RLG00000033178

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr7
OG0017626
Physical Location & Seq
Reverse (-)
24129399 .. 24130655
1257 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000033178

Sequence Viewer

Length: 1257 bp
ATGTCTTCTTCTTCTTCCCCTGAAATTGTCCTCACCAGCTCTCCCGACGGCCCCATTGTTGCCTATGATGCTTCCTCAGGCACCATTGTAGCACAGTTCACTGGCAGCCGCTCACCGCGTAGAGGCCTCACTGTTGTTGGAAAGGATTTTGGAAAGACTTATATTGCTGCCTCACACATATCCCCAACCACAGCTTCTGGTTCAATCCACCTTTACAACTGGTGGTCTTCGACTGCCTTTCACAACCTCCCTGTCCCCGAACCGGTTGCACCACTAGCTGCCTCATTTGATGGATTGTACCTCTTTGCTGGTGGCATATCAGGCAGTGTGCATACACTTTCAGTCCCATCAGGGAATGTGCTCAAATCACTGCCTGCACATAACAAGCCTGTGACCTGCCTTGGTGTCAATCATGATGAGTCTCTTTTGATTTCGGGCAGTGATGATGGAACCATTGCTATTGTCCCTATCTTTCAGCTTGTAGGGGACTCAGGATGCGAGAATGTTGAAGACCTGATATTACATAAGTTTGCTGCTCATTCTGATTCTGTTACTGCCATTGTTTCCGGTACAGGATTATGCTACTCCCAGATTATCTCATGCTCAACTGATTCCACATGCAAGTTCTGGAGTCTCCGGCGGGGGACCCACCTGCGTACGGTTGTGCTTCCGTGCATGATTTCTGGGATCGCATTGCACCCCACAGAGCCCGAGTTCTATGCTGCAGGGTCAGATGGATCGGTACACATAGGGTCCTTTATGATTGGAAGCAGAAAACTTGTGATCCAAGGCAATGAATTGATGACATTGCCTCATACACACAGCAGTGCAGTTGTATCTGTCGTGATGCTGAACGGGGGAAGGAACTTAGTTTCGGCTTCAGAAGATGGGAGTGTTTGGATATGGGAAGTTGCTGTAGGTCAGGTGATTATGGCTCTTGGAAATGAGATGGCAAGCATTAGTGATTTGGTGTCAGCCACAGGCATAAGTTATAACAAAGGACATTGTTCTGAAGTGGGTAGAAGTAGTGCCAAGGAATCTGCGAAGTGTGATGACATCGGGTTTTCTTGCAAGGAACTGATCATGAGTATGCCTGCAAGGCAAATGATAGAAATGGAAGATTTGTTGAAAGTGGCAGCAAAAGATAGGAGCAGAGCCATCGATACGCTAGAATCTGCTATTGCAATATATGAGAAGCTCTTGGGACTCATTCTCAAGGAAGCTAAGAAAGGCACTCACAGCAGTAAACAGAGGTGA
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
WD40

Protein Analysis

419

Amino Acids

44.11

Weight (kDa)

6.09

Isoelectric Point (pI)

49.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 4 - 154 2.1e-08 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 9 - 154 1.3e-08 WDR5 beta-propeller domain
WD40_CDC20-Fz PF24807 59 - 302 2.2e-10 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_2nd PF25172 63 - 164 7.7e-06 WDR3 second beta-propeller domain
WD40_WDHD1_1st PF24817 67 - 221 9.2e-07 WDHD1 first WD40 domain
Beta-prop_EML_2 PF23414 67 - 217 7.6e-06 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 87 - 249 4.9e-15 WDR3 first beta-propeller domain
NBCH_WD40 PF20426 97 - 227 2.1e-10 Neurobeachin beta propeller domain
WD40_Prp19 PF24814 98 - 235 9e-11 Prp19 WD40 domain
WD40 PF00400 119 - 153 4.9e-07 WD domain, G-beta repeat
Beta-prop_WDR36-Utp21_2nd PF25168 178 - 340 7e-09 WDR36/Utp21 second beta-propeller domain
EIF3I PF24805 196 - 325 5.5e-06 EIF3I
Beta-prop_THOC3 PF25174 197 - 312 9.8e-07 THOC3 beta-propeller 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: OG0017626)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g17760
malus_domestica MD03G1247800.v1.1
prunus_persica Prupe.4G156700_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0029551
rosa_laevigata RLG00000033178
rosa_multiflora Rmu_sc0000210.1_g000015
rosa_roxburghii Rroxscaffold_1G00050390
rosa_samantha Rh5AG207000 Rh5BG205700 Rh5CG227800 Rh5DG209500
rosa_wichuraiana Rw5G018830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 993
AarI CACCTGC 1 cut(s) 660
Acc36I ACCTGC 2 cut(s) 404, 660
AccB1I GGYRCC 1 cut(s) 80
AccBSI CCGCTC 1 cut(s) 111
AccII CGCG 1 cut(s) 118
AciI CCGC 3 cut(s) 109, 116, 640
AclWI GGATC 3 cut(s) 695, 745, 778
AcuI CTGAAG 2 cut(s) 864, 1032
AfaI GTAC 4 cut(s) 299, 571, 658, 744
AfiI CCNNNNNNNGG 3 cut(s) 122, 262, 658
AgeI ACCGGT 1 cut(s) 262
AgsI TTSAA 3 cut(s) 204, 509, 1129
AjuI GAANNNNNNNTTGG 2 cut(s) 178, 210
AleI CACNNNNGTG 1 cut(s) 825
AluBI AGCT 6 cut(s) 39, 194, 278, 478, 1198, 1223
AluI AGCT 6 cut(s) 39, 194, 278, 478, 1198, 1223
Alw21I GWGCWC 1 cut(s) 363
Alw26I GTCTC 2 cut(s) 426, 638
AlwI GGATC 3 cut(s) 695, 745, 778
AlwNI CAGNNNCTG 1 cut(s) 197
Ama87I CYCGRG 1 cut(s) 710
AoxI GGCC 2 cut(s) 49, 124
ApeKI GCWGC 6 cut(s) 105, 167, 278, 533, 722, 1136
AsiGI ACCGGT 1 cut(s) 262
AspS9I GGNCC 3 cut(s) 50, 645, 753
AsuHPI GGTGA 3 cut(s) 25, 105, 937
AvaI CYCGRG 1 cut(s) 710
AvaII GGWCC 2 cut(s) 645, 753
AxyI CCTNAGG 1 cut(s) 76
BanI GGYRCC 1 cut(s) 80
BanII GRGCYC 1 cut(s) 711
BbsI GAAGAC 2 cut(s) 219, 516
Bbv12I GWGCWC 1 cut(s) 363
BbvI GCAGC 6 cut(s) 117, 154, 265, 520, 709, 1148
BccI CCATC 7 cut(s) 284, 355, 440, 728, 881, 943, 1166
BceAI ACGGC 1 cut(s) 64
BcgI CGANNNNNNTGC 6 cut(s) 248, 282, 701, 735, 1141, 1175
BclI TGATCA 1 cut(s) 1080
BcoDI GTCTC 2 cut(s) 426, 638
BfaI CTAG 2 cut(s) 275, 1169
BfmI CTRYAG 2 cut(s) 723, 915
BfuAI ACCTGC 2 cut(s) 404, 660
BglI GCCNNNNNGGC 1 cut(s) 1099
BisI GCNGC 7 cut(s) 106, 109, 168, 279, 534, 723, 1137
BlsI GCNGC 7 cut(s) 107, 110, 169, 280, 535, 724, 1138
Bme18I GGWCC 2 cut(s) 645, 753
BmeT110I CYCGRG 1 cut(s) 710
BmgT120I GGNCC 3 cut(s) 50, 645, 753
BmiI GGNNCC 6 cut(s) 52, 82, 451, 646, 647, 754
BmsI GCATC 3 cut(s) 58, 485, 837
BpiI GAAGAC 2 cut(s) 219, 516
BpmI CTGGAG 1 cut(s) 649
BpuEI CTTGAG 1 cut(s) 1199
Bsa29I ATCGAT 1 cut(s) 1161
BsaJI CCNNGG 3 cut(s) 400, 787, 1032
BsaWI WCCGGW 2 cut(s) 262, 566
BsaXI ACNNNNNCTCC 2 cut(s) 25, 55
Bsc4I CCNNNNNNNGG 3 cut(s) 122, 262, 658
Bse118I RCCGGY 1 cut(s) 262
Bse1I ACTGG 2 cut(s) 106, 224
Bse21I CCTNAGG 1 cut(s) 76
Bse3DI GCAATG 4 cut(s) 453, 692, 799, 806
BseCI ATCGAT 1 cut(s) 1161
BseDI CCNNGG 3 cut(s) 400, 787, 1032
BseGI GGATG 1 cut(s) 500
BseLI CCNNNNNNNGG 3 cut(s) 122, 262, 658
BseMI GCAATG 4 cut(s) 453, 692, 799, 806
BseMII CTCAG 2 cut(s) 90, 504
BseNI ACTGG 2 cut(s) 106, 224
BseXI GCAGC 6 cut(s) 117, 154, 265, 520, 709, 1148
BsgI GTGCAG 2 cut(s) 360, 849
Bsh1236I CGCG 1 cut(s) 118
BshFI GGCC 2 cut(s) 51, 126
BshNI GGYRCC 1 cut(s) 80
BshTI ACCGGT 1 cut(s) 262
BshVI ATCGAT 1 cut(s) 1161
BsiHKAI GWGCWC 1 cut(s) 363
BsiHKCI CYCGRG 1 cut(s) 710
BsiSI CCGG 3 cut(s) 263, 567, 637
BsiWI CGTACG 1 cut(s) 656
BslFI GGGAC 6 cut(s) 239, 329, 449, 500, 658, 1218
BslI CCNNNNNNNGG 3 cut(s) 122, 262, 658
BsmAI GTCTC 2 cut(s) 426, 638
BsmFI GGGAC 6 cut(s) 239, 329, 449, 500, 658, 1218
BsnI GGCC 2 cut(s) 51, 126
BsoBI CYCGRG 1 cut(s) 710
Bsp1286I GDGCHC 2 cut(s) 363, 711
Bsp143I GATC 4 cut(s) 687, 737, 783, 1080
BspACI CCGC 3 cut(s) 109, 116, 640
BspANI GGCC 2 cut(s) 51, 126
BspCNI CTCAG 2 cut(s) 89, 503
BspDI ATCGAT 1 cut(s) 1161
BspFNI CGCG 1 cut(s) 118
BspHI TCATGA 2 cut(s) 412, 1083
BspLI GGNNCC 6 cut(s) 52, 82, 451, 646, 647, 754
BspMAI CTGCAG 1 cut(s) 727
BspMI ACCTGC 2 cut(s) 404, 660
BspPI GGATC 3 cut(s) 695, 745, 778
BspT107I GGYRCC 1 cut(s) 80
BsrBI CCGCTC 1 cut(s) 111
BsrDI GCAATG 4 cut(s) 453, 692, 799, 806
BsrFI RCCGGY 1 cut(s) 262
BsrI ACTGG 2 cut(s) 106, 224
BssAI RCCGGY 1 cut(s) 262
BssECI CCNNGG 3 cut(s) 400, 787, 1032
BssMI GATC 4 cut(s) 687, 737, 783, 1080
BssT1I CCWWGG 3 cut(s) 400, 787, 1032
Bst4CI ACNGT 3 cut(s) 96, 133, 661
BstC8I GCNNGC 3 cut(s) 375, 955, 1095
BstDEI CTNAG 4 cut(s) 76, 490, 868, 1224
BstF5I GGATG 1 cut(s) 500
BstFNI CGCG 1 cut(s) 118
BstKTI GATC 4 cut(s) 690, 740, 786, 1083
BstMAI GTCTC 2 cut(s) 426, 638
BstMBI GATC 4 cut(s) 687, 737, 783, 1080
BstMWI GCNNNNNNNGC 5 cut(s) 68, 275, 321, 1099, 1239
BstNSI RCATGY 1 cut(s) 621
BstSFI CTRYAG 2 cut(s) 723, 915
BstUI CGCG 1 cut(s) 118
BstV1I GCAGC 6 cut(s) 117, 154, 265, 520, 709, 1148
BstV2I GAAGAC 2 cut(s) 219, 516
Bsu15I ATCGAT 1 cut(s) 1161
Bsu36I CCTNAGG 1 cut(s) 76
BsuRI GGCC 2 cut(s) 51, 126
BsuTUI ATCGAT 1 cut(s) 1161
BtsCI GGATG 1 cut(s) 500
BtsI GCAGTG 4 cut(s) 331, 368, 445, 832
BtsIMutI CAGTG 6 cut(s) 99, 129, 331, 368, 445, 832
BveI ACCTGC 2 cut(s) 404, 660
Cac8I GCNNGC 3 cut(s) 375, 955, 1095
CaiI CAGNNNCTG 1 cut(s) 197
CciI TCATGA 2 cut(s) 412, 1083
Cfr10I RCCGGY 1 cut(s) 262
Cfr13I GGNCC 3 cut(s) 50, 645, 753
ClaI ATCGAT 1 cut(s) 1161
Csp6I GTAC 4 cut(s) 298, 570, 657, 743
CspAI ACCGGT 1 cut(s) 262
CviAII CATG 5 cut(s) 413, 600, 618, 676, 1084
CviQI GTAC 4 cut(s) 298, 570, 657, 743
DdeI CTNAG 4 cut(s) 76, 490, 868, 1224
DpnI GATC 4 cut(s) 689, 739, 785, 1082
DpnII GATC 4 cut(s) 687, 737, 783, 1080
Eco130I CCWWGG 3 cut(s) 400, 787, 1032
Eco147I AGGCCT 1 cut(s) 126
Eco24I GRGCYC 1 cut(s) 711
Eco47I GGWCC 2 cut(s) 645, 753
Eco57I CTGAAG 2 cut(s) 864, 1032
Eco81I CCTNAGG 1 cut(s) 76
Eco88I CYCGRG 1 cut(s) 710
EcoO109I RGGNCCY 2 cut(s) 645, 753
EcoT14I CCWWGG 3 cut(s) 400, 787, 1032
EcoT38I GRGCYC 1 cut(s) 711
ErhI CCWWGG 3 cut(s) 400, 787, 1032
FaeI CATG 5 cut(s) 416, 603, 621, 679, 1087
FaqI GGGAC 6 cut(s) 239, 329, 449, 500, 658, 1218
FatI CATG 5 cut(s) 412, 599, 617, 675, 1083
FauI CCCGC 1 cut(s) 633
FbaI TGATCA 1 cut(s) 1080
Fnu4HI GCNGC 7 cut(s) 106, 109, 168, 279, 534, 723, 1137
FokI GGATG 1 cut(s) 507
FriOI GRGCYC 1 cut(s) 711
Fsp4HI GCNGC 7 cut(s) 106, 109, 168, 279, 534, 723, 1137
FspBI CTAG 2 cut(s) 275, 1169
GluI GCNGC 7 cut(s) 106, 109, 168, 279, 534, 723, 1137
GsuI CTGGAG 1 cut(s) 649
HaeIII GGCC 2 cut(s) 51, 126
HapII CCGG 3 cut(s) 263, 567, 637
Hin1II CATG 5 cut(s) 416, 603, 621, 679, 1087
HinfI GANTC 8 cut(s) 419, 488, 545, 611, 631, 1037, 1172, 1206
HpaII CCGG 3 cut(s) 263, 567, 637
HphI GGTGA 3 cut(s) 25, 105, 937
Hpy166II GTNNAC 3 cut(s) 99, 745, 1247
Hpy188I TCNGA 4 cut(s) 544, 733, 883, 1012
Hpy188III TCNNGA 6 cut(s) 44, 413, 492, 628, 844, 1084
Hpy8I GTNNAC 3 cut(s) 99, 745, 1247
Hpy99I CGWCG 1 cut(s) 50
HpyAV CCTTC 1 cut(s) 855
HpyCH4III ACNGT 3 cut(s) 96, 133, 661
HpyF10VI GCNNNNNNNGC 5 cut(s) 68, 275, 321, 1099, 1239
HpyF3I CTNAG 4 cut(s) 76, 490, 868, 1224
Hsp92II CATG 5 cut(s) 416, 603, 621, 679, 1087
KflI GGGWCCC 1 cut(s) 645
Ksp22I TGATCA 1 cut(s) 1080
Kzo9I GATC 4 cut(s) 687, 737, 783, 1080
LmnI GCTCC 1 cut(s) 1149
Lsp1109I GCAGC 6 cut(s) 117, 154, 265, 520, 709, 1148
LweI GCATC 3 cut(s) 58, 485, 837
MaeI CTAG 2 cut(s) 275, 1169
MaeIII GTNAC 2 cut(s) 391, 550
MalI GATC 4 cut(s) 689, 739, 785, 1082
MbiI CCGCTC 1 cut(s) 111
MboI GATC 4 cut(s) 687, 737, 783, 1080
MboII GAAGA 6 cut(s) 3, 6, 219, 521, 896, 1130
MhlI GDGCHC 2 cut(s) 363, 711
MluCI AATT 2 cut(s) 24, 797
MlyI GAGTC 4 cut(s) 428, 482, 640, 1200
MmeI TCCRAC 1 cut(s) 118
MslI CAYNNNNRTG 2 cut(s) 825, 1088
MspI CCGG 3 cut(s) 263, 567, 637
MvnI CGCG 1 cut(s) 118
MwoI GCNNNNNNNGC 5 cut(s) 68, 275, 321, 1099, 1239
NdeII GATC 4 cut(s) 687, 737, 783, 1080
NlaIII CATG 5 cut(s) 416, 603, 621, 679, 1087
NlaIV GGNNCC 6 cut(s) 52, 82, 451, 646, 647, 754
NmuCI GTSAC 1 cut(s) 391
NspI RCATGY 1 cut(s) 621
OliI CACNNNNGTG 1 cut(s) 825
PagI TCATGA 2 cut(s) 412, 1083
PaqCI CACCTGC 1 cut(s) 660
PceI AGGCCT 1 cut(s) 126
PfeI GAWTC 4 cut(s) 545, 611, 1037, 1172
Pfl23II CGTACG 1 cut(s) 656
PinAI ACCGGT 1 cut(s) 262
PkrI GCNGC 7 cut(s) 107, 110, 169, 280, 535, 724, 1138
PleI GAGTC 4 cut(s) 427, 482, 639, 1200
PpsI GAGTC 4 cut(s) 427, 482, 639, 1200
PpuMI RGGWCCY 2 cut(s) 645, 753
PsiI TTATAA 1 cut(s) 993
Psp5II RGGWCCY 2 cut(s) 645, 753
PspLI CGTACG 1 cut(s) 656
PspN4I GGNNCC 6 cut(s) 52, 82, 451, 646, 647, 754
PspPI GGNCC 3 cut(s) 50, 645, 753
PspPPI RGGWCCY 2 cut(s) 645, 753
PstI CTGCAG 1 cut(s) 727
PstNI CAGNNNCTG 1 cut(s) 197
RsaI GTAC 4 cut(s) 299, 571, 658, 744
RsaNI GTAC 4 cut(s) 298, 570, 657, 743
RseI CAYNNNNRTG 2 cut(s) 825, 1088
SatI GCNGC 7 cut(s) 106, 109, 168, 279, 534, 723, 1137
Sau3AI GATC 4 cut(s) 687, 737, 783, 1080
Sau96I GGNCC 3 cut(s) 50, 645, 753
SchI GAGTC 4 cut(s) 428, 482, 640, 1200
SduI GDGCHC 2 cut(s) 363, 711
SfaNI GCATC 3 cut(s) 58, 485, 837
SfcI CTRYAG 2 cut(s) 723, 915
SinI GGWCC 2 cut(s) 645, 753
SmiMI CAYNNNNRTG 2 cut(s) 825, 1088
SmlI CTYRAG 1 cut(s) 1214
SmoI CTYRAG 1 cut(s) 1214
Sse9I AATT 2 cut(s) 24, 797
SseBI AGGCCT 1 cut(s) 126
SsiI CCGC 3 cut(s) 109, 116, 640
SspMI CTAG 2 cut(s) 275, 1169
StuI AGGCCT 1 cut(s) 126
StyI CCWWGG 3 cut(s) 400, 787, 1032
TaaI ACNGT 3 cut(s) 96, 133, 661
TaqI TCGA 2 cut(s) 230, 1161
TasI AATT 2 cut(s) 24, 797
TauI GCSGC 1 cut(s) 111
TfiI GAWTC 4 cut(s) 545, 611, 1037, 1172
TscAI CASTG 6 cut(s) 106, 136, 331, 375, 445, 832
TseFI GTSAC 1 cut(s) 391
TseI GCWGC 6 cut(s) 105, 167, 278, 533, 722, 1136
Tsp45I GTSAC 1 cut(s) 391
TspDTI ATGAA 1 cut(s) 810
TspGWI ACGGA 1 cut(s) 660
TspRI CASTG 6 cut(s) 106, 136, 331, 375, 445, 832
VpaK11BI GGWCC 2 cut(s) 645, 753
XceI RCATGY 1 cut(s) 621
XspI CTAG 2 cut(s) 275, 1169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.