AT3G63090

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0014611
Physical Location & Seq
Forward (+)
23313428 .. 23315062
1635 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G63090.1

Sequence Viewer

Length: 1215 bp
ATGGTGCTCAGAAACTTAACCATTTCTTACGAAATCATCAAATCTCTGAAACATGCCAAAGAACATAGTTTAGGGATTCAAATCCGATGGATCTCGAGCCTGAAAGTGGTATGGAAGAAAGACACGAGGCTAGACGAAGCCATCGAGCAGGACAAGCGTTACAAGCTCTGTGCTCGGGTTGTGAAAGAAGTCCTGAACGAGCCAGGTCAAGTCATTCCTCTCAGATACCTCGAAAAACGGCGCGAGAGGCTACGTCTCACTTTCAAAGCTAAGAGCTTTGTTGAAATGAACCCTTCCCTGTTCGAGATCTACTACGATCGGATCAAACCCAAGTCCGATCCCGTCCAATTCCTCCGCCCCACGCCTCGTCTCAGAGCTTTCCTCGACGAAGAGCAGAGGATTTACTCTGAGAATGAGCCTTTACTTGTTTCCAAGCTCTGCCAATTGCTGATGATGGCTAAAGATAAGGTTATCAGTGCAGATAAACTGGTTCATGTGAAGAGAGATTTCGGATTTCCGAACGATTTTCTGATGAAATTGGTTCAGAAATACCCTAATTACTTCAGGCTAACCGGTTTACCTGAAGAAGGTAAGTCCTTTCTTGAGCTAGTCTCTTGGAACCCTGATTTCGCCAAATCGAAGATTGAGCTGAGAGCAGAAGACGAGACCCTTAAAACCGGTGTCCGGATTCGACCCAATTACAATGTGAAATTGCCGTCTGGTTTTTTCCTAAGGAAGGAGATGAGAGAGTGGACTAGGGATTGGTTAGAGCAAGACTACATATCACCATATGAGGATGTGTCTCATTTAGACCAAGCTTCTAAGGAAATGGAGAAACGAACTGTTGGTGTTGTGCACGAATTGCTTTCTCTGTCACTGTTGAAAAGAGTCCCTGTGCCTACACTTGGCAAGTTCTGCGATGAGTTCCGGTTTTCCAACGCGTTCTCGAGTGTTTTCACTCGTCATTCAGGTATATTCTACTTGTCGTTAAAAGGAGGGATCAAGACTGCAGTGTTGAGAGAAGCTTATAAAGACGATGAGCTTGTTGATAGAGATCCTTTGCTTGCTATTAAGGATAAGTTCCTGAGGTTATTAGAGGAAGGATGGCAAGAAAGGAAAGATAGACTGAAGCTGCAGAGGGAACAAGTTCAGAAAGACAGGGAGATGATGTTAGCAGCGAAAAGCAATGAACCGATAGAGCGTCTCTGTGATTAA
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
PORR

Protein Analysis

404

Amino Acids

47.81

Weight (kDa)

9.32

Isoelectric Point (pI)

34.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 39 - 369 4.3e-109 Plant organelle RNA recognition 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: OG0014611)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G63090
fragaria_vesca FvH4_2g23842
malus_domestica MD03G1268200.v1.1 MD11G1289000.v1.1
prunus_persica Prupe.8G243800_v2.0.a1
pyrus_communis pycom03g21410 pycom11g25640
rosa_chinensis RchiOBHm_Chr6g0291451
rosa_laevigata RLG00000012113
rosa_multiflora Rmu_sc0003296.1_g000003
rosa_roxburghii Rroxscaffold_7G00176040
rosa_rugosa Rorug06G0219500
rosa_samantha Rh6AG331800 Rh6BG338700 Rh6CG344900 Rh6DG332000
rosa_wichuraiana Rw6G028800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1029
AccII CGCG 2 cut(s) 243, 941
AccIII TCCGGA 1 cut(s) 684
AciI CCGC 1 cut(s) 355
AclWI GGATC 5 cut(s) 98, 329, 332, 1007, 1049
AcuI CTGAAG 3 cut(s) 547, 603, 1148
AfiI CCNNNNNNNGG 5 cut(s) 106, 587, 684, 736, 905
AflIII ACRYGT 1 cut(s) 939
AgeI ACCGGT 2 cut(s) 572, 677
AgsI TTSAA 4 cut(s) 80, 265, 284, 883
AjnI CCWGG 1 cut(s) 202
Alw21I GWGCWC 3 cut(s) 9, 175, 858
Alw26I GTCTC 6 cut(s) 260, 374, 616, 659, 807, 1208
Alw44I GTGCAC 1 cut(s) 854
AlwI GGATC 5 cut(s) 98, 329, 332, 1007, 1049
Ama87I CYCGRG 3 cut(s) 94, 174, 946
Aor13HI TCCGGA 1 cut(s) 684
ApaLI GTGCAC 1 cut(s) 854
ApeKI GCWGC 2 cut(s) 1132, 1175
AsiGI ACCGGT 2 cut(s) 572, 677
Asp700I GAANNNNTTC 1 cut(s) 1146
AspLEI GCGC 1 cut(s) 243
AsuHPI GGTGA 1 cut(s) 777
AvaI CYCGRG 3 cut(s) 94, 174, 946
AxyI CCTNAGG 2 cut(s) 731, 1085
BaeGI GKGCMC 1 cut(s) 858
BauI CACGAG 1 cut(s) 124
BbsI GAAGAC 1 cut(s) 666
Bbv12I GWGCWC 3 cut(s) 9, 175, 858
BbvI GCAGC 2 cut(s) 1119, 1187
BccI CCATC 4 cut(s) 81, 149, 448, 1098
BceAI ACGGC 2 cut(s) 254, 700
BciT130I CCWGG 1 cut(s) 204
BcoDI GTCTC 6 cut(s) 260, 374, 616, 659, 807, 1208
BfaI CTAG 3 cut(s) 131, 608, 756
BfmI CTRYAG 2 cut(s) 1008, 1133
BglII AGATCT 1 cut(s) 306
BisI GCNGC 2 cut(s) 1133, 1176
BlsI GCNGC 2 cut(s) 1134, 1177
Bme1390I CCNGG 1 cut(s) 204
BmeT110I CYCGRG 3 cut(s) 94, 174, 946
BmiI GGNNCC 1 cut(s) 620
BmrFI CCNGG 1 cut(s) 204
BpiI GAAGAC 1 cut(s) 666
BplI GAGNNNNNCTC 4 cut(s) 366, 398, 596, 628
BpuEI CTTGAG 1 cut(s) 623
BsaBI GATNNNNATC 2 cut(s) 80, 1053
BsaI GGTCTC 1 cut(s) 659
BsaWI WCCGGW 4 cut(s) 572, 677, 684, 927
BsaXI ACNNNNNCTCC 2 cut(s) 1154, 1184
Bsc4I CCNNNNNNNGG 5 cut(s) 106, 587, 684, 736, 905
Bse118I RCCGGY 2 cut(s) 572, 677
Bse1I ACTGG 1 cut(s) 492
Bse21I CCTNAGG 2 cut(s) 731, 1085
Bse3DI GCAATG 1 cut(s) 1192
Bse8I GATNNNNATC 2 cut(s) 80, 1053
BseAI TCCGGA 1 cut(s) 684
BseBI CCWGG 1 cut(s) 204
BseGI GGATG 2 cut(s) 802, 1109
BseJI GATNNNNATC 2 cut(s) 80, 1053
BseLI CCNNNNNNNGG 5 cut(s) 106, 587, 684, 736, 905
BseMI GCAATG 1 cut(s) 1192
BseMII CTCAG 6 cut(s) 22, 235, 385, 399, 641, 1076
BseNI ACTGG 1 cut(s) 492
BseSI GKGCMC 1 cut(s) 858
BseXI GCAGC 2 cut(s) 1119, 1187
BsgI GTGCAG 1 cut(s) 498
Bsh1236I CGCG 2 cut(s) 243, 941
Bsh1285I CGRYCG 1 cut(s) 319
BshTI ACCGGT 2 cut(s) 572, 677
BsiEI CGRYCG 1 cut(s) 319
BsiHKAI GWGCWC 3 cut(s) 9, 175, 858
BsiHKCI CYCGRG 3 cut(s) 94, 174, 946
BsiSI CCGG 4 cut(s) 573, 678, 685, 928
BslFI GGGAC 1 cut(s) 875
BslI CCNNNNNNNGG 5 cut(s) 106, 587, 684, 736, 905
BsmAI GTCTC 6 cut(s) 260, 374, 616, 659, 807, 1208
BsmBI CGTCTC 3 cut(s) 260, 374, 1208
BsmFI GGGAC 1 cut(s) 875
Bso31I GGTCTC 1 cut(s) 659
BsoBI CYCGRG 3 cut(s) 94, 174, 946
Bsp1286I GDGCHC 3 cut(s) 9, 175, 858
Bsp13I TCCGGA 1 cut(s) 684
Bsp143I GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
BspACI CCGC 1 cut(s) 355
BspCNI CTCAG 6 cut(s) 21, 234, 384, 400, 642, 1077
BspEI TCCGGA 1 cut(s) 684
BspFNI CGCG 2 cut(s) 243, 941
BspLI GGNNCC 1 cut(s) 620
BspMAI CTGCAG 2 cut(s) 1012, 1137
BspPI GGATC 5 cut(s) 98, 329, 332, 1007, 1049
BspQI GCTCTTC 1 cut(s) 384
BspTNI GGTCTC 1 cut(s) 659
BsrDI GCAATG 1 cut(s) 1192
BsrFI RCCGGY 2 cut(s) 572, 677
BsrI ACTGG 1 cut(s) 492
BssAI RCCGGY 2 cut(s) 572, 677
BssMI GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
BssSI CACGAG 1 cut(s) 124
Bst2BI CACGAG 1 cut(s) 124
Bst2UI CCWGG 1 cut(s) 204
Bst4CI ACNGT 2 cut(s) 844, 879
Bst6I CTCTTC 2 cut(s) 384, 494
BstAPI GCANNNNNTGC 2 cut(s) 862, 915
BstC8I GCNNGC 1 cut(s) 1065
BstDEI CTNAG 9 cut(s) 8, 221, 270, 371, 408, 650, 731, 822, 1085
BstENI CCTNNNNNAGG 2 cut(s) 585, 734
BstF5I GGATG 2 cut(s) 802, 1109
BstFNI CGCG 2 cut(s) 243, 941
BstHHI GCGC 1 cut(s) 243
BstKTI GATC 7 cut(s) 93, 309, 319, 324, 340, 1002, 1057
BstMAI GTCTC 6 cut(s) 260, 374, 616, 659, 807, 1208
BstMBI GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
BstMCI CGRYCG 1 cut(s) 319
BstMWI GCNNNNNNNGC 5 cut(s) 154, 163, 247, 862, 915
BstNI CCWGG 1 cut(s) 204
BstNSI RCATGY 1 cut(s) 56
BstSCI CCNGG 1 cut(s) 202
BstSFI CTRYAG 2 cut(s) 1008, 1133
BstSLI GKGCMC 1 cut(s) 858
BstUI CGCG 2 cut(s) 243, 941
BstV1I GCAGC 2 cut(s) 1119, 1187
BstV2I GAAGAC 1 cut(s) 666
BstX2I RGATCY 3 cut(s) 90, 306, 1054
BstYI RGATCY 3 cut(s) 90, 306, 1054
Bsu36I CCTNAGG 2 cut(s) 731, 1085
BtgZI GCGATG 1 cut(s) 933
BtsCI GGATG 2 cut(s) 802, 1109
BtsI GCAGTG 1 cut(s) 1017
BtsIMutI CAGTG 3 cut(s) 481, 875, 1017
Cac8I GCNNGC 1 cut(s) 1065
CfoI GCGC 1 cut(s) 243
Cfr10I RCCGGY 2 cut(s) 572, 677
CseI GACGC 1 cut(s) 1190
CspAI ACCGGT 2 cut(s) 572, 677
CviAII CATG 2 cut(s) 53, 494
DdeI CTNAG 9 cut(s) 8, 221, 270, 371, 408, 650, 731, 822, 1085
DpnI GATC 7 cut(s) 92, 308, 318, 323, 339, 1001, 1056
DpnII GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
Eam1104I CTCTTC 2 cut(s) 384, 494
EarI CTCTTC 2 cut(s) 384, 494
EciI GGCGGA 1 cut(s) 344
Eco31I GGTCTC 1 cut(s) 659
Eco57I CTGAAG 3 cut(s) 547, 603, 1148
Eco81I CCTNAGG 2 cut(s) 731, 1085
Eco88I CYCGRG 3 cut(s) 94, 174, 946
EcoNI CCTNNNNNAGG 2 cut(s) 585, 734
EcoRII CCWGG 1 cut(s) 202
Esp3I CGTCTC 3 cut(s) 260, 374, 1208
FaeI CATG 2 cut(s) 56, 497
FaiI YATR 9 cut(s) 54, 66, 112, 495, 782, 790, 792, 974, 1029
FaqI GGGAC 1 cut(s) 875
FatI CATG 2 cut(s) 52, 493
FauNDI CATATG 1 cut(s) 790
Fnu4HI GCNGC 2 cut(s) 1133, 1176
FokI GGATG 2 cut(s) 809, 1116
Fsp4HI GCNGC 2 cut(s) 1133, 1176
FspBI CTAG 3 cut(s) 131, 608, 756
GlaI GCGC 1 cut(s) 242
GluI GCNGC 2 cut(s) 1133, 1176
HapII CCGG 4 cut(s) 573, 678, 685, 928
HgaI GACGC 1 cut(s) 1190
HhaI GCGC 1 cut(s) 243
Hin1II CATG 2 cut(s) 56, 497
Hin6I GCGC 1 cut(s) 241
HinP1I GCGC 1 cut(s) 241
HindIII AAGCTT 2 cut(s) 816, 1023
HinfI GANTC 3 cut(s) 76, 688, 888
HpaII CCGG 4 cut(s) 573, 678, 685, 928
HphI GGTGA 1 cut(s) 777
Hpy166II GTNNAC 3 cut(s) 578, 753, 856
Hpy188III TCNNGA 8 cut(s) 94, 193, 304, 602, 685, 946, 1003, 1084
Hpy8I GTNNAC 3 cut(s) 578, 753, 856
Hpy99I CGWCG 1 cut(s) 389
HpyAV CCTTC 4 cut(s) 303, 581, 730, 1094
HpyCH4III ACNGT 2 cut(s) 844, 879
HpyCH4IV ACGT 1 cut(s) 253
HpyCH4V TGCA 4 cut(s) 479, 856, 1010, 1135
HpyF10VI GCNNNNNNNGC 5 cut(s) 154, 163, 247, 862, 915
HpyF3I CTNAG 9 cut(s) 8, 221, 270, 371, 408, 650, 731, 822, 1085
HpySE526I ACGT 1 cut(s) 253
Hsp92II CATG 2 cut(s) 56, 497
HspAI GCGC 1 cut(s) 241
Kpn2I TCCGGA 1 cut(s) 684
Kzo9I GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
LguI GCTCTTC 1 cut(s) 384
Lsp1109I GCAGC 2 cut(s) 1119, 1187
MaeI CTAG 3 cut(s) 131, 608, 756
MaeII ACGT 1 cut(s) 253
MaeIII GTNAC 2 cut(s) 158, 873
MalI GATC 7 cut(s) 92, 308, 318, 323, 339, 1001, 1056
MboI GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
MboII GAAGA 6 cut(s) 127, 401, 511, 596, 652, 671
MfeI CAATTG 1 cut(s) 443
MflI RGATCY 3 cut(s) 90, 306, 1054
MhlI GDGCHC 3 cut(s) 9, 175, 858
MluCI AATT 7 cut(s) 347, 443, 536, 556, 697, 710, 860
MluI ACGCGT 1 cut(s) 939
MlyI GAGTC 1 cut(s) 897
MmeI TCCRAC 1 cut(s) 960
MroI TCCGGA 1 cut(s) 684
MroXI GAANNNNTTC 1 cut(s) 1146
MseI TTAA 5 cut(s) 17, 672, 989, 1071, 1213
MspI CCGG 4 cut(s) 573, 678, 685, 928
MspR9I CCNGG 1 cut(s) 204
MunI CAATTG 1 cut(s) 443
MvaI CCWGG 1 cut(s) 204
MvnI CGCG 2 cut(s) 243, 941
MwoI GCNNNNNNNGC 5 cut(s) 154, 163, 247, 862, 915
NdeI CATATG 1 cut(s) 790
NdeII GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
NlaIII CATG 2 cut(s) 56, 497
NlaIV GGNNCC 1 cut(s) 620
NmuCI GTSAC 1 cut(s) 873
NspI RCATGY 1 cut(s) 56
PaeR7I CTCGAG 2 cut(s) 94, 946
PciSI GCTCTTC 1 cut(s) 384
PcsI WCGNNNNNNNCGW 1 cut(s) 141
PdmI GAANNNNTTC 1 cut(s) 1146
PfeI GAWTC 2 cut(s) 76, 688
PinAI ACCGGT 2 cut(s) 572, 677
PkrI GCNGC 2 cut(s) 1134, 1177
Ple19I CGATCG 1 cut(s) 319
PleI GAGTC 1 cut(s) 896
PpsI GAGTC 1 cut(s) 896
PsiI TTATAA 1 cut(s) 1029
Psp6I CCWGG 1 cut(s) 202
PspGI CCWGG 1 cut(s) 202
PspN4I GGNNCC 1 cut(s) 620
PstI CTGCAG 2 cut(s) 1012, 1137
PsuI RGATCY 3 cut(s) 90, 306, 1054
PvuI CGATCG 1 cut(s) 319
SapI GCTCTTC 1 cut(s) 384
SaqAI TTAA 5 cut(s) 17, 672, 989, 1071, 1213
SatI GCNGC 2 cut(s) 1133, 1176
Sau3AI GATC 7 cut(s) 90, 306, 316, 321, 337, 999, 1054
SchI GAGTC 1 cut(s) 897
ScrFI CCNGG 1 cut(s) 204
SduI GDGCHC 3 cut(s) 9, 175, 858
SfcI CTRYAG 2 cut(s) 1008, 1133
Sfr274I CTCGAG 2 cut(s) 94, 946
SlaI CTCGAG 2 cut(s) 94, 946
SmlI CTYRAG 3 cut(s) 94, 602, 946
SmoI CTYRAG 3 cut(s) 94, 602, 946
Sse9I AATT 7 cut(s) 347, 443, 536, 556, 697, 710, 860
SsiI CCGC 1 cut(s) 355
SspMI CTAG 3 cut(s) 131, 608, 756
StyD4I CCNGG 1 cut(s) 202
TaaI ACNGT 2 cut(s) 844, 879
TaiI ACGT 1 cut(s) 256
TaqI TCGA 8 cut(s) 95, 144, 231, 303, 384, 638, 691, 947
TasI AATT 7 cut(s) 347, 443, 536, 556, 697, 710, 860
TfiI GAWTC 2 cut(s) 76, 688
Tru1I TTAA 5 cut(s) 17, 672, 989, 1071, 1213
Tru9I TTAA 5 cut(s) 17, 672, 989, 1071, 1213
TscAI CASTG 3 cut(s) 481, 882, 1017
TseFI GTSAC 1 cut(s) 873
TseI GCWGC 2 cut(s) 1132, 1175
Tsp45I GTSAC 1 cut(s) 873
TspDTI ATGAA 4 cut(s) 302, 482, 548, 1203
TspRI CASTG 3 cut(s) 481, 882, 1017
VneI GTGCAC 1 cut(s) 854
XagI CCTNNNNNAGG 2 cut(s) 585, 734
XceI RCATGY 1 cut(s) 56
XhoI CTCGAG 2 cut(s) 94, 946
XmnI GAANNNNTTC 1 cut(s) 1146
XspI CTAG 3 cut(s) 131, 608, 756
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.