AT2G27370

Casparian strip membrane

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0012760
Physical Location & Seq
Reverse (-)
11708429 .. 11710128
1700 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G27370.1

Sequence Viewer

Length: 666 bp
ATGGATATCGAAAAGGCAGGGAGCAGAAGAGAAGAAGAAGAACCCATTGTTCAAAGGCCAAAGCTAGACAAAGGCAAAGGAAAGGCTCATGTATTTGCTCCTCCTATGAACTACAACCGGATCATGGACAAACACAAGCAAGAAAAGATGAGCCCTGCCGGGTGGAAAAGAGGTGTAGCAATCTTCGATTTTGTTCTTAGACTCATCGCAGCAATCACAGCTATGGCTGCTGCAGCAAAGATGGCGACAACGGAAGAGACTCTTCCTTTCTTCACTCAGTTCTTGCAGTTCCAAGCTGACTACACTGATCTACCAACTATGTCATCTTTTGTGATAGTAAACTCAATCGTGGGTGGCTACCTAACCCTCTCATTGCCTTTTTCTATAGTCTGTATCCTCCGCCCCCTCGCGGTGCCGCCTAGGCTATTCCTGATCTTATGTGATACGGTGATGATGGGCCTCACCCTGATGGCGGCATCCGCTTCCGCAGCCATAGTTTACTTGGCGCACAACGGGAATTCAAGCTCGAACTGGCTTCCGGTTTGCCAGCAGTTTGGTGACTTTTGCCAAGGAACGAGCGGTGCCGTGGTGGCATCCTTTATTGCTGCGACTCTTCTCATGTTCCTCGTCATCCTATCTGCATTTGCTCTCAAGAGAACAACCTGA

Protein Analysis

221

Amino Acids

24.16

Weight (kDa)

8.93

Isoelectric Point (pI)

50.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 57 - 204 2.1e-43 Casparian strip membrane protein 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: OG0012760)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G27370
fragaria_vesca FvH4_3g25570
malus_domestica MD03G1149400.v1.1 MD11G1168200.v1.1
prunus_persica Prupe.6G135300_v2.0.a1
pyrus_communis pycom03g10330 pycom11g14050
rosa_chinensis RchiOBHm_Chr5g0046421
rosa_laevigata RLG00000034409 RLG00000034410
rosa_multiflora Rmu_sc0003878.1_g000049
rosa_roxburghii Rroxscaffold_1G00034980
rosa_rugosa Rorug05G0227900
rosa_samantha Rh5AG309100 Rh5BG317300 Rh5CG343200 Rh5DG327500
rosa_wichuraiana Rw0G021520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 412, 581
AccBSI CCGCTC 1 cut(s) 579
AccII CGCG 1 cut(s) 410
AciI CCGC 7 cut(s) 400, 410, 416, 473, 480, 486, 579
AclWI GGATC 1 cut(s) 128
AcsI RAATTY 1 cut(s) 517
AfiI CCNNNNNNNGG 3 cut(s) 124, 409, 472
AgsI TTSAA 2 cut(s) 53, 522
AluBI AGCT 4 cut(s) 64, 221, 296, 525
AluI AGCT 4 cut(s) 64, 221, 296, 525
Alw26I GTCTC 1 cut(s) 251
AlwI GGATC 1 cut(s) 128
AoxI GGCC 2 cut(s) 56, 457
ApeKI GCWGC 6 cut(s) 209, 227, 230, 233, 488, 605
ApoI RAATTY 1 cut(s) 517
AspA2I CCTAGG 1 cut(s) 419
AspLEI GCGC 1 cut(s) 508
AspS9I GGNCC 1 cut(s) 457
AsuC2I CCSGG 1 cut(s) 160
AsuHPI GGTGA 3 cut(s) 454, 460, 569
AvrII CCTAGG 1 cut(s) 419
BanI GGYRCC 2 cut(s) 412, 581
BanII GRGCYC 1 cut(s) 155
BbvI GCAGC 6 cut(s) 214, 217, 221, 245, 500, 592
BccI CCATC 3 cut(s) 235, 448, 463
BceAI ACGGC 1 cut(s) 569
BciVI GTATCC 1 cut(s) 404
BcnI CCSGG 1 cut(s) 160
BcoDI GTCTC 1 cut(s) 251
BfaI CTAG 2 cut(s) 65, 420
BfmI CTRYAG 2 cut(s) 231, 384
BfuI GTATCC 1 cut(s) 404
BglI GCCNNNNNGGC 2 cut(s) 421, 590
BisI GCNGC 8 cut(s) 210, 228, 231, 234, 416, 474, 489, 606
BlnI CCTAGG 1 cut(s) 419
BlsI GCNGC 8 cut(s) 211, 229, 232, 235, 417, 475, 490, 607
Bme1390I CCNGG 1 cut(s) 160
BmgT120I GGNCC 1 cut(s) 457
BmiI GGNNCC 2 cut(s) 414, 583
BmrFI CCNGG 1 cut(s) 160
BmsI GCATC 2 cut(s) 485, 602
BpuEI CTTGAG 1 cut(s) 635
BpuMI CCSGG 1 cut(s) 160
BsaJI CCNNGG 3 cut(s) 419, 568, 585
BsaWI WCCGGW 2 cut(s) 117, 538
Bsc4I CCNNNNNNNGG 3 cut(s) 124, 409, 472
Bse1I ACTGG 1 cut(s) 536
Bse3DI GCAATG 1 cut(s) 371
BseDI CCNNGG 3 cut(s) 419, 568, 585
BseGI GGATG 3 cut(s) 476, 593, 630
BseLI CCNNNNNNNGG 3 cut(s) 124, 409, 472
BseMI GCAATG 1 cut(s) 371
BseMII CTCAG 1 cut(s) 290
BseNI ACTGG 1 cut(s) 536
BseRI GAGGAG 1 cut(s) 90
BseXI GCAGC 6 cut(s) 214, 217, 221, 245, 500, 592
Bsh1236I CGCG 1 cut(s) 410
BshFI GGCC 2 cut(s) 58, 459
BshNI GGYRCC 2 cut(s) 412, 581
BsiSI CCGG 3 cut(s) 118, 159, 539
BslI CCNNNNNNNGG 3 cut(s) 124, 409, 472
BsmAI GTCTC 1 cut(s) 251
BsnI GGCC 2 cut(s) 58, 459
Bsp1286I GDGCHC 1 cut(s) 155
Bsp143I GATC 3 cut(s) 120, 307, 432
BspACI CCGC 7 cut(s) 400, 410, 416, 473, 480, 486, 579
BspANI GGCC 2 cut(s) 58, 459
BspCNI CTCAG 1 cut(s) 289
BspFNI CGCG 1 cut(s) 410
BspLI GGNNCC 2 cut(s) 414, 583
BspMAI CTGCAG 1 cut(s) 235
BspPI GGATC 1 cut(s) 128
BspT107I GGYRCC 2 cut(s) 412, 581
BsrBI CCGCTC 1 cut(s) 579
BsrDI GCAATG 1 cut(s) 371
BsrI ACTGG 1 cut(s) 536
BssECI CCNNGG 3 cut(s) 419, 568, 585
BssMI GATC 3 cut(s) 120, 307, 432
BssT1I CCWWGG 2 cut(s) 419, 568
Bst4CI ACNGT 1 cut(s) 448
Bst6I CTCTTC 4 cut(s) 22, 249, 267, 618
BstC8I GCNNGC 1 cut(s) 548
BstDEI CTNAG 2 cut(s) 197, 276
BstDSI CCRYGG 1 cut(s) 585
BstF5I GGATG 3 cut(s) 476, 593, 630
BstFNI CGCG 1 cut(s) 410
BstHHI GCGC 1 cut(s) 508
BstKTI GATC 3 cut(s) 123, 310, 435
BstMAI GTCTC 1 cut(s) 251
BstMBI GATC 3 cut(s) 120, 307, 432
BstMWI GCNNNNNNNGC 8 cut(s) 218, 227, 233, 242, 421, 479, 488, 590
BstSCI CCNGG 1 cut(s) 158
BstSFI CTRYAG 2 cut(s) 231, 384
BstUI CGCG 1 cut(s) 410
BstV1I GCAGC 6 cut(s) 214, 217, 221, 245, 500, 592
BstXI CCANNNNNNTGG 1 cut(s) 554
BsuI GTATCC 1 cut(s) 404
BsuRI GGCC 2 cut(s) 58, 459
BtgI CCRYGG 1 cut(s) 585
BtgZI GCGATG 1 cut(s) 190
BtsCI GGATG 3 cut(s) 476, 593, 630
BtsIMutI CAGTG 1 cut(s) 303
Cac8I GCNNGC 1 cut(s) 548
CfoI GCGC 1 cut(s) 508
Cfr13I GGNCC 1 cut(s) 457
CviAII CATG 3 cut(s) 89, 124, 619
DdeI CTNAG 2 cut(s) 197, 276
DpnI GATC 3 cut(s) 122, 309, 434
DpnII GATC 3 cut(s) 120, 307, 432
Eam1104I CTCTTC 4 cut(s) 22, 249, 267, 618
EarI CTCTTC 4 cut(s) 22, 249, 267, 618
EciI GGCGGA 1 cut(s) 389
Eco130I CCWWGG 2 cut(s) 419, 568
Eco24I GRGCYC 1 cut(s) 155
Eco32I GATATC 1 cut(s) 7
EcoRI GAATTC 1 cut(s) 517
EcoRV GATATC 1 cut(s) 7
EcoT14I CCWWGG 2 cut(s) 419, 568
EcoT38I GRGCYC 1 cut(s) 155
ErhI CCWWGG 2 cut(s) 419, 568
FaeI CATG 3 cut(s) 92, 127, 622
FaiI YATR 9 cut(s) 90, 107, 125, 224, 320, 386, 439, 494, 620
FalI AAGNNNNNCTT 2 cut(s) 246, 278
FatI CATG 3 cut(s) 88, 123, 618
Fnu4HI GCNGC 8 cut(s) 210, 228, 231, 234, 416, 474, 489, 606
FokI GGATG 3 cut(s) 463, 580, 617
FriOI GRGCYC 1 cut(s) 155
Fsp4HI GCNGC 8 cut(s) 210, 228, 231, 234, 416, 474, 489, 606
FspBI CTAG 2 cut(s) 65, 420
GlaI GCGC 1 cut(s) 507
GluI GCNGC 8 cut(s) 210, 228, 231, 234, 416, 474, 489, 606
HaeIII GGCC 2 cut(s) 58, 459
HapII CCGG 3 cut(s) 118, 159, 539
HhaI GCGC 1 cut(s) 508
Hin1II CATG 3 cut(s) 92, 127, 622
Hin6I GCGC 1 cut(s) 506
HinP1I GCGC 1 cut(s) 506
HinfI GANTC 3 cut(s) 201, 259, 610
HpaII CCGG 3 cut(s) 118, 159, 539
HphI GGTGA 3 cut(s) 454, 460, 569
Hpy166II GTNNAC 2 cut(s) 340, 499
Hpy188III TCNNGA 2 cut(s) 430, 652
Hpy8I GTNNAC 2 cut(s) 340, 499
HpyCH4III ACNGT 1 cut(s) 448
HpyCH4V TGCA 3 cut(s) 233, 286, 641
HpyF10VI GCNNNNNNNGC 8 cut(s) 218, 227, 233, 242, 421, 479, 488, 590
HpyF3I CTNAG 2 cut(s) 197, 276
Hsp92II CATG 3 cut(s) 92, 127, 622
HspAI GCGC 1 cut(s) 506
Kzo9I GATC 3 cut(s) 120, 307, 432
LmnI GCTCC 2 cut(s) 21, 103
LpnPI CCDG 9 cut(s) 3, 131, 168, 172, 443, 479, 517, 552, 560
Lsp1109I GCAGC 6 cut(s) 214, 217, 221, 245, 500, 592
LweI GCATC 2 cut(s) 485, 602
MaeI CTAG 2 cut(s) 65, 420
MaeIII GTNAC 1 cut(s) 557
MalI GATC 3 cut(s) 122, 309, 434
MbiI CCGCTC 1 cut(s) 579
MboI GATC 3 cut(s) 120, 307, 432
MboII GAAGA 9 cut(s) 39, 44, 47, 50, 175, 254, 262, 266, 605
MhlI GDGCHC 1 cut(s) 155
MluCI AATT 1 cut(s) 517
MlyI GAGTC 3 cut(s) 195, 253, 604
MnlI CCTC 7 cut(s) 111, 164, 377, 407, 416, 470, 635
MslI CAYNNNNRTG 2 cut(s) 221, 467
MspI CCGG 3 cut(s) 118, 159, 539
MspR9I CCNGG 1 cut(s) 160
MvnI CGCG 1 cut(s) 410
MwoI GCNNNNNNNGC 8 cut(s) 218, 227, 233, 242, 421, 479, 488, 590
NciI CCSGG 1 cut(s) 160
NdeII GATC 3 cut(s) 120, 307, 432
NlaIII CATG 3 cut(s) 92, 127, 622
NlaIV GGNNCC 2 cut(s) 414, 583
NmuCI GTSAC 1 cut(s) 557
PkrI GCNGC 8 cut(s) 211, 229, 232, 235, 417, 475, 490, 607
PleI GAGTC 3 cut(s) 195, 253, 604
PpsI GAGTC 3 cut(s) 195, 253, 604
PspN4I GGNNCC 2 cut(s) 414, 583
PspPI GGNCC 1 cut(s) 457
PstI CTGCAG 1 cut(s) 235
RseI CAYNNNNRTG 2 cut(s) 221, 467
SatI GCNGC 8 cut(s) 210, 228, 231, 234, 416, 474, 489, 606
Sau3AI GATC 3 cut(s) 120, 307, 432
Sau96I GGNCC 1 cut(s) 457
SchI GAGTC 3 cut(s) 195, 253, 604
ScrFI CCNGG 1 cut(s) 160
SduI GDGCHC 1 cut(s) 155
SetI ASST 7 cut(s) 66, 175, 223, 298, 363, 527, 665
SfaNI GCATC 2 cut(s) 485, 602
SfcI CTRYAG 2 cut(s) 231, 384
SmiMI CAYNNNNRTG 2 cut(s) 221, 467
SmlI CTYRAG 1 cut(s) 650
SmoI CTYRAG 1 cut(s) 650
Sse9I AATT 1 cut(s) 517
SsiI CCGC 7 cut(s) 400, 410, 416, 473, 480, 486, 579
SspMI CTAG 2 cut(s) 65, 420
StyD4I CCNGG 1 cut(s) 158
StyI CCWWGG 2 cut(s) 419, 568
TaaI ACNGT 1 cut(s) 448
TaqI TCGA 3 cut(s) 9, 186, 527
TasI AATT 1 cut(s) 517
TauI GCSGC 2 cut(s) 418, 476
TscAI CASTG 1 cut(s) 310
TseFI GTSAC 1 cut(s) 557
TseI GCWGC 6 cut(s) 209, 227, 230, 233, 488, 605
Tsp45I GTSAC 1 cut(s) 557
TspDTI ATGAA 1 cut(s) 122
TspGWI ACGGA 1 cut(s) 266
TspRI CASTG 1 cut(s) 310
XapI RAATTY 1 cut(s) 517
XcmI CCANNNNNNNNNTGG 1 cut(s) 499
XmaJI CCTAGG 1 cut(s) 419
XspI CTAG 2 cut(s) 65, 420
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.