AT5G60520

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0002778
Physical Location & Seq
Reverse (-)
24331670 .. 24333144
1475 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G60520.1

Sequence Viewer

Length: 1017 bp
ATGTTGCGAGTTCTTGTAACTATTATCGTGCTTGTCTCTGTTTCCTCTGTTTCTGCTACAGAGAAAGGGAAGAAACTCAAGAAAGGTGCTTATGATGCGGCTTCAACGAACTATAATGTTTTGTATCCACTTGGCTCGGGCCAAGAGCGAGTTCAATGCTTGGCTAGAGGATCGTGTAACCAGAAAATCCTCACTTGTCCTAAGGAATGCCCCGAGAGAAAACCAAAAATGAACAAGAAGAAAAAAGCTTGTTTCATCGATTGTAGCAGCAAATGTGAAGTCACCTGCAAATGGAGGAAAGCAAACTGCAACGGTTATGGATCTTTGTGTTACGACCCGAGATTTGTGGGAGGAGATGGAGTGATGTTCTACTTCCACGGAAACAAAGACGGGAACTTCGCCATCGTCTCTGACGAGAATCTTCAAATCAATGCACATTTCATTGGTACAAGACCTGCTGGTAGAACCAGAGACTTCACATGGGTTCAAGCCTTCTCAGTGATGTTCGATAGTCACAACCTCGTCATCGCAGCCAAGAAGGTTGCGTCTTGGGATGATTCCGTAGACTCTCTCGTGGTGAGATGGAACGGAGAAGAAGTTGAAGTCCCGACAGAAGGTGAAGCAGAGTGGAGAATTGATCTTGACGAAAGGGAAGTTATTGTTGAGAGAACAGATGAGAGAAATAACGTGAGAGTCACGGTATCTGGGATTGTTCAGATAGATATTCAGGTTAGACCAATTGGGAAAGAAGAAGATAGAGTTCATAAGTATCAGCTTCCTAAAGATGATGCTTTTGCTCATCTAGAGACTCAGTTTAAGTTCTTTAACCTGAGTGATCTTGTCGAGGGCGTTTTGGGGAAAACATATCGGCCTGGATACGTTAGTCCGGTTAAGACCGGAGTCCCTATGCCTATGATGGGTGGAGAAGACAAGTACCAAACTCCTTCTCTGTTCTCACCTCTCTGTAATGTCTGCAGGTTCCAAGGCAAAACTGGTCCTGGAGTGGCTAAGTACTAA
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

338

Amino Acids

37.83

Weight (kDa)

8.61

Isoelectric Point (pI)

28.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 271 - 327 5.1e-30 Root cap
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)
AarI CACCTGC 1 cut(s) 293
Acc36I ACCTGC 3 cut(s) 293, 463, 966
AccI GTMKAC 1 cut(s) 564
AciI CCGC 1 cut(s) 98
AclWI GGATC 2 cut(s) 178, 328
AfaI GTAC 3 cut(s) 448, 935, 1013
AfiI CCNNNNNNNGG 3 cut(s) 291, 614, 917
AgsI TTSAA 5 cut(s) 105, 155, 425, 488, 602
AjnI CCWGG 2 cut(s) 871, 997
AjuI GAANNNNNNNTTGG 2 cut(s) 135, 167
AluBI AGCT 2 cut(s) 248, 775
AluI AGCT 2 cut(s) 248, 775
Alw26I GTCTC 4 cut(s) 40, 412, 465, 800
AlwI GGATC 2 cut(s) 178, 328
Ama87I CYCGRG 3 cut(s) 136, 212, 337
AoxI GGCC 2 cut(s) 139, 869
ApeKI GCWGC 2 cut(s) 267, 530
ArsI GACNNNNNNTTYG 6 cut(s) 264, 296, 326, 358, 380, 412
AspS9I GGNCC 2 cut(s) 139, 995
AsuHPI GGTGA 4 cut(s) 274, 589, 629, 948
AvaI CYCGRG 3 cut(s) 136, 212, 337
AvaII GGWCC 1 cut(s) 995
AxyI CCTNAGG 1 cut(s) 201
BaeI ACNNNNGTAYC 2 cut(s) 868, 901
BauI CACGAG 1 cut(s) 572
BbsI GAAGAC 1 cut(s) 933
BbvI GCAGC 2 cut(s) 279, 542
BccI CCATC 4 cut(s) 350, 410, 576, 910
BcgI CGANNNNNNTGC 2 cut(s) 138, 172
BciT130I CCWGG 2 cut(s) 873, 999
BciVI GTATCC 2 cut(s) 135, 869
BcoDI GTCTC 4 cut(s) 40, 412, 465, 800
BfaI CTAG 2 cut(s) 165, 803
BfmI CTRYAG 2 cut(s) 57, 973
BfuAI ACCTGC 3 cut(s) 293, 463, 966
BfuI GTATCC 2 cut(s) 135, 869
BisI GCNGC 3 cut(s) 99, 268, 531
BlsI GCNGC 3 cut(s) 100, 269, 532
BmcAI AGTACT 1 cut(s) 1013
Bme1390I CCNGG 2 cut(s) 873, 999
Bme18I GGWCC 1 cut(s) 995
BmeT110I CYCGRG 3 cut(s) 136, 212, 337
BmgT120I GGNCC 2 cut(s) 139, 995
BmiI GGNNCC 1 cut(s) 980
BmrFI CCNGG 2 cut(s) 873, 999
BmsI GCATC 2 cut(s) 85, 778
BoxI GACNNNNGTC 1 cut(s) 899
BpiI GAAGAC 1 cut(s) 933
BpuEI CTTGAG 1 cut(s) 62
Bsa29I ATCGAT 1 cut(s) 258
BsaJI CCNNGG 2 cut(s) 376, 982
BsaWI WCCGGW 2 cut(s) 886, 896
BsaXI ACNNNNNCTCC 4 cut(s) 345, 375, 582, 612
Bsc4I CCNNNNNNNGG 3 cut(s) 291, 614, 917
Bse1I ACTGG 1 cut(s) 997
Bse21I CCTNAGG 1 cut(s) 201
BseBI CCWGG 2 cut(s) 873, 999
BseCI ATCGAT 1 cut(s) 258
BseDI CCNNGG 2 cut(s) 376, 982
BseGI GGATG 1 cut(s) 559
BseLI CCNNNNNNNGG 3 cut(s) 291, 614, 917
BseMII CTCAG 3 cut(s) 510, 821, 824
BseNI ACTGG 1 cut(s) 997
BseRI GAGGAG 1 cut(s) 366
BseXI GCAGC 2 cut(s) 279, 542
BshFI GGCC 2 cut(s) 141, 871
BshVI ATCGAT 1 cut(s) 258
BsiHKCI CYCGRG 3 cut(s) 136, 212, 337
BsiSI CCGG 2 cut(s) 887, 897
BslFI GGGAC 2 cut(s) 590, 887
BslI CCNNNNNNNGG 3 cut(s) 291, 614, 917
BsmAI GTCTC 4 cut(s) 40, 412, 465, 800
BsmBI CGTCTC 1 cut(s) 412
BsmFI GGGAC 2 cut(s) 590, 887
BsmI GAATGC 1 cut(s) 212
BsnI GGCC 2 cut(s) 141, 871
BsoBI CYCGRG 3 cut(s) 136, 212, 337
Bsp143I GATC 4 cut(s) 170, 320, 637, 835
BspACI CCGC 1 cut(s) 98
BspANI GGCC 2 cut(s) 141, 871
BspCNI CTCAG 3 cut(s) 509, 822, 823
BspDI ATCGAT 1 cut(s) 258
BspLI GGNNCC 1 cut(s) 980
BspMAI CTGCAG 1 cut(s) 977
BspMI ACCTGC 3 cut(s) 293, 463, 966
BspPI GGATC 2 cut(s) 178, 328
BsrI ACTGG 1 cut(s) 997
BssECI CCNNGG 2 cut(s) 376, 982
BssMI GATC 4 cut(s) 170, 320, 637, 835
BssSI CACGAG 1 cut(s) 572
BssT1I CCWWGG 1 cut(s) 982
Bst2BI CACGAG 1 cut(s) 572
Bst2UI CCWGG 2 cut(s) 873, 999
Bst4CI ACNGT 2 cut(s) 314, 700
BstDEI CTNAG 5 cut(s) 201, 496, 810, 830, 1008
BstDSI CCRYGG 1 cut(s) 376
BstF5I GGATG 1 cut(s) 559
BstKTI GATC 4 cut(s) 173, 323, 640, 838
BstMAI GTCTC 4 cut(s) 40, 412, 465, 800
BstMBI GATC 4 cut(s) 170, 320, 637, 835
BstMWI GCNNNNNNNGC 1 cut(s) 95
BstNI CCWGG 2 cut(s) 873, 999
BstPAI GACNNNNGTC 1 cut(s) 899
BstSCI CCNGG 2 cut(s) 871, 997
BstSFI CTRYAG 2 cut(s) 57, 973
BstV1I GCAGC 2 cut(s) 279, 542
BstV2I GAAGAC 1 cut(s) 933
BstX2I RGATCY 1 cut(s) 320
BstYI RGATCY 1 cut(s) 320
Bsu15I ATCGAT 1 cut(s) 258
Bsu36I CCTNAGG 1 cut(s) 201
BsuI GTATCC 2 cut(s) 135, 869
BsuRI GGCC 2 cut(s) 141, 871
BsuTUI ATCGAT 1 cut(s) 258
BtgI CCRYGG 1 cut(s) 376
BtgZI GCGATG 1 cut(s) 511
BtsCI GGATG 1 cut(s) 559
BtsIMutI CAGTG 1 cut(s) 504
BveI ACCTGC 3 cut(s) 293, 463, 966
Cfr13I GGNCC 2 cut(s) 139, 995
ClaI ATCGAT 1 cut(s) 258
CseI GACGC 1 cut(s) 534
Csp6I GTAC 3 cut(s) 447, 934, 1012
CviAII CATG 1 cut(s) 480
CviQI GTAC 3 cut(s) 447, 934, 1012
DdeI CTNAG 5 cut(s) 201, 496, 810, 830, 1008
DpnI GATC 4 cut(s) 172, 322, 639, 837
DpnII GATC 4 cut(s) 170, 320, 637, 835
Eco130I CCWWGG 1 cut(s) 982
Eco47I GGWCC 1 cut(s) 995
Eco81I CCTNAGG 1 cut(s) 201
Eco88I CYCGRG 3 cut(s) 136, 212, 337
EcoRII CCWGG 2 cut(s) 871, 997
EcoT14I CCWWGG 1 cut(s) 982
ErhI CCWWGG 1 cut(s) 982
Esp3I CGTCTC 1 cut(s) 412
FaeI CATG 1 cut(s) 483
FaiI YATR 8 cut(s) 93, 114, 318, 481, 765, 865, 908, 914
FaqI GGGAC 2 cut(s) 590, 887
FatI CATG 1 cut(s) 479
FblI GTMKAC 1 cut(s) 564
Fnu4HI GCNGC 3 cut(s) 99, 268, 531
FokI GGATG 1 cut(s) 566
Fsp4HI GCNGC 3 cut(s) 99, 268, 531
FspBI CTAG 2 cut(s) 165, 803
GluI GCNGC 3 cut(s) 99, 268, 531
HaeIII GGCC 2 cut(s) 141, 871
HapII CCGG 2 cut(s) 887, 897
HgaI GACGC 1 cut(s) 534
Hin1II CATG 1 cut(s) 483
HindIII AAGCTT 1 cut(s) 246
HinfI GANTC 6 cut(s) 418, 557, 566, 693, 808, 900
HpaII CCGG 2 cut(s) 887, 897
HphI GGTGA 4 cut(s) 274, 589, 629, 948
Hpy166II GTNNAC 1 cut(s) 565
Hpy188I TCNGA 2 cut(s) 412, 717
Hpy188III TCNNGA 4 cut(s) 79, 607, 641, 803
Hpy8I GTNNAC 1 cut(s) 565
HpyAV CCTTC 4 cut(s) 502, 532, 608, 954
HpyCH4III ACNGT 2 cut(s) 314, 700
HpyCH4IV ACGT 2 cut(s) 687, 879
HpyCH4V TGCA 4 cut(s) 288, 309, 434, 975
HpyF10VI GCNNNNNNNGC 1 cut(s) 95
HpyF3I CTNAG 5 cut(s) 201, 496, 810, 830, 1008
HpySE526I ACGT 2 cut(s) 687, 879
Hsp92II CATG 1 cut(s) 483
Kzo9I GATC 4 cut(s) 170, 320, 637, 835
Lsp1109I GCAGC 2 cut(s) 279, 542
LweI GCATC 2 cut(s) 85, 778
MaeI CTAG 2 cut(s) 165, 803
MaeII ACGT 2 cut(s) 687, 879
MaeIII GTNAC 6 cut(s) 16, 176, 280, 329, 512, 694
MalI GATC 4 cut(s) 172, 322, 639, 837
MboI GATC 4 cut(s) 170, 320, 637, 835
MboII GAAGA 7 cut(s) 82, 250, 413, 605, 761, 764, 938
MfeI CAATTG 1 cut(s) 738
MflI RGATCY 1 cut(s) 320
MluCI AATT 2 cut(s) 633, 738
MlyI GAGTC 4 cut(s) 560, 702, 802, 909
MnlI CCTC 8 cut(s) 55, 161, 200, 288, 344, 530, 838, 969
MseI TTAA 3 cut(s) 816, 825, 891
MspI CCGG 2 cut(s) 887, 897
MspR9I CCNGG 2 cut(s) 873, 999
MunI CAATTG 1 cut(s) 738
Mva1269I GAATGC 1 cut(s) 212
MvaI CCWGG 2 cut(s) 873, 999
MwoI GCNNNNNNNGC 1 cut(s) 95
NdeII GATC 4 cut(s) 170, 320, 637, 835
NlaIII CATG 1 cut(s) 483
NlaIV GGNNCC 1 cut(s) 980
NmuCI GTSAC 3 cut(s) 280, 512, 694
PaqCI CACCTGC 1 cut(s) 293
PcsI WCGNNNNNNNCGW 1 cut(s) 411
PctI GAATGC 1 cut(s) 212
PfeI GAWTC 2 cut(s) 418, 557
PfoI TCCNGGA 1 cut(s) 997
PkrI GCNGC 3 cut(s) 100, 269, 532
PleI GAGTC 4 cut(s) 560, 701, 802, 908
PpsI GAGTC 4 cut(s) 560, 701, 802, 908
PshAI GACNNNNGTC 1 cut(s) 899
Psp6I CCWGG 2 cut(s) 871, 997
PspGI CCWGG 2 cut(s) 871, 997
PspN4I GGNNCC 1 cut(s) 980
PspPI GGNCC 2 cut(s) 139, 995
PstI CTGCAG 1 cut(s) 977
PsuI RGATCY 1 cut(s) 320
RsaI GTAC 3 cut(s) 448, 935, 1013
RsaNI GTAC 3 cut(s) 447, 934, 1012
SaqAI TTAA 3 cut(s) 816, 825, 891
SatI GCNGC 3 cut(s) 99, 268, 531
Sau3AI GATC 4 cut(s) 170, 320, 637, 835
Sau96I GGNCC 2 cut(s) 139, 995
ScaI AGTACT 1 cut(s) 1013
SchI GAGTC 4 cut(s) 560, 702, 802, 909
ScrFI CCNGG 2 cut(s) 873, 999
SfaNI GCATC 2 cut(s) 85, 778
SfcI CTRYAG 2 cut(s) 57, 973
SinI GGWCC 1 cut(s) 995
SmlI CTYRAG 1 cut(s) 77
SmoI CTYRAG 1 cut(s) 77
Sse9I AATT 2 cut(s) 633, 738
SsiI CCGC 1 cut(s) 98
SspMI CTAG 2 cut(s) 165, 803
StyD4I CCNGG 2 cut(s) 871, 997
StyI CCWWGG 1 cut(s) 982
TaaI ACNGT 2 cut(s) 314, 700
TaiI ACGT 2 cut(s) 690, 882
TaqI TCGA 3 cut(s) 258, 507, 843
TasI AATT 2 cut(s) 633, 738
TatI WGTACW 1 cut(s) 1011
TauI GCSGC 1 cut(s) 101
TfiI GAWTC 2 cut(s) 418, 557
Tru1I TTAA 3 cut(s) 816, 825, 891
Tru9I TTAA 3 cut(s) 816, 825, 891
TscAI CASTG 1 cut(s) 504
TseFI GTSAC 3 cut(s) 280, 512, 694
TseI GCWGC 2 cut(s) 267, 530
Tsp45I GTSAC 3 cut(s) 280, 512, 694
TspDTI ATGAA 4 cut(s) 244, 245, 430, 752
TspGWI ACGGA 3 cut(s) 393, 550, 603
TspRI CASTG 1 cut(s) 504
VpaK11BI GGWCC 1 cut(s) 995
XbaI TCTAGA 1 cut(s) 802
XcmI CCANNNNNNNNNTGG 1 cut(s) 989
XmiI GTMKAC 1 cut(s) 564
XspI CTAG 2 cut(s) 165, 803
ZrmI AGTACT 1 cut(s) 1013
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.