AT5G60530

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0010073
Physical Location & Seq
Reverse (-)
24333907 .. 24335858
1952 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G60530.1

Sequence Viewer

Length: 1320 bp
ATGGAGCGCAGACAGTCATATGTGCTTGTCGCGCTCATTGGATTGCTTCTCTTGACAGATATTGTCATTGCACAGAGCGATGGCGGCAAAGGCAACGGTAACAATGGCAAGGGGAACGAGGTACAAGTAGACAAGGGTAAAGGAGATAATGGCAAAAGTAACGGTAACGGTCCAAAGGATAAAGAACAGGAGAAGAAGGACAAGGAGAAGGCAGCCAAGGACAAGAAGGAGAAGGAGAAAAAGGATAAGGAGGAAAAGGAGAAGAAGGATAAGGAAAGGAAGGAAAAGGAGAAGAAGGATAAACTGGAAAAGGAAAAGAAGGATAAGGAAAGGAAGGAGAAGGAGAGGAAGGAGAAAGAGAGAAAGGCGAAGGAGAAGAAAGACAAAGAGGAGAGTGAAGCAGCTGCGAGATACAGAATATTATCACCGTTGCCTACAGGACAAGAGCAGGCCATGTGCCAAGGTCGGGGATCATGTTACTACAAGACTCTTGTTTGCCCTGGTGAGTGTCCCAAGAGGAAGCCCACGAAGAACAAGAACACCAAAGGTTGCTTCATTGACTGCACTAACAAATGTGAAGCTACCTGCAAATGGAGAAAAACGAACTGCAATGGTTACGGATCTCTGTGCTACGACCCTCGATTTGTGGGAGGAGACGGTGTGATGTTCTATTTCCACGGATCCAAAGGAGGAAACTTTGCGATTGTTTCAGACAACAATCTCCAAATTAACGCTCACTTCATCGGTACAAGACCCGTTGGGAGAACCAGAGACTTCACATGGGTTCAGGCCCTAAATGTCATGTTCGAAAACCACAAGCTCGTGATCACAGCCAACAGAGTGAATCAATGGGATGAAACATCTGACGCCTTTACCATCAGATATGATGGAGAACTCATCACACTCCCTGAAGACGAACAATCAGAATGGAGGGAAATTTCAGGACAAAAGAAGGATATCATCATCGAAAGAACTGATGAGAGAAACAGCGTAAGAGTACTTGTCTCTGATCTTGTTCAGATGGACATCAGAGTGAGACCTATAGGGAAAGAAGAGAACAGAGTTCACAACTATCAGTTGCCGCAGGATGACGCTTTTGCCCATCTCGAGACTCAGTTCAAGTTCTTAGACCTAAGTGAGCTCGTCGAGGGTGTTTTGGGGAAAACCTACCGTCCTGATTACGTCAGCTCTGCCAAGACTGGAGTCCCAATGCCTGTATTGGGAGGAGAAGACAAATACCAAACGCCTTCTCTGTTCTCGCCGACTTGCAGACTGTGCAGGTTCAAGCCTCAAGAAGAATCACTTTCTGCTGATATCTAA
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
Root_cap

Protein Analysis

439

Amino Acids

50.08

Weight (kDa)

8.87

Isoelectric Point (pI)

27.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 372 - 428 1.2e-27 Root cap
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: OG0010073)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G61255 AT2G19000 AT4G21620 AT4G21620 AT5G60530
fragaria_vesca FvH4_3g04450
malus_domestica MD05G1323200.v1.1 MD10G1301000.v1.1
prunus_persica Prupe.4G039400_v2.0.a1
pyrus_communis pycom05g29750 pycom10g25390
rosa_chinensis RchiOBHm_Chr5g0006831
rosa_laevigata RLG00000031432
rosa_multiflora Rmu_co8368257.1_g000001 Rmu_sc0001044.1_g000036
rosa_roxburghii Rroxscaffold_1G00069220
rosa_rugosa Rorug04G0424800
rosa_samantha Rh5AG052500 Rh5BG051600 Rh5CG060100
rosa_wichuraiana Rw5G005210

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 593, 1269
AccI GTMKAC 1 cut(s) 129
AccII CGCG 1 cut(s) 32
AciI CCGC 2 cut(s) 84, 1082
AclWI GGATC 4 cut(s) 478, 628, 675, 688
AcsI RAATTY 1 cut(s) 936
AcuI CTGAAG 1 cut(s) 930
AcyI GRCGYC 1 cut(s) 867
AfaI GTAC 3 cut(s) 123, 748, 999
AfiI CCNNNNNNNGG 3 cut(s) 466, 591, 1220
AgsI TTSAA 2 cut(s) 1120, 1285
AjnI CCWGG 1 cut(s) 499
AjuI GAANNNNNNNTTGG 2 cut(s) 536, 568
AluBI AGCT 5 cut(s) 404, 581, 820, 1141, 1188
AluI AGCT 5 cut(s) 404, 581, 820, 1141, 1188
Alw21I GWGCWC 1 cut(s) 1143
Alw26I GTCTC 5 cut(s) 648, 765, 1009, 1030, 1103
AlwI GGATC 4 cut(s) 478, 628, 675, 688
Ama87I CYCGRG 1 cut(s) 1106
AoxI GGCC 2 cut(s) 450, 789
ApeKI GCWGC 3 cut(s) 212, 401, 404
ApoI RAATTY 1 cut(s) 936
ArsI GACNNNNNNTTYG 2 cut(s) 626, 658
AspLEI GCGC 2 cut(s) 9, 34
AspS9I GGNCC 2 cut(s) 170, 790
AsuHPI GGTGA 2 cut(s) 417, 515
AsuII TTCGAA 1 cut(s) 807
AvaI CYCGRG 1 cut(s) 1106
AvaII GGWCC 1 cut(s) 170
BamHI GGATCC 1 cut(s) 680
BanII GRGCYC 1 cut(s) 1143
BauI CACGAG 1 cut(s) 821
BbsI GAAGAC 2 cut(s) 918, 1236
Bbv12I GWGCWC 1 cut(s) 1143
BbvI GCAGC 3 cut(s) 224, 391, 413
BccI CCATC 5 cut(s) 74, 881, 884, 1015, 1110
BciT130I CCWGG 1 cut(s) 501
BclI TGATCA 1 cut(s) 825
BcoDI GTCTC 5 cut(s) 648, 765, 1009, 1030, 1103
BfmI CTRYAG 2 cut(s) 435, 1041
BfuAI ACCTGC 2 cut(s) 593, 1269
BisI GCNGC 5 cut(s) 85, 213, 402, 405, 1082
BlsI GCNGC 5 cut(s) 86, 214, 403, 406, 1083
BmcAI AGTACT 1 cut(s) 999
Bme1390I CCNGG 1 cut(s) 501
Bme18I GGWCC 1 cut(s) 170
BmeT110I CYCGRG 1 cut(s) 1106
BmgT120I GGNCC 2 cut(s) 170, 790
BmiI GGNNCC 1 cut(s) 682
BmrFI CCNGG 1 cut(s) 501
BoxI GACNNNNGTC 1 cut(s) 1202
BpiI GAAGAC 2 cut(s) 918, 1236
BpmI CTGGAG 1 cut(s) 1221
Bpu14I TTCGAA 1 cut(s) 807
BpuEI CTTGAG 1 cut(s) 1275
BsaBI GATNNNNATC 1 cut(s) 1025
BsaHI GRCGYC 1 cut(s) 867
BsaI GGTCTC 1 cut(s) 1030
BsaJI CCNNGG 4 cut(s) 216, 460, 499, 676
BsaXI ACNNNNNCTCC 2 cut(s) 645, 675
Bsc4I CCNNNNNNNGG 3 cut(s) 466, 591, 1220
Bse1I ACTGG 2 cut(s) 309, 1204
Bse3DI GCAATG 2 cut(s) 66, 616
Bse8I GATNNNNATC 1 cut(s) 1025
BseBI CCWGG 1 cut(s) 501
BseDI CCNNGG 4 cut(s) 216, 460, 499, 676
BseGI GGATG 2 cut(s) 859, 1093
BseJI GATNNNNATC 1 cut(s) 1025
BseLI CCNNNNNNNGG 3 cut(s) 466, 591, 1220
BseMI GCAATG 2 cut(s) 66, 616
BseMII CTCAG 1 cut(s) 1127
BseNI ACTGG 2 cut(s) 309, 1204
BseRI GAGGAG 3 cut(s) 404, 666, 1239
BseXI GCAGC 3 cut(s) 224, 391, 413
BsgI GTGCAG 2 cut(s) 547, 1297
Bsh1236I CGCG 1 cut(s) 32
BshFI GGCC 2 cut(s) 452, 791
BsiHKAI GWGCWC 1 cut(s) 1143
BsiHKCI CYCGRG 1 cut(s) 1106
BslFI GGGAC 2 cut(s) 495, 1190
BslI CCNNNNNNNGG 3 cut(s) 466, 591, 1220
BsmAI GTCTC 5 cut(s) 648, 765, 1009, 1030, 1103
BsmBI CGTCTC 1 cut(s) 648
BsmFI GGGAC 2 cut(s) 495, 1190
BsnI GGCC 2 cut(s) 452, 791
Bso31I GGTCTC 1 cut(s) 1030
BsoBI CYCGRG 1 cut(s) 1106
Bsp119I TTCGAA 1 cut(s) 807
Bsp1286I GDGCHC 1 cut(s) 1143
Bsp143I GATC 5 cut(s) 470, 620, 680, 825, 1009
BspACI CCGC 2 cut(s) 84, 1082
BspANI GGCC 2 cut(s) 452, 791
BspCNI CTCAG 1 cut(s) 1126
BspFNI CGCG 1 cut(s) 32
BspLI GGNNCC 1 cut(s) 682
BspMI ACCTGC 2 cut(s) 593, 1269
BspPI GGATC 4 cut(s) 478, 628, 675, 688
BspT104I TTCGAA 1 cut(s) 807
BspTNI GGTCTC 1 cut(s) 1030
BsrDI GCAATG 2 cut(s) 66, 616
BsrI ACTGG 2 cut(s) 309, 1204
BssECI CCNNGG 4 cut(s) 216, 460, 499, 676
BssMI GATC 5 cut(s) 470, 620, 680, 825, 1009
BssNI GRCGYC 1 cut(s) 867
BssSI CACGAG 1 cut(s) 821
BssT1I CCWWGG 2 cut(s) 216, 460
Bst2BI CACGAG 1 cut(s) 821
Bst2UI CCWGG 1 cut(s) 501
Bst4CI ACNGT 8 cut(s) 15, 98, 164, 170, 429, 659, 1172, 1275
Bst6I CTCTTC 1 cut(s) 1047
BstACI GRCGYC 1 cut(s) 867
BstAPI GCANNNNNTGC 1 cut(s) 1275
BstBI TTCGAA 1 cut(s) 807
BstC8I GCNNGC 1 cut(s) 450
BstDEI CTNAG 3 cut(s) 1113, 1126, 1133
BstDSI CCRYGG 1 cut(s) 676
BstF5I GGATG 2 cut(s) 859, 1093
BstFNI CGCG 1 cut(s) 32
BstHHI GCGC 2 cut(s) 9, 34
BstKTI GATC 5 cut(s) 473, 623, 683, 828, 1012
BstMAI GTCTC 5 cut(s) 648, 765, 1009, 1030, 1103
BstMBI GATC 5 cut(s) 470, 620, 680, 825, 1009
BstMWI GCNNNNNNNGC 4 cut(s) 31, 84, 90, 1275
BstNI CCWGG 1 cut(s) 501
BstPAI GACNNNNGTC 1 cut(s) 1202
BstSCI CCNGG 1 cut(s) 499
BstSFI CTRYAG 2 cut(s) 435, 1041
BstUI CGCG 1 cut(s) 32
BstV1I GCAGC 3 cut(s) 224, 391, 413
BstV2I GAAGAC 2 cut(s) 918, 1236
BstX2I RGATCY 2 cut(s) 620, 680
BstYI RGATCY 2 cut(s) 620, 680
BsuRI GGCC 2 cut(s) 452, 791
BtgI CCRYGG 1 cut(s) 676
BtgZI GCGATG 1 cut(s) 93
BtsCI GGATG 2 cut(s) 859, 1093
BveI ACCTGC 2 cut(s) 593, 1269
Cac8I GCNNGC 1 cut(s) 450
CfoI GCGC 2 cut(s) 9, 34
Cfr13I GGNCC 2 cut(s) 170, 790
CseI GACGC 2 cut(s) 875, 1100
Csp6I GTAC 3 cut(s) 122, 747, 998
CviAII CATG 4 cut(s) 454, 474, 780, 802
CviQI GTAC 3 cut(s) 122, 747, 998
DdeI CTNAG 3 cut(s) 1113, 1126, 1133
DpnI GATC 5 cut(s) 472, 622, 682, 827, 1011
DpnII GATC 5 cut(s) 470, 620, 680, 825, 1009
Eam1104I CTCTTC 1 cut(s) 1047
EarI CTCTTC 1 cut(s) 1047
Ecl136II GAGCTC 1 cut(s) 1141
Eco130I CCWWGG 2 cut(s) 216, 460
Eco24I GRGCYC 1 cut(s) 1143
Eco31I GGTCTC 1 cut(s) 1030
Eco32I GATATC 2 cut(s) 958, 1315
Eco47I GGWCC 1 cut(s) 170
Eco53kI GAGCTC 1 cut(s) 1141
Eco57I CTGAAG 1 cut(s) 930
Eco88I CYCGRG 1 cut(s) 1106
EcoICRI GAGCTC 1 cut(s) 1141
EcoO109I RGGNCCY 1 cut(s) 790
EcoRII CCWGG 1 cut(s) 499
EcoRV GATATC 2 cut(s) 958, 1315
EcoT14I CCWWGG 2 cut(s) 216, 460
EcoT38I GRGCYC 1 cut(s) 1143
ErhI CCWWGG 2 cut(s) 216, 460
Esp3I CGTCTC 1 cut(s) 648
FaeI CATG 4 cut(s) 457, 477, 783, 805
FaiI YATR 8 cut(s) 19, 21, 455, 475, 781, 803, 885, 1043
FalI AAGNNNNNCTT 2 cut(s) 1287, 1319
FaqI GGGAC 2 cut(s) 495, 1190
FatI CATG 4 cut(s) 453, 473, 779, 801
FauNDI CATATG 1 cut(s) 19
FbaI TGATCA 1 cut(s) 825
FblI GTMKAC 1 cut(s) 129
Fnu4HI GCNGC 5 cut(s) 85, 213, 402, 405, 1082
FokI GGATG 2 cut(s) 866, 1100
FriOI GRGCYC 1 cut(s) 1143
Fsp4HI GCNGC 5 cut(s) 85, 213, 402, 405, 1082
GlaI GCGC 2 cut(s) 8, 33
GluI GCNGC 5 cut(s) 85, 213, 402, 405, 1082
GsuI CTGGAG 1 cut(s) 1221
HaeIII GGCC 2 cut(s) 452, 791
HgaI GACGC 2 cut(s) 875, 1100
HhaI GCGC 2 cut(s) 9, 34
Hin1I GRCGYC 1 cut(s) 867
Hin1II CATG 4 cut(s) 457, 477, 783, 805
Hin6I GCGC 2 cut(s) 7, 32
HinP1I GCGC 2 cut(s) 7, 32
HinfI GANTC 5 cut(s) 487, 844, 1111, 1203, 1298
HphI GGTGA 2 cut(s) 417, 515
Hpy166II GTNNAC 2 cut(s) 130, 1066
Hpy188I TCNGA 7 cut(s) 712, 865, 881, 925, 1009, 1020, 1031
Hpy188III TCNNGA 7 cut(s) 52, 823, 942, 1106, 1108, 1175, 1292
Hpy8I GTNNAC 2 cut(s) 130, 1066
Hpy99I CGWCG 1 cut(s) 1148
HpyCH4III ACNGT 8 cut(s) 15, 98, 164, 170, 429, 659, 1172, 1275
HpyCH4IV ACGT 1 cut(s) 1182
HpyCH4V TGCA 6 cut(s) 71, 564, 588, 609, 1269, 1278
HpyF10VI GCNNNNNNNGC 4 cut(s) 31, 84, 90, 1275
HpyF3I CTNAG 3 cut(s) 1113, 1126, 1133
HpySE526I ACGT 1 cut(s) 1182
Hsp92I GRCGYC 1 cut(s) 867
Hsp92II CATG 4 cut(s) 457, 477, 783, 805
HspAI GCGC 2 cut(s) 7, 32
Ksp22I TGATCA 1 cut(s) 825
Kzo9I GATC 5 cut(s) 470, 620, 680, 825, 1009
LmnI GCTCC 1 cut(s) 4
Lsp1109I GCAGC 3 cut(s) 224, 391, 413
MaeII ACGT 1 cut(s) 1182
MaeIII GTNAC 5 cut(s) 98, 158, 164, 476, 614
MalI GATC 5 cut(s) 472, 622, 682, 827, 1011
MboI GATC 5 cut(s) 470, 620, 680, 825, 1009
MboII GAAGA 9 cut(s) 205, 274, 304, 388, 541, 923, 1064, 1241, 1307
MflI RGATCY 2 cut(s) 620, 680
MhlI GDGCHC 1 cut(s) 1143
MluCI AATT 2 cut(s) 726, 936
MlyI GAGTC 3 cut(s) 481, 1105, 1212
MseI TTAA 1 cut(s) 729
MslI CAYNNNNRTG 1 cut(s) 1031
MspA1I CMGCKG 1 cut(s) 404
MspR9I CCNGG 1 cut(s) 501
MvaI CCWGG 1 cut(s) 501
MvnI CGCG 1 cut(s) 32
MwoI GCNNNNNNNGC 4 cut(s) 31, 84, 90, 1275
NdeI CATATG 1 cut(s) 19
NdeII GATC 5 cut(s) 470, 620, 680, 825, 1009
NlaIII CATG 4 cut(s) 457, 477, 783, 805
NlaIV GGNNCC 1 cut(s) 682
NspV TTCGAA 1 cut(s) 807
PaeR7I CTCGAG 1 cut(s) 1106
PfeI GAWTC 2 cut(s) 844, 1298
PkrI GCNGC 5 cut(s) 86, 214, 403, 406, 1083
PleI GAGTC 3 cut(s) 481, 1105, 1211
PpsI GAGTC 3 cut(s) 481, 1105, 1211
PshAI GACNNNNGTC 1 cut(s) 1202
Psp124BI GAGCTC 1 cut(s) 1143
Psp6I CCWGG 1 cut(s) 499
PspGI CCWGG 1 cut(s) 499
PspN4I GGNNCC 1 cut(s) 682
PspPI GGNCC 2 cut(s) 170, 790
PsuI RGATCY 2 cut(s) 620, 680
PvuII CAGCTG 1 cut(s) 404
RsaI GTAC 3 cut(s) 123, 748, 999
RsaNI GTAC 3 cut(s) 122, 747, 998
RseI CAYNNNNRTG 1 cut(s) 1031
SacI GAGCTC 1 cut(s) 1143
SaqAI TTAA 1 cut(s) 729
SatI GCNGC 5 cut(s) 85, 213, 402, 405, 1082
Sau3AI GATC 5 cut(s) 470, 620, 680, 825, 1009
Sau96I GGNCC 2 cut(s) 170, 790
ScaI AGTACT 1 cut(s) 999
SchI GAGTC 3 cut(s) 481, 1105, 1212
ScrFI CCNGG 1 cut(s) 501
SduI GDGCHC 1 cut(s) 1143
SfcI CTRYAG 2 cut(s) 435, 1041
Sfr274I CTCGAG 1 cut(s) 1106
SfuI TTCGAA 1 cut(s) 807
SinI GGWCC 1 cut(s) 170
SlaI CTCGAG 1 cut(s) 1106
SmiMI CAYNNNNRTG 1 cut(s) 1031
SmlI CTYRAG 2 cut(s) 1106, 1290
SmoI CTYRAG 2 cut(s) 1106, 1290
Sse9I AATT 2 cut(s) 726, 936
SsiI CCGC 2 cut(s) 84, 1082
SspI AATATT 1 cut(s) 420
SstI GAGCTC 1 cut(s) 1143
StyD4I CCNGG 1 cut(s) 499
StyI CCWWGG 2 cut(s) 216, 460
TaaI ACNGT 8 cut(s) 15, 98, 164, 170, 429, 659, 1172, 1275
TaiI ACGT 1 cut(s) 1185
TaqI TCGA 5 cut(s) 640, 807, 966, 1107, 1146
TasI AATT 2 cut(s) 726, 936
TatI WGTACW 1 cut(s) 997
TauI GCSGC 2 cut(s) 87, 1084
TfiI GAWTC 2 cut(s) 844, 1298
Tru1I TTAA 1 cut(s) 729
Tru9I TTAA 1 cut(s) 729
TseI GCWGC 3 cut(s) 212, 401, 404
TspDTI ATGAA 3 cut(s) 544, 730, 870
TspGWI ACGGA 2 cut(s) 633, 693
VpaK11BI GGWCC 1 cut(s) 170
XapI RAATTY 1 cut(s) 936
XhoI CTCGAG 1 cut(s) 1106
XmiI GTMKAC 1 cut(s) 129
ZrmI AGTACT 1 cut(s) 999
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.