AT4G20390

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0012085
Physical Location & Seq
Forward (+)
11006815 .. 11008076
1262 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G20390.1

Sequence Viewer

Length: 594 bp
ATGGCCAGAGAGAAGATTGTGGTGGCTGGTGGTACCACAAAGAGCTGGAAACTACTCTTGGGGCTGAGAATATTTGCATTCATGGCTACTTTAGCTGCAGCCATTGTAATGTCACTAAACAAAGAGACAAAGACCTTGGTTGTGGCCACCATTGGTACTGTTCCTATTAAAGCCACTTTAACCGCTAAGTTTCAGCACACACCGGCTTTTGTGTTCTTTGTTATAGCTAATGTAATGGTGAGCTTCCACAACTTGTTGATGATTGTGGTTCAGATTTTCAGCCGGAAACTGGAGTACAAAGGTCTTCGTCTCCTCTCTATCGCCATTCTTGACATGCTAAACGCAACACTAGTATCTGCGGCTGCAAACGCGGCGGTGTTCGTGGCAGAGCTAGGGAAGAACGGAAACAAGCACGCCAAGTGGAACAAAGTCTGCGACAGGTTCACCACTTACTGTGATCACGGCGCAGGAGCAATCATCGCAGCATTCGCCGGAGTCATTCTAATGCTCCTCGTGTCCGCCGTCTCTATTTCCCGCCTCTTAATCAATTCTAAAAACTTCTCCACCACCGCCACCACAACCTCCGTCGTCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0044464 GO:0048037 GO:0051536 GO:0051540 GO:0071944
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF588

Protein Analysis

197

Amino Acids

21.15

Weight (kDa)

10.22

Isoelectric Point (pI)

19.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 15 - 168 1.7e-39 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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Orthologous Genes (Group: OG0012085)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20390 AT5G44550
fragaria_vesca FvH4_3g11410
malus_domestica MD05G1263600.v1.1 MD10G1241300.v1.1
prunus_persica Prupe.4G101900_v2.0.a1
pyrus_communis pycom05g24760 pycom10g20230
rosa_chinensis RchiOBHm_Chr5g0018351
rosa_laevigata RLG00000032354
rosa_multiflora Rmu_sc0019610.1_g000001 Rmu_sc0029003.1_g000002
rosa_roxburghii Rroxscaffold_1G00059390
rosa_rugosa Rorug05G0041700.1
rosa_samantha Rh5AG135000 Rh5BG133600 Rh5CG145400 Rh5DG135000
rosa_wichuraiana Rw5G011790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 32
AccB1I GGYRCC 1 cut(s) 32
AccII CGCG 1 cut(s) 371
AciI CCGC 7 cut(s) 183, 359, 371, 374, 519, 535, 570
AcoI YGGCCR 2 cut(s) 3, 144
AfaI GTAC 3 cut(s) 34, 157, 296
AfiI CCNNNNNNNGG 1 cut(s) 289
AhlI ACTAGT 1 cut(s) 349
AjuI GAANNNNNNNTTGG 2 cut(s) 41, 73
AluBI AGCT 5 cut(s) 45, 95, 227, 243, 391
AluI AGCT 5 cut(s) 45, 95, 227, 243, 391
Alw26I GTCTC 3 cut(s) 119, 314, 529
AoxI GGCC 2 cut(s) 3, 144
ApeKI GCWGC 4 cut(s) 95, 98, 362, 482
Asp718I GGTACC 1 cut(s) 32
AspLEI GCGC 1 cut(s) 467
AsuHPI GGTGA 2 cut(s) 250, 436
BaeI ACNNNNGTAYC 2 cut(s) 336, 369
BalI TGGCCA 2 cut(s) 5, 146
BanI GGYRCC 1 cut(s) 32
BauI CACGAG 1 cut(s) 512
BbsI GAAGAC 1 cut(s) 296
BbvI GCAGC 4 cut(s) 82, 110, 349, 494
BceAI ACGGC 2 cut(s) 478, 506
BclI TGATCA 1 cut(s) 457
BcoDI GTCTC 3 cut(s) 119, 314, 529
BcuI ACTAGT 1 cut(s) 349
BfaI CTAG 2 cut(s) 350, 392
BfmI CTRYAG 1 cut(s) 96
BisI GCNGC 6 cut(s) 96, 99, 360, 363, 372, 483
BlsI GCNGC 6 cut(s) 97, 100, 361, 364, 373, 484
BmiI GGNNCC 1 cut(s) 34
BpiI GAAGAC 1 cut(s) 296
BpmI CTGGAG 1 cut(s) 311
BsaJI CCNNGG 1 cut(s) 135
Bsc4I CCNNNNNNNGG 1 cut(s) 289
Bse118I RCCGGY 1 cut(s) 202
Bse1I ACTGG 1 cut(s) 294
BseDI CCNNGG 1 cut(s) 135
BseLI CCNNNNNNNGG 1 cut(s) 289
BseMII CTCAG 1 cut(s) 56
BseNI ACTGG 1 cut(s) 294
BseRI GAGGAG 2 cut(s) 302, 500
BseXI GCAGC 4 cut(s) 82, 110, 349, 494
Bsh1236I CGCG 1 cut(s) 371
BshFI GGCC 2 cut(s) 5, 146
BshNI GGYRCC 1 cut(s) 32
BsiSI CCGG 3 cut(s) 203, 283, 492
BslI CCNNNNNNNGG 1 cut(s) 289
BsmAI GTCTC 3 cut(s) 119, 314, 529
BsmBI CGTCTC 2 cut(s) 314, 529
BsmI GAATGC 2 cut(s) 77, 485
BsnI GGCC 2 cut(s) 5, 146
Bsp143I GATC 1 cut(s) 457
BspACI CCGC 7 cut(s) 183, 359, 371, 374, 519, 535, 570
BspANI GGCC 2 cut(s) 5, 146
BspCNI CTCAG 1 cut(s) 57
BspFNI CGCG 1 cut(s) 371
BspLI GGNNCC 1 cut(s) 34
BspMAI CTGCAG 1 cut(s) 100
BspT107I GGYRCC 1 cut(s) 32
BsrFI RCCGGY 1 cut(s) 202
BsrI ACTGG 1 cut(s) 294
BssAI RCCGGY 1 cut(s) 202
BssECI CCNNGG 1 cut(s) 135
BssMI GATC 1 cut(s) 457
BssSI CACGAG 1 cut(s) 512
BssT1I CCWWGG 1 cut(s) 135
Bst2BI CACGAG 1 cut(s) 512
Bst4CI ACNGT 2 cut(s) 160, 455
BstC8I GCNNGC 1 cut(s) 414
BstDEI CTNAG 2 cut(s) 65, 186
BstFNI CGCG 1 cut(s) 371
BstHHI GCGC 1 cut(s) 467
BstKTI GATC 1 cut(s) 460
BstMAI GTCTC 3 cut(s) 119, 314, 529
BstMBI GATC 1 cut(s) 457
BstMWI GCNNNNNNNGC 6 cut(s) 83, 92, 368, 371, 479, 488
BstNSI RCATGY 1 cut(s) 337
BstSFI CTRYAG 1 cut(s) 96
BstUI CGCG 1 cut(s) 371
BstV1I GCAGC 4 cut(s) 82, 110, 349, 494
BstV2I GAAGAC 1 cut(s) 296
BsuRI GGCC 2 cut(s) 5, 146
BtgZI GCGATG 1 cut(s) 463
Cac8I GCNNGC 1 cut(s) 414
CfoI GCGC 1 cut(s) 467
Cfr10I RCCGGY 1 cut(s) 202
Csp6I GTAC 3 cut(s) 33, 156, 295
CviAII CATG 2 cut(s) 82, 334
CviQI GTAC 3 cut(s) 33, 156, 295
DdeI CTNAG 2 cut(s) 65, 186
DpnI GATC 1 cut(s) 459
DpnII GATC 1 cut(s) 457
EaeI YGGCCR 2 cut(s) 3, 144
EciI GGCGGA 1 cut(s) 508
Eco130I CCWWGG 1 cut(s) 135
EcoT14I CCWWGG 1 cut(s) 135
ErhI CCWWGG 1 cut(s) 135
Esp3I CGTCTC 2 cut(s) 314, 529
FaeI CATG 2 cut(s) 85, 337
FaiI YATR 3 cut(s) 83, 224, 335
FatI CATG 2 cut(s) 81, 333
FauI CCCGC 1 cut(s) 542
FbaI TGATCA 1 cut(s) 457
Fnu4HI GCNGC 6 cut(s) 96, 99, 360, 363, 372, 483
Fsp4HI GCNGC 6 cut(s) 96, 99, 360, 363, 372, 483
FspBI CTAG 2 cut(s) 350, 392
GlaI GCGC 1 cut(s) 466
GluI GCNGC 6 cut(s) 96, 99, 360, 363, 372, 483
GsuI CTGGAG 1 cut(s) 311
HaeIII GGCC 2 cut(s) 5, 146
HapII CCGG 3 cut(s) 203, 283, 492
HhaI GCGC 1 cut(s) 467
Hin1II CATG 2 cut(s) 85, 337
Hin6I GCGC 1 cut(s) 465
HinP1I GCGC 1 cut(s) 465
HinfI GANTC 1 cut(s) 495
HpaII CCGG 3 cut(s) 203, 283, 492
HphI GGTGA 2 cut(s) 250, 436
Hpy166II GTNNAC 1 cut(s) 444
Hpy188I TCNGA 1 cut(s) 273
Hpy188III TCNNGA 1 cut(s) 329
Hpy8I GTNNAC 1 cut(s) 444
Hpy99I CGWCG 1 cut(s) 590
HpyCH4III ACNGT 2 cut(s) 160, 455
HpyCH4V TGCA 3 cut(s) 77, 98, 365
HpyF10VI GCNNNNNNNGC 6 cut(s) 83, 92, 368, 371, 479, 488
HpyF3I CTNAG 2 cut(s) 65, 186
Hsp92II CATG 2 cut(s) 85, 337
HspAI GCGC 1 cut(s) 465
KpnI GGTACC 1 cut(s) 36
Ksp22I TGATCA 1 cut(s) 457
Kzo9I GATC 1 cut(s) 457
LmnI GCTCC 2 cut(s) 470, 513
LpnPI CCDG 9 cut(s) 12, 19, 31, 216, 275, 296, 424, 453, 505
Lsp1109I GCAGC 4 cut(s) 82, 110, 349, 494
MaeI CTAG 2 cut(s) 350, 392
MaeIII GTNAC 1 cut(s) 111
MalI GATC 1 cut(s) 459
MboI GATC 1 cut(s) 457
MboII GAAGA 3 cut(s) 25, 296, 409
MlsI TGGCCA 2 cut(s) 5, 146
MluCI AATT 1 cut(s) 547
MluNI TGGCCA 2 cut(s) 5, 146
MlyI GAGTC 1 cut(s) 504
MnlI CCTC 4 cut(s) 323, 521, 548, 592
Mox20I TGGCCA 2 cut(s) 5, 146
MscI TGGCCA 2 cut(s) 5, 146
MseI TTAA 3 cut(s) 168, 179, 542
MslI CAYNNNNRTG 2 cut(s) 107, 503
Msp20I TGGCCA 2 cut(s) 5, 146
MspI CCGG 3 cut(s) 203, 283, 492
Mva1269I GAATGC 2 cut(s) 77, 485
MvnI CGCG 1 cut(s) 371
MwoI GCNNNNNNNGC 6 cut(s) 83, 92, 368, 371, 479, 488
NdeII GATC 1 cut(s) 457
NlaIII CATG 2 cut(s) 85, 337
NlaIV GGNNCC 1 cut(s) 34
NmuCI GTSAC 1 cut(s) 111
NspI RCATGY 1 cut(s) 337
PcsI WCGNNNNNNNCGW 1 cut(s) 519
PctI GAATGC 2 cut(s) 77, 485
PkrI GCNGC 6 cut(s) 97, 100, 361, 364, 373, 484
PleI GAGTC 1 cut(s) 503
PpsI GAGTC 1 cut(s) 503
PspN4I GGNNCC 1 cut(s) 34
PstI CTGCAG 1 cut(s) 100
RsaI GTAC 3 cut(s) 34, 157, 296
RsaNI GTAC 3 cut(s) 33, 156, 295
RseI CAYNNNNRTG 2 cut(s) 107, 503
SaqAI TTAA 3 cut(s) 168, 179, 542
SatI GCNGC 6 cut(s) 96, 99, 360, 363, 372, 483
Sau3AI GATC 1 cut(s) 457
SchI GAGTC 1 cut(s) 504
SetI ASST 9 cut(s) 47, 97, 137, 229, 245, 304, 393, 443, 584
SfcI CTRYAG 1 cut(s) 96
SmiMI CAYNNNNRTG 2 cut(s) 107, 503
SpeI ACTAGT 1 cut(s) 349
Sse9I AATT 1 cut(s) 547
SsiI CCGC 7 cut(s) 183, 359, 371, 374, 519, 535, 570
SspI AATATT 1 cut(s) 72
SspMI CTAG 2 cut(s) 350, 392
StyI CCWWGG 1 cut(s) 135
TaaI ACNGT 2 cut(s) 160, 455
TasI AATT 1 cut(s) 547
TatI WGTACW 1 cut(s) 294
TauI GCSGC 2 cut(s) 362, 374
Tru1I TTAA 3 cut(s) 168, 179, 542
Tru9I TTAA 3 cut(s) 168, 179, 542
TseFI GTSAC 1 cut(s) 111
TseI GCWGC 4 cut(s) 95, 98, 362, 482
Tsp45I GTSAC 1 cut(s) 111
TspDTI ATGAA 1 cut(s) 70
TspGWI ACGGA 2 cut(s) 417, 574
XceI RCATGY 1 cut(s) 337
XspI CTAG 2 cut(s) 350, 392
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.