AT5G21970

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0009141
Physical Location & Seq
Forward (+)
7261523 .. 7263644
2122 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G21970.1

Sequence Viewer

Length: 1350 bp
ATGGGAGGTTTACGATGTTGGCTGCAATTCTACCGGAATGGGAATGCACACAATGTGTTTGCGATAATGCCTGAAAGAAACGTTTTATACGGAGAATCCTCTTTCAGGCGGGTATGGGTCAGGTTCATGACCAGTAGCAAGCGGGTTCAAGATAGGAGCAGGGAAAAGAGAGTCCAAGAGCTCGAAATAGCGACAGAGAAATGGAAGATAGCTTCTAAAGTGATTTTCTTGATGGAGGTGTTGAAGGGTGAGCGAGATATGATAATGACCGTCAGGTCGTTTGAACAGTATAGGCGGCAGATCAATTTGCCTAAACCACATAAGATTAGTGATTTCATCAGAAAGTCTCCGAAGTTGTTTGAATTGTATAAAGATCAGAGAGGAGTCTTGTGGTGCGGGTTGACAGAGGGAGGGGAAGATTTGTTGGACGAGCATGACAAGTTACTTGAAGAGAATGGAGACAAGGCTGCAGAACATGTGACTAGGTGTTTGATGATGTCTGTTGATAAGAAGCTTCCATTGGATAAGATTGTTCATTTCCGGAGGGATTTCGGGTTGCCGCTTGATTTTAGGATAAACTGGGTCTACAATTTTCCTCAGCATTTTAAAGTTGTGAAACTTGGGGATGGAGAAGAGTATCTTGAGCTTGTTTCATGGAATCCAGCTTGGGCTATCACAGAGTTGGAGAAAAAGACTTTAGGTATAACCGAGGATTGCGAACACAAGCCAGGTATGCTTTCACTGGCTTTCCCCATGAAGTTTCCTCCGTCGTACAAGAAAATGTACCGATACAGAGGGAAGATCGAACATTTTCAGAAACGATCTTATCTGTCTCCTTATGCCGATGCACGTGGACTTGAAGCTGGTTCAAAGGAATTCGACAAGCGGGCAATTGCTGTTATGCACGAACTGCTTAGTTTTACACTCGAGAAGAGATTGGTGACAGATCACCTAACCCATTTCAGGAGGGAGTTTGTGATGCCACAGAAGCTGATGAGGATTTTCTTGAAGCATTGTGGTATCTTCTATGTCTCTGAGAGAGGGAAGAGATTCAGTGTGTTCTTGACTGAAGGTTACGAAGGGCCAGAGCTGATTGAGAAATGTCCTTTGATACTTTGGAAAGAAAAGTTACTGAAGTTTACGGGTTACAGAGGAAGGAAGAGAGATATTCAAACTTATAGTGATACTTTGGACATGGAAGAGAGAGAATTACTGGAGAGTGGTTCAGGAGATGAAGATTTGAGTGTTGGATTTGAGAAAGATGGTGATTATGATGATGTGGTAACAGATGATGATGAGATGGACATTGGGGAAGTGAATGATGCATATGAAGAGAATAGCAAAGTTTAG
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

449

Amino Acids

52.98

Weight (kDa)

6.67

Isoelectric Point (pI)

40.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 56 - 382 1.1e-105 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 274
AccI GTMKAC 1 cut(s) 585
AccIII TCCGGA 1 cut(s) 540
AciI CCGC 6 cut(s) 109, 142, 295, 396, 560, 886
AclI AACGTT 1 cut(s) 81
AcsI RAATTY 1 cut(s) 875
AcuI CTGAAG 2 cut(s) 1089, 1154
AcvI CACGTG 1 cut(s) 851
AdeI CACNNNGTG 1 cut(s) 55
AfaI GTAC 2 cut(s) 773, 785
AfiI CCNNNNNNNGG 2 cut(s) 105, 963
AflIII ACRYGT 1 cut(s) 475
AgsI TTSAA 9 cut(s) 149, 244, 284, 362, 449, 860, 870, 1009, 1172
AjnI CCWGG 1 cut(s) 727
AjuI GAANNNNNNNTTGG 2 cut(s) 503, 535
AluBI AGCT 8 cut(s) 181, 212, 514, 646, 665, 863, 991, 1090
AluI AGCT 8 cut(s) 181, 212, 514, 646, 665, 863, 991, 1090
Alw21I GWGCWC 1 cut(s) 183
Alw26I GTCTC 4 cut(s) 351, 453, 837, 1036
AlwNI CAGNNNCTG 1 cut(s) 991
Ama87I CYCGRG 1 cut(s) 926
Aor13HI TCCGGA 1 cut(s) 540
AoxI GGCC 1 cut(s) 1082
ApeKI GCWGC 2 cut(s) 22, 467
ApoI RAATTY 1 cut(s) 875
ArsI GACNNNNNNTTYG 2 cut(s) 472, 504
Asp700I GAANNNNTTC 2 cut(s) 810, 1049
AspS9I GGNCC 1 cut(s) 1082
AsuHPI GGTGA 4 cut(s) 260, 941, 952, 1277
AvaI CYCGRG 1 cut(s) 926
BanII GRGCYC 1 cut(s) 183
BbrPI CACGTG 1 cut(s) 851
Bbv12I GWGCWC 1 cut(s) 183
BbvCI CCTCAGC 1 cut(s) 597
BbvI GCAGC 2 cut(s) 9, 454
BccI CCATC 4 cut(s) 226, 620, 1256, 1294
BciT130I CCWGG 1 cut(s) 729
BcoDI GTCTC 4 cut(s) 351, 453, 837, 1036
BfaI CTAG 1 cut(s) 483
BfmI CTRYAG 1 cut(s) 468
BisI GCNGC 4 cut(s) 23, 296, 468, 560
BlsI GCNGC 4 cut(s) 24, 297, 469, 561
Bme1390I CCNGG 1 cut(s) 729
BmeT110I CYCGRG 1 cut(s) 926
BmgT120I GGNCC 1 cut(s) 1082
BmrFI CCNGG 1 cut(s) 729
BmrI ACTGGG 1 cut(s) 589
BmsI GCATC 3 cut(s) 835, 969, 1312
BmuI ACTGGG 1 cut(s) 589
BpmI CTGGAG 1 cut(s) 1235
Bpu10I CCTNAGC 1 cut(s) 597
BpuEI CTTGAG 1 cut(s) 662
BsaAI YACGTR 1 cut(s) 851
BsaJI CCNNGG 1 cut(s) 708
BsaWI WCCGGW 2 cut(s) 33, 540
Bsc4I CCNNNNNNNGG 2 cut(s) 105, 963
Bse1I ACTGG 4 cut(s) 132, 584, 747, 1218
BseAI TCCGGA 1 cut(s) 540
BseBI CCWGG 1 cut(s) 729
BseDI CCNNGG 1 cut(s) 708
BseGI GGATG 1 cut(s) 631
BseLI CCNNNNNNNGG 2 cut(s) 105, 963
BseMII CTCAG 2 cut(s) 611, 1026
BseNI ACTGG 4 cut(s) 132, 584, 747, 1218
BseRI GAGGAG 1 cut(s) 396
BseXI GCAGC 2 cut(s) 9, 454
BshFI GGCC 1 cut(s) 1084
BsiHKAI GWGCWC 1 cut(s) 183
BsiHKCI CYCGRG 1 cut(s) 926
BsiSI CCGG 2 cut(s) 34, 541
BslI CCNNNNNNNGG 2 cut(s) 105, 963
BsmAI GTCTC 4 cut(s) 351, 453, 837, 1036
BsmI GAATGC 1 cut(s) 49
BsnI GGCC 1 cut(s) 1084
BsoBI CYCGRG 1 cut(s) 926
Bsp1286I GDGCHC 1 cut(s) 183
Bsp13I TCCGGA 1 cut(s) 540
Bsp143I GATC 5 cut(s) 300, 373, 801, 821, 946
BspACI CCGC 6 cut(s) 109, 142, 295, 396, 560, 886
BspANI GGCC 1 cut(s) 1084
BspCNI CTCAG 2 cut(s) 610, 1027
BspEI TCCGGA 1 cut(s) 540
BspHI TCATGA 1 cut(s) 126
BspMAI CTGCAG 1 cut(s) 472
BsrI ACTGG 4 cut(s) 132, 584, 747, 1218
BssECI CCNNGG 1 cut(s) 708
BssMI GATC 5 cut(s) 300, 373, 801, 821, 946
Bst2UI CCWGG 1 cut(s) 729
Bst4CI ACNGT 2 cut(s) 271, 288
Bst6I CTCTTC 7 cut(s) 444, 627, 926, 1040, 1154, 1194, 1326
BstAPI GCANNNNNTGC 1 cut(s) 910
BstBAI YACGTR 1 cut(s) 851
BstC8I GCNNGC 2 cut(s) 140, 888
BstDEI CTNAG 3 cut(s) 597, 914, 1035
BstENI CCTNNNNNAGG 1 cut(s) 103
BstF5I GGATG 1 cut(s) 631
BstKTI GATC 5 cut(s) 303, 376, 804, 824, 949
BstMAI GTCTC 4 cut(s) 351, 453, 837, 1036
BstMBI GATC 5 cut(s) 300, 373, 801, 821, 946
BstMWI GCNNNNNNNGC 3 cut(s) 733, 910, 988
BstNI CCWGG 1 cut(s) 729
BstNSI RCATGY 1 cut(s) 479
BstSCI CCNGG 1 cut(s) 727
BstSFI CTRYAG 1 cut(s) 468
BstV1I GCAGC 2 cut(s) 9, 454
BsuRI GGCC 1 cut(s) 1084
BtsCI GGATG 1 cut(s) 631
BtsIMutI CAGTG 2 cut(s) 740, 1060
Cac8I GCNNGC 2 cut(s) 140, 888
CaiI CAGNNNCTG 1 cut(s) 991
CciI TCATGA 1 cut(s) 126
Cfr13I GGNCC 1 cut(s) 1082
Csp6I GTAC 2 cut(s) 772, 784
CviAII CATG 6 cut(s) 127, 434, 476, 654, 754, 1195
CviQI GTAC 2 cut(s) 772, 784
DdeI CTNAG 3 cut(s) 597, 914, 1035
DpnI GATC 5 cut(s) 302, 375, 803, 823, 948
DpnII GATC 5 cut(s) 300, 373, 801, 821, 946
DraI TTTAAA 1 cut(s) 607
DraIII CACNNNGTG 1 cut(s) 55
DrdI GACNNNNNNGTC 1 cut(s) 274
DseDI GACNNNNNNGTC 1 cut(s) 274
Eam1104I CTCTTC 7 cut(s) 444, 627, 926, 1040, 1154, 1194, 1326
EarI CTCTTC 7 cut(s) 444, 627, 926, 1040, 1154, 1194, 1326
Ecl136II GAGCTC 1 cut(s) 181
Eco24I GRGCYC 1 cut(s) 183
Eco53kI GAGCTC 1 cut(s) 181
Eco57I CTGAAG 2 cut(s) 1089, 1154
Eco72I CACGTG 1 cut(s) 851
Eco88I CYCGRG 1 cut(s) 926
EcoICRI GAGCTC 1 cut(s) 181
EcoNI CCTNNNNNAGG 1 cut(s) 103
EcoRI GAATTC 1 cut(s) 875
EcoRII CCWGG 1 cut(s) 727
EcoT22I ATGCAT 1 cut(s) 1327
EcoT38I GRGCYC 1 cut(s) 183
FaeI CATG 6 cut(s) 130, 437, 479, 657, 757, 1198
FalI AAGNNNNNCTT 2 cut(s) 624, 656
FatI CATG 6 cut(s) 126, 433, 475, 653, 753, 1194
FauI CCCGC 4 cut(s) 102, 135, 389, 879
FauNDI CATATG 1 cut(s) 1327
FblI GTMKAC 1 cut(s) 585
Fnu4HI GCNGC 4 cut(s) 23, 296, 468, 560
FokI GGATG 1 cut(s) 638
FriOI GRGCYC 1 cut(s) 183
Fsp4HI GCNGC 4 cut(s) 23, 296, 468, 560
FspBI CTAG 1 cut(s) 483
GluI GCNGC 4 cut(s) 23, 296, 468, 560
GsuI CTGGAG 1 cut(s) 1235
HaeIII GGCC 1 cut(s) 1084
HapII CCGG 2 cut(s) 34, 541
Hin1II CATG 6 cut(s) 130, 437, 479, 657, 757, 1198
HincII GTYRAC 1 cut(s) 402
HindII GTYRAC 1 cut(s) 402
HindIII AAGCTT 1 cut(s) 512
HinfI GANTC 5 cut(s) 95, 171, 384, 658, 1050
HpaII CCGG 2 cut(s) 34, 541
HphI GGTGA 4 cut(s) 260, 941, 952, 1277
Hpy166II GTNNAC 5 cut(s) 11, 402, 586, 854, 1140
Hpy188I TCNGA 5 cut(s) 341, 351, 378, 816, 1036
Hpy8I GTNNAC 5 cut(s) 11, 402, 586, 854, 1140
Hpy99I CGWCG 1 cut(s) 772
HpyAV CCTTC 4 cut(s) 238, 1064, 1073, 1149
HpyCH4III ACNGT 2 cut(s) 271, 288
HpyCH4IV ACGT 2 cut(s) 81, 850
HpyCH4V TGCA 6 cut(s) 25, 47, 470, 848, 904, 1325
HpyF10VI GCNNNNNNNGC 3 cut(s) 733, 910, 988
HpyF3I CTNAG 3 cut(s) 597, 914, 1035
HpySE526I ACGT 2 cut(s) 81, 850
Hsp92II CATG 6 cut(s) 130, 437, 479, 657, 757, 1198
Kpn2I TCCGGA 1 cut(s) 540
Kzo9I GATC 5 cut(s) 300, 373, 801, 821, 946
LmnI GCTCC 1 cut(s) 156
Lsp1109I GCAGC 2 cut(s) 9, 454
LweI GCATC 3 cut(s) 835, 969, 1312
MaeI CTAG 1 cut(s) 483
MaeII ACGT 2 cut(s) 81, 850
MaeIII GTNAC 7 cut(s) 441, 478, 940, 1073, 1128, 1145, 1282
MalI GATC 5 cut(s) 302, 375, 803, 823, 948
MboI GATC 5 cut(s) 300, 373, 801, 821, 946
MfeI CAATTG 1 cut(s) 891
MhlI GDGCHC 1 cut(s) 183
MluCI AATT 7 cut(s) 26, 304, 362, 589, 875, 891, 1208
MlyI GAGTC 2 cut(s) 180, 393
MmeI TCCRAC 3 cut(s) 405, 663, 1228
Mph1103I ATGCAT 1 cut(s) 1327
MroI TCCGGA 1 cut(s) 540
MroXI GAANNNNTTC 2 cut(s) 810, 1049
MseI TTAA 1 cut(s) 606
MspI CCGG 2 cut(s) 34, 541
MspR9I CCNGG 1 cut(s) 729
MunI CAATTG 1 cut(s) 891
Mva1269I GAATGC 1 cut(s) 49
MvaI CCWGG 1 cut(s) 729
MwoI GCNNNNNNNGC 3 cut(s) 733, 910, 988
NdeI CATATG 1 cut(s) 1327
NdeII GATC 5 cut(s) 300, 373, 801, 821, 946
NlaIII CATG 6 cut(s) 130, 437, 479, 657, 757, 1198
NmuCI GTSAC 2 cut(s) 478, 940
NsiI ATGCAT 1 cut(s) 1327
NspI RCATGY 1 cut(s) 479
PaeR7I CTCGAG 1 cut(s) 926
PagI TCATGA 1 cut(s) 126
PciI ACATGT 1 cut(s) 475
PctI GAATGC 1 cut(s) 49
PdmI GAANNNNTTC 2 cut(s) 810, 1049
PfeI GAWTC 3 cut(s) 95, 658, 1050
PkrI GCNGC 4 cut(s) 24, 297, 469, 561
PleI GAGTC 2 cut(s) 179, 392
PmaCI CACGTG 1 cut(s) 851
PmlI CACGTG 1 cut(s) 851
PpsI GAGTC 2 cut(s) 179, 392
Ppu21I YACGTR 1 cut(s) 851
PscI ACATGT 1 cut(s) 475
Psp124BI GAGCTC 1 cut(s) 183
Psp1406I AACGTT 1 cut(s) 81
Psp6I CCWGG 1 cut(s) 727
PspCI CACGTG 1 cut(s) 851
PspGI CCWGG 1 cut(s) 727
PspPI GGNCC 1 cut(s) 1082
PstI CTGCAG 1 cut(s) 472
PstNI CAGNNNCTG 1 cut(s) 991
RsaI GTAC 2 cut(s) 773, 785
RsaNI GTAC 2 cut(s) 772, 784
SacI GAGCTC 1 cut(s) 183
SaqAI TTAA 1 cut(s) 606
SatI GCNGC 4 cut(s) 23, 296, 468, 560
Sau3AI GATC 5 cut(s) 300, 373, 801, 821, 946
Sau96I GGNCC 1 cut(s) 1082
SchI GAGTC 2 cut(s) 180, 393
ScrFI CCNGG 1 cut(s) 729
SduI GDGCHC 1 cut(s) 183
SfaNI GCATC 3 cut(s) 835, 969, 1312
SfcI CTRYAG 1 cut(s) 468
Sfr274I CTCGAG 1 cut(s) 926
SlaI CTCGAG 1 cut(s) 926
SmlI CTYRAG 2 cut(s) 641, 926
SmoI CTYRAG 2 cut(s) 641, 926
Sse9I AATT 7 cut(s) 26, 304, 362, 589, 875, 891, 1208
SsiI CCGC 6 cut(s) 109, 142, 295, 396, 560, 886
SspMI CTAG 1 cut(s) 483
SstI GAGCTC 1 cut(s) 183
StyD4I CCNGG 1 cut(s) 727
TaaI ACNGT 2 cut(s) 271, 288
TaiI ACGT 2 cut(s) 84, 853
TaqI TCGA 4 cut(s) 183, 804, 879, 927
TasI AATT 7 cut(s) 26, 304, 362, 589, 875, 891, 1208
TauI GCSGC 2 cut(s) 298, 562
TfiI GAWTC 3 cut(s) 95, 658, 1050
Tru1I TTAA 1 cut(s) 606
Tru9I TTAA 1 cut(s) 606
TscAI CASTG 2 cut(s) 747, 1060
TseFI GTSAC 2 cut(s) 478, 940
TseI GCWGC 2 cut(s) 22, 467
Tsp45I GTSAC 2 cut(s) 478, 940
TspDTI ATGAA 7 cut(s) 115, 325, 524, 642, 770, 1248, 1344
TspGWI ACGGA 2 cut(s) 105, 756
TspRI CASTG 2 cut(s) 747, 1060
XagI CCTNNNNNAGG 1 cut(s) 103
XapI RAATTY 1 cut(s) 875
XceI RCATGY 1 cut(s) 479
XhoI CTCGAG 1 cut(s) 926
XmiI GTMKAC 1 cut(s) 585
XmnI GAANNNNTTC 2 cut(s) 810, 1049
XspI CTAG 1 cut(s) 483
Zsp2I ATGCAT 1 cut(s) 1327
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.