqI TCGA 2 cut(s) 292, 473
TasI AATT 4 cut(s) 200, 212, 535, 970
Tru1I TTAA 2 cut(s) 257, 729
Tru9I TTAA 2 cut(s) 257, 729
TseFI GTSAC 1 cut(s) 767
TseI GCWGC 7 cut(s) 96, 411, 433, 501, 525, 540, 543
Tsp45I GTSAC 1 cut(s) 767
TspDTI ATGAA 3 cut(s) 221, 315, 459
TspGWI ACGGA 1 cut(s) 455
Van91I CCANNNNNTGG 2 cut(s) 421, 628
VpaK11BI GGWCC 1 cut(s) 369
XbaI TCTAGA 1 cut(s) 833
XceI RCATGY 1 cut(s) 319
XcmI CCANNNNNNNNNTGG 2 cut(s) 779, 875
XmaJI CCTAGG 1 cut(s) 359
XspI CTAG 5 cut(s) 360, 428, 573, 834, 884
Zsp2I ATGCAT 1 cut(s) 693
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.