AT3G06390

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0010939
Physical Location & Seq
Reverse (-)
1938335 .. 1939853
1519 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G06390.1

Sequence Viewer

Length: 600 bp
ATGGCGTCTACTGAGAACCCTGACCCTGAAACTGGCAAATCTGAACCGATTCCCGCGTCGGCTACACCACCACCCTCATCAGCCGCCAGTTTCCTAGATTGTCGTAAAATAGACATTATAACAAGAGTTCTGCTTTTCTCCGCCACTCTGACTGCTCTTATAGTAATGGTGACTAGCGACCAGACAGAGATGACTCAGCTCCCTGGAGTTTCGTCTCCGGCTCCTGTCTCCGCCGAGTTCAATGACTCGCCCGCTTTCATATACTTCGTGGTTGCTCTCGTGGTAGCTAGTTTCTATGCGCTCATATCAACACTTGTCTCCATCTCTCTACTCTTGAAACCTGAGTTCACTGCACAGTTCTCCATTTACCTAGCCTCGTTAGACATGGTGATGCTGGGGATTTTGGCGTCTGCAACGGGAACGGCGGGAGGAGTTGCGTACATAGCGTTGAAAGGAAACGAAGAAGTTGGGTGGAACAAGATCTGTAATGTCTACGACAAGTTTTGTCGTTACATCGCAACTTCGCTTGCCTTATCTCTATTTGCTTCACTTCTTCTTCTAGTTTTATCCATCTGGTCAGCACTCTCCAAGAGAACATGA

Protein Analysis

199

Amino Acids

21.16

Weight (kDa)

4.73

Isoelectric Point (pI)

34.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 34 - 185 4.8e-40 Casparian strip membrane protein domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0010939)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G06390 AT4G15610 AT4G15610
fragaria_vesca FvH4_4g17250
malus_domestica MD13G1173500.v1.1 MD16G1174700.v1.1
prunus_persica Prupe.1G141700_v2.0.a1 Prupe.1G141700_v2.0.a1
pyrus_communis pycom13g14910 pycom16g14660
rosa_chinensis RchiOBHm_Chr4g0421171
rosa_laevigata RLG00000007710
rosa_multiflora Rmu_sc0009290.1_g000005
rosa_roxburghii Rroxscaffold_5G00363470
rosa_rugosa Rorug04G0170000
rosa_samantha Rh4AG229700 Rh4BG232400 Rh4CG244000 Rh4DG228100
rosa_wichuraiana Rw4G020410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 119
AccI GTMKAC 2 cut(s) 8, 492
AccII CGCG 1 cut(s) 56
AciI CCGC 6 cut(s) 54, 84, 141, 231, 252, 425
AcyI GRCGYC 2 cut(s) 5, 407
AfaI GTAC 1 cut(s) 440
AfiI CCNNNNNNNGG 1 cut(s) 32
AgsI TTSAA 3 cut(s) 241, 337, 451
AjnI CCWGG 1 cut(s) 202
AluBI AGCT 2 cut(s) 199, 287
AluI AGCT 2 cut(s) 199, 287
Alw26I GTCTC 3 cut(s) 219, 232, 322
Asp700I GAANNNNTTC 1 cut(s) 48
AspLEI GCGC 1 cut(s) 301
AsuHPI GGTGA 2 cut(s) 181, 400
BauI CACGAG 1 cut(s) 278
BccI CCATC 2 cut(s) 329, 578
BceAI ACGGC 1 cut(s) 438
BciT130I CCWGG 1 cut(s) 204
BcoDI GTCTC 3 cut(s) 219, 232, 322
BfaI CTAG 5 cut(s) 95, 174, 288, 371, 560
BglII AGATCT 1 cut(s) 480
BisI GCNGC 1 cut(s) 84
BlsI GCNGC 1 cut(s) 85
Bme1390I CCNGG 1 cut(s) 204
BmiI GGNNCC 1 cut(s) 222
BmrFI CCNGG 1 cut(s) 204
BmsI GCATC 1 cut(s) 381
BpmI CTGGAG 1 cut(s) 225
BsaHI GRCGYC 2 cut(s) 5, 407
BsaJI CCNNGG 1 cut(s) 202
Bsc4I CCNNNNNNNGG 1 cut(s) 32
Bse1I ACTGG 2 cut(s) 37, 87
BseBI CCWGG 1 cut(s) 204
BseDI CCNNGG 1 cut(s) 202
BseLI CCNNNNNNNGG 1 cut(s) 32
BseMII CTCAG 2 cut(s) 209, 333
BseNI ACTGG 2 cut(s) 37, 87
BseRI GAGGAG 1 cut(s) 444
BseYI CCCAGC 1 cut(s) 394
BsgI GTGCAG 1 cut(s) 336
Bsh1236I CGCG 1 cut(s) 56
BsiSI CCGG 1 cut(s) 218
BslI CCNNNNNNNGG 1 cut(s) 32
BsmAI GTCTC 3 cut(s) 219, 232, 322
BsmBI CGTCTC 1 cut(s) 219
Bsp143I GATC 1 cut(s) 480
BspACI CCGC 6 cut(s) 54, 84, 141, 231, 252, 425
BspCNI CTCAG 3 cut(s) 4, 208, 334
BspFNI CGCG 1 cut(s) 56
BspLI GGNNCC 1 cut(s) 222
BsrI ACTGG 2 cut(s) 37, 87
BssECI CCNNGG 1 cut(s) 202
BssMI GATC 1 cut(s) 480
BssNI GRCGYC 2 cut(s) 5, 407
BssSI CACGAG 1 cut(s) 278
Bst2BI CACGAG 1 cut(s) 278
Bst2UI CCWGG 1 cut(s) 204
Bst4CI ACNGT 1 cut(s) 357
BstACI GRCGYC 2 cut(s) 5, 407
BstC8I GCNNGC 2 cut(s) 252, 528
BstDEI CTNAG 3 cut(s) 12, 195, 342
BstFNI CGCG 1 cut(s) 56
BstHHI GCGC 1 cut(s) 301
BstKTI GATC 1 cut(s) 483
BstMAI GTCTC 3 cut(s) 219, 232, 322
BstMBI GATC 1 cut(s) 480
BstMWI GCNNNNNNNGC 1 cut(s) 443
BstNI CCWGG 1 cut(s) 204
BstSCI CCNGG 1 cut(s) 202
BstUI CGCG 1 cut(s) 56
BstX2I RGATCY 1 cut(s) 480
BstYI RGATCY 1 cut(s) 480
BtgZI GCGATG 1 cut(s) 499
BtsI GCAGTG 1 cut(s) 348
BtsIMutI CAGTG 1 cut(s) 348
Cac8I GCNNGC 2 cut(s) 252, 528
CfoI GCGC 1 cut(s) 301
CseI GACGC 2 cut(s) 45, 396
Csp6I GTAC 1 cut(s) 439
CviAII CATG 2 cut(s) 385, 597
CviJI RGCY 6 cut(s) 62, 83, 199, 221, 287, 374
CviKI_1 RGCY 6 cut(s) 62, 83, 199, 221, 287, 374
CviQI GTAC 1 cut(s) 439
DdeI CTNAG 3 cut(s) 12, 195, 342
DpnI GATC 1 cut(s) 482
DpnII GATC 1 cut(s) 480
EciI GGCGGA 2 cut(s) 130, 220
EcoRII CCWGG 1 cut(s) 202
Esp3I CGTCTC 1 cut(s) 219
FaeI CATG 2 cut(s) 388, 600
FaiI YATR 9 cut(s) 119, 161, 260, 262, 297, 305, 386, 443, 598
FatI CATG 2 cut(s) 384, 596
FauI CCCGC 3 cut(s) 61, 259, 418
FblI GTMKAC 2 cut(s) 8, 492
Fnu4HI GCNGC 1 cut(s) 84
Fsp4HI GCNGC 1 cut(s) 84
FspBI CTAG 5 cut(s) 95, 174, 288, 371, 560
GlaI GCGC 1 cut(s) 300
GluI GCNGC 1 cut(s) 84
GsaI CCCAGC 1 cut(s) 398
GsuI CTGGAG 1 cut(s) 225
HapII CCGG 1 cut(s) 218
HgaI GACGC 2 cut(s) 45, 396
HhaI GCGC 1 cut(s) 301
Hin1I GRCGYC 2 cut(s) 5, 407
Hin1II CATG 2 cut(s) 388, 600
Hin6I GCGC 1 cut(s) 299
HinP1I GCGC 1 cut(s) 299
HinfI GANTC 3 cut(s) 49, 193, 245
HpaII CCGG 1 cut(s) 218
HphI GGTGA 2 cut(s) 181, 400
Hpy166II GTNNAC 3 cut(s) 9, 348, 493
Hpy188I TCNGA 2 cut(s) 43, 150
Hpy188III TCNNGA 1 cut(s) 334
Hpy8I GTNNAC 3 cut(s) 9, 348, 493
Hpy99I CGWCG 1 cut(s) 61
HpyCH4III ACNGT 1 cut(s) 357
HpyCH4V TGCA 2 cut(s) 353, 413
HpyF10VI GCNNNNNNNGC 1 cut(s) 443
HpyF3I CTNAG 3 cut(s) 12, 195, 342
Hsp92I GRCGYC 2 cut(s) 5, 407
Hsp92II CATG 2 cut(s) 388, 600
HspAI GCGC 1 cut(s) 299
Kzo9I GATC 1 cut(s) 480
LmnI GCTCC 2 cut(s) 204, 226
LweI GCATC 1 cut(s) 381
MaeI CTAG 5 cut(s) 95, 174, 288, 371, 560
MaeIII GTNAC 2 cut(s) 169, 509
MalI GATC 1 cut(s) 482
MboI GATC 1 cut(s) 480
MboII GAAGA 3 cut(s) 473, 545, 548
MflI RGATCY 1 cut(s) 480
MlyI GAGTC 2 cut(s) 187, 239
MnlI CCTC 3 cut(s) 85, 385, 422
MroXI GAANNNNTTC 1 cut(s) 48
MslI CAYNNNNRTG 1 cut(s) 389
MspI CCGG 1 cut(s) 218
MspR9I CCNGG 1 cut(s) 204
MvaI CCWGG 1 cut(s) 204
MvnI CGCG 1 cut(s) 56
MwoI GCNNNNNNNGC 1 cut(s) 443
NdeII GATC 1 cut(s) 480
NlaIII CATG 2 cut(s) 388, 600
NlaIV GGNNCC 1 cut(s) 222
NmeAIII GCCGAG 1 cut(s) 259
NmuCI GTSAC 1 cut(s) 169
PdmI GAANNNNTTC 1 cut(s) 48
PfeI GAWTC 1 cut(s) 49
PkrI GCNGC 1 cut(s) 85
PleI GAGTC 2 cut(s) 187, 239
PpsI GAGTC 2 cut(s) 187, 239
PsiI TTATAA 1 cut(s) 119
Psp6I CCWGG 1 cut(s) 202
PspFI CCCAGC 1 cut(s) 394
PspGI CCWGG 1 cut(s) 202
PspN4I GGNNCC 1 cut(s) 222
PsuI RGATCY 1 cut(s) 480
RsaI GTAC 1 cut(s) 440
RsaNI GTAC 1 cut(s) 439
RseI CAYNNNNRTG 1 cut(s) 389
SatI GCNGC 1 cut(s) 84
Sau3AI GATC 1 cut(s) 480
SchI GAGTC 2 cut(s) 187, 239
ScrFI CCNGG 1 cut(s) 204
SetI ASST 4 cut(s) 201, 289, 343, 372
SfaNI GCATC 1 cut(s) 381
SmiMI CAYNNNNRTG 1 cut(s) 389
SsiI CCGC 6 cut(s) 54, 84, 141, 231, 252, 425
SspMI CTAG 5 cut(s) 95, 174, 288, 371, 560
StyD4I CCNGG 1 cut(s) 202
TaaI ACNGT 1 cut(s) 357
TauI GCSGC 1 cut(s) 86
TfiI GAWTC 1 cut(s) 49
TscAI CASTG 1 cut(s) 355
TseFI GTSAC 1 cut(s) 169
Tsp45I GTSAC 1 cut(s) 169
TspDTI ATGAA 1 cut(s) 247
TspRI CASTG 1 cut(s) 355
XmiI GTMKAC 2 cut(s) 8, 492
XmnI GAANNNNTTC 1 cut(s) 48
XspI CTAG 5 cut(s) 95, 174, 288, 371, 560
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.