AT5G48040

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0011284
Physical Location & Seq
Forward (+)
19469992 .. 19472445
2454 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G48040.1

Sequence Viewer

Length: 1269 bp
ATGCACTGGTTGCTACAGAGAAGGGTTAGTTTGTCTACTAGTTTGTGTAAATGCAGAGAAAGGTTTGATTTTTTTTATCAGCAGAGATGTGGTTTAGTTAATGTAAAGTTGAAATGGGTTAAAGATAGAGAACTTGATGCTGTTGTGGTTCGTGAAAAGCATCTTAGAGCAGTTTGTAATCTCGTTTCTGTTATTTCGGCTTCTCCTGATTTGAGACTACCTATCTTTAAGCTTTTGCCTCACCGTGGTCAGCTTGGTTTGCCTCAAGAGCTTAAGCTTTCAGCTTTTATTCGGAGGTATCCCAACATTTTTGTTGAGCATTGTTATTGGGATAGTGCAGGTACTAGTGTTCCTTGCTTTGGTTTAACTCGTGAGACGATTGATCTTTATTATGAAGAAGTTGATGTTTCACGGGTGAATGAAAGGGATGTTCTTGTGAGGTTGTGTAAACTTCTTATGCTTACTTGTGAAAGAACACTTTCGCTACATTCTATTGATCATCTTAGATGGGACTTGGGTTTGCCGTATGATTATCGAGATTCGTTGATTACTAAGCATCCGGATTTGTTCAGTTTGGTGAAGTTGTCTAGTGATCTTGACGGTTTAAAATTAATACATTGGGATGAACACCTCGCTGTTTCGCAAATGCAACTGAGAGAGGACGTTGGAAATGATGAACGTATGGCTTTCCCGGTTAAATTTACGAGAGGGTTTGGATTGAAGAGGAAGAGTATTGAGTGGCTCCAAGAATGGCAAAGACTTCCTTATACATCACCTTATGTCGATGCATCTCATTTGGATCCAAGAACTGATTTATCAGAGAAGAGAAATGTTGGAGTGTTTCACGAACTTCTTCATCTAACAATTGGAAAAAAGACAGAGAGGAAAAACGTTAGCAATCTTCGTAAACCGTTTGCACTTCCGCAGAAGTTCACCAAAGTATTTGAGCGTCACCCTGGTATTTTCTACATTTCTATGAAATGTGATACACAGACAGTGATCCTTAGAGAAGCATATGATAGGCGGCATCTCATCGAAAAGCACCCTCTTGTTGAAGTCAGGGAAAAGTTCGCAAACATGATGAATGAAGGGTTTCTGGATAGAAGTCGGGGACTGTATCAAAAATCTGTTGAGGCTGATTTGGAGAAGAACAATATCAAGACAAGTTATCCGGTTTGGTCAGACGAAGAAGAAGAGTTGGACAATAATTTGATATCTGGATACGACTCTGATTGTCCTGTGGTTGAAGAACATAAACGGGTGTTTTAG
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

422

Amino Acids

49.72

Weight (kDa)

8.23

Isoelectric Point (pI)

44.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 40 - 364 8.1e-120 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 329
AccI GTMKAC 1 cut(s) 35
AccIII TCCGGA 1 cut(s) 559
AciI CCGC 2 cut(s) 923, 1024
AclI AACGTT 1 cut(s) 891
AclWI GGATC 3 cut(s) 794, 807, 994
AcsI RAATTY 1 cut(s) 698
AfaI GTAC 1 cut(s) 343
AfiI CCNNNNNNNGG 2 cut(s) 245, 359
AflII CTTAAG 1 cut(s) 272
AgsI TTSAA 4 cut(s) 112, 721, 1055, 1247
AhlI ACTAGT 2 cut(s) 38, 344
AjnI CCWGG 1 cut(s) 955
AluBI AGCT 5 cut(s) 232, 253, 271, 277, 284
AluI AGCT 5 cut(s) 232, 253, 271, 277, 284
Alw26I GTCTC 2 cut(s) 208, 368
AlwI GGATC 3 cut(s) 794, 807, 994
Aor13HI TCCGGA 1 cut(s) 559
ApoI RAATTY 1 cut(s) 698
AseI ATTAAT 1 cut(s) 611
Asp700I GAANNNNTTC 3 cut(s) 478, 852, 1092
AsuC2I CCSGG 1 cut(s) 692
AsuHPI GGTGA 6 cut(s) 233, 427, 589, 765, 925, 944
BaeI ACNNNNGTAYC 2 cut(s) 333, 366
BamHI GGATCC 1 cut(s) 799
BauI CACGAG 1 cut(s) 369
BccI CCATC 1 cut(s) 501
BceAI ACGGC 1 cut(s) 508
BciT130I CCWGG 1 cut(s) 957
BciVI GTATCC 2 cut(s) 309, 1214
BclI TGATCA 1 cut(s) 496
BcnI CCSGG 1 cut(s) 692
BcoDI GTCTC 2 cut(s) 208, 368
BcuI ACTAGT 2 cut(s) 38, 344
BfaI CTAG 3 cut(s) 39, 345, 588
BfmI CTRYAG 1 cut(s) 14
BfrI CTTAAG 1 cut(s) 272
BfuAI ACCTGC 1 cut(s) 329
BfuI GTATCC 2 cut(s) 309, 1214
BisI GCNGC 1 cut(s) 1025
BlsI GCNGC 1 cut(s) 1026
Bme1390I CCNGG 2 cut(s) 692, 957
BmiI GGNNCC 2 cut(s) 743, 801
BmrFI CCNGG 2 cut(s) 692, 957
BmsI GCATC 6 cut(s) 127, 169, 565, 775, 797, 1036
BpuEI CTTGAG 1 cut(s) 249
BpuMI CCSGG 1 cut(s) 692
BsaJI CCNNGG 2 cut(s) 244, 955
BsaWI WCCGGW 2 cut(s) 559, 1171
Bsc4I CCNNNNNNNGG 2 cut(s) 245, 359
Bse1I ACTGG 1 cut(s) 11
BseAI TCCGGA 1 cut(s) 559
BseBI CCWGG 1 cut(s) 957
BseDI CCNNGG 2 cut(s) 244, 955
BseGI GGATG 3 cut(s) 433, 556, 628
BseLI CCNNNNNNNGG 2 cut(s) 245, 359
BseMII CTCAG 1 cut(s) 644
BseNI ACTGG 1 cut(s) 11
BsgI GTGCAG 1 cut(s) 357
BsiSI CCGG 3 cut(s) 560, 692, 1172
BslFI GGGAC 2 cut(s) 524, 1125
BslI CCNNNNNNNGG 2 cut(s) 245, 359
BsmAI GTCTC 2 cut(s) 208, 368
BsmBI CGTCTC 1 cut(s) 368
BsmFI GGGAC 2 cut(s) 524, 1125
Bsp13I TCCGGA 1 cut(s) 559
Bsp143I GATC 5 cut(s) 382, 496, 592, 799, 999
BspACI CCGC 2 cut(s) 923, 1024
BspCNI CTCAG 1 cut(s) 645
BspEI TCCGGA 1 cut(s) 559
BspLI GGNNCC 2 cut(s) 743, 801
BspMI ACCTGC 1 cut(s) 329
BspPI GGATC 3 cut(s) 794, 807, 994
BspTI CTTAAG 1 cut(s) 272
BsrI ACTGG 1 cut(s) 11
BssECI CCNNGG 2 cut(s) 244, 955
BssMI GATC 5 cut(s) 382, 496, 592, 799, 999
BssSI CACGAG 1 cut(s) 369
Bst2BI CACGAG 1 cut(s) 369
Bst2UI CCWGG 1 cut(s) 957
Bst4CI ACNGT 5 cut(s) 245, 602, 912, 997, 1116
Bst6I CTCTTC 4 cut(s) 716, 722, 818, 1188
BstAFI CTTAAG 1 cut(s) 272
BstAPI GCANNNNNTGC 1 cut(s) 10
BstDEI CTNAG 5 cut(s) 164, 503, 552, 653, 1004
BstDSI CCRYGG 1 cut(s) 244
BstF5I GGATG 3 cut(s) 433, 556, 628
BstKTI GATC 5 cut(s) 385, 499, 595, 802, 1002
BstMAI GTCTC 2 cut(s) 208, 368
BstMBI GATC 5 cut(s) 382, 496, 592, 799, 999
BstMWI GCNNNNNNNGC 3 cut(s) 10, 259, 268
BstNI CCWGG 1 cut(s) 957
BstSCI CCNGG 2 cut(s) 690, 955
BstSFI CTRYAG 1 cut(s) 14
BstX2I RGATCY 1 cut(s) 799
BstYI RGATCY 1 cut(s) 799
BsuI GTATCC 2 cut(s) 309, 1214
BtgI CCRYGG 1 cut(s) 244
BtsCI GGATG 3 cut(s) 433, 556, 628
BtsIMutI CAGTG 2 cut(s) 4, 1002
BveI ACCTGC 1 cut(s) 329
CseI GACGC 1 cut(s) 938
Csp6I GTAC 1 cut(s) 342
CviAII CATG 1 cut(s) 1078
CviJI RGCY 9 cut(s) 200, 232, 253, 271, 277, 284, 686, 742, 1136
CviKI_1 RGCY 9 cut(s) 200, 232, 253, 271, 277, 284, 686, 742, 1136
CviQI GTAC 1 cut(s) 342
DdeI CTNAG 5 cut(s) 164, 503, 552, 653, 1004
DpnI GATC 5 cut(s) 384, 498, 594, 801, 1001
DpnII GATC 5 cut(s) 382, 496, 592, 799, 999
DraI TTTAAA 1 cut(s) 606
Eam1104I CTCTTC 4 cut(s) 716, 722, 818, 1188
EarI CTCTTC 4 cut(s) 716, 722, 818, 1188
Eco32I GATATC 1 cut(s) 1215
EcoRII CCWGG 1 cut(s) 955
EcoRV GATATC 1 cut(s) 1215
EcoT22I ATGCAT 1 cut(s) 790
Esp3I CGTCTC 1 cut(s) 368
FaeI CATG 1 cut(s) 1081
FalI AAGNNNNNCTT 2 cut(s) 748, 780
FaqI GGGAC 2 cut(s) 524, 1125
FatI CATG 1 cut(s) 1077
FauNDI CATATG 1 cut(s) 1015
FbaI TGATCA 1 cut(s) 496
FblI GTMKAC 1 cut(s) 35
Fnu4HI GCNGC 1 cut(s) 1025
FokI GGATG 3 cut(s) 440, 543, 635
Fsp4HI GCNGC 1 cut(s) 1025
FspBI CTAG 3 cut(s) 39, 345, 588
GluI GCNGC 1 cut(s) 1025
HapII CCGG 3 cut(s) 560, 692, 1172
HgaI GACGC 1 cut(s) 938
Hin1II CATG 1 cut(s) 1081
HindIII AAGCTT 2 cut(s) 230, 275
HinfI GANTC 2 cut(s) 539, 1226
HpaII CCGG 3 cut(s) 560, 692, 1172
HphI GGTGA 6 cut(s) 233, 427, 589, 765, 925, 944
Hpy166II GTNNAC 4 cut(s) 36, 449, 908, 933
Hpy188I TCNGA 4 cut(s) 294, 820, 1183, 1231
Hpy8I GTNNAC 4 cut(s) 36, 449, 908, 933
HpyAV CCTTC 2 cut(s) 15, 1082
HpyCH4III ACNGT 5 cut(s) 245, 602, 912, 997, 1116
HpyCH4IV ACGT 3 cut(s) 663, 679, 891
HpyCH4V TGCA 6 cut(s) 4, 54, 338, 649, 788, 917
HpyF10VI GCNNNNNNNGC 3 cut(s) 10, 259, 268
HpyF3I CTNAG 5 cut(s) 164, 503, 552, 653, 1004
HpySE526I ACGT 3 cut(s) 663, 679, 891
Hsp92II CATG 1 cut(s) 1081
Kpn2I TCCGGA 1 cut(s) 559
Ksp22I TGATCA 1 cut(s) 496
Kzo9I GATC 5 cut(s) 382, 496, 592, 799, 999
LmnI GCTCC 1 cut(s) 747
LweI GCATC 6 cut(s) 127, 169, 565, 775, 797, 1036
MaeI CTAG 3 cut(s) 39, 345, 588
MaeII ACGT 3 cut(s) 663, 679, 891
MaeIII GTNAC 1 cut(s) 950
MalI GATC 5 cut(s) 384, 498, 594, 801, 1001
MboI GATC 5 cut(s) 382, 496, 592, 799, 999
MfeI CAATTG 1 cut(s) 864
MflI RGATCY 1 cut(s) 799
MluCI AATT 4 cut(s) 608, 698, 864, 1207
MlyI GAGTC 1 cut(s) 1220
MmeI TCCRAC 3 cut(s) 646, 814, 1179
Mph1103I ATGCAT 1 cut(s) 790
MroI TCCGGA 1 cut(s) 559
MroXI GAANNNNTTC 3 cut(s) 478, 852, 1092
MseI TTAA 8 cut(s) 99, 120, 228, 273, 365, 605, 611, 696
MslI CAYNNNNRTG 2 cut(s) 621, 974
MspCI CTTAAG 1 cut(s) 272
MspI CCGG 3 cut(s) 560, 692, 1172
MspR9I CCNGG 2 cut(s) 692, 957
MunI CAATTG 1 cut(s) 864
MvaI CCWGG 1 cut(s) 957
MwoI GCNNNNNNNGC 3 cut(s) 10, 259, 268
NciI CCSGG 1 cut(s) 692
NdeI CATATG 1 cut(s) 1015
NdeII GATC 5 cut(s) 382, 496, 592, 799, 999
NlaIII CATG 1 cut(s) 1081
NlaIV GGNNCC 2 cut(s) 743, 801
NmuCI GTSAC 1 cut(s) 950
NsiI ATGCAT 1 cut(s) 790
PdmI GAANNNNTTC 3 cut(s) 478, 852, 1092
PfeI GAWTC 1 cut(s) 539
PkrI GCNGC 1 cut(s) 1026
PleI GAGTC 1 cut(s) 1220
PpsI GAGTC 1 cut(s) 1220
PshBI ATTAAT 1 cut(s) 611
Psp1406I AACGTT 1 cut(s) 891
Psp6I CCWGG 1 cut(s) 955
PspGI CCWGG 1 cut(s) 955
PspN4I GGNNCC 2 cut(s) 743, 801
PsuI RGATCY 1 cut(s) 799
RsaI GTAC 1 cut(s) 343
RsaNI GTAC 1 cut(s) 342
RseI CAYNNNNRTG 2 cut(s) 621, 974
SaqAI TTAA 8 cut(s) 99, 120, 228, 273, 365, 605, 611, 696
SatI GCNGC 1 cut(s) 1025
Sau3AI GATC 5 cut(s) 382, 496, 592, 799, 999
SchI GAGTC 1 cut(s) 1220
ScrFI CCNGG 2 cut(s) 692, 957
SfaNI GCATC 6 cut(s) 127, 169, 565, 775, 797, 1036
SfcI CTRYAG 1 cut(s) 14
SmiMI CAYNNNNRTG 2 cut(s) 621, 974
SmlI CTYRAG 2 cut(s) 264, 272
SmoI CTYRAG 2 cut(s) 264, 272
SpeI ACTAGT 2 cut(s) 38, 344
Sse9I AATT 4 cut(s) 608, 698, 864, 1207
SsiI CCGC 2 cut(s) 923, 1024
SspMI CTAG 3 cut(s) 39, 345, 588
StyD4I CCNGG 2 cut(s) 690, 955
TaaI ACNGT 5 cut(s) 245, 602, 912, 997, 1116
TaiI ACGT 3 cut(s) 666, 682, 894
TaqI TCGA 3 cut(s) 535, 783, 1035
TasI AATT 4 cut(s) 608, 698, 864, 1207
TauI GCSGC 1 cut(s) 1027
TfiI GAWTC 1 cut(s) 539
Tru1I TTAA 8 cut(s) 99, 120, 228, 273, 365, 605, 611, 696
Tru9I TTAA 8 cut(s) 99, 120, 228, 273, 365, 605, 611, 696
TscAI CASTG 1 cut(s) 1002
TseFI GTSAC 1 cut(s) 950
Tsp45I GTSAC 1 cut(s) 950
TspDTI ATGAA 8 cut(s) 408, 435, 639, 690, 845, 992, 1097, 1101
TspRI CASTG 1 cut(s) 1002
Vha464I CTTAAG 1 cut(s) 272
VspI ATTAAT 1 cut(s) 611
XapI RAATTY 1 cut(s) 698
XmiI GTMKAC 1 cut(s) 35
XmnI GAANNNNTTC 3 cut(s) 478, 852, 1092
XspI CTAG 3 cut(s) 39, 345, 588
Zsp2I ATGCAT 1 cut(s) 790
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.