AT3G55390

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0016116
Physical Location & Seq
Forward (+)
20534412 .. 20535685
1274 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G55390.1

Sequence Viewer

Length: 585 bp
ATGCGCTCGCCGCATGCTTTCCGTAACGGCGAATCTCCGACTTTACGGGACCATACTCACTTCCACTCAACCGTCACAGCTCAGAAACTCCGTCGATTCAACTCCTTAATCCTCCTCCTCCGTCTCGCTTCTTTCTCCTTCTCTCTCGCTTCCGCCGTCTTTATGCTCACCAATTCCCGCGGCTCCGCTTCTCCTCACTGGTACGATTTCGACGCTTTCAGATTCGTGTTTGTGGCAAACGCGATCGTGGCGTTATACTCGGTGTTTGAAATGGGAACTTGCGTTTGGGAATTTTCAAGAGAAACCACCTTATGGCCTGAAGCTTTTCAGGTCTGGTTCGATTTTGGCCATGACCAGGTGTTCTCGTACCTATTGCTATCGGCGGGATCGGCTGCAGCAGCATTGGCTAGAACGATGAGAGGTGGTGACACGTGTACGGCTAACAAAGCCTTTTGCTTGCAGTCAGATGTAGCCATTGGCTTAGGCTTTGCTGCTTTTCTATTCTTAGCTTTCTCTTCTTGCTTCTCTGGTTTTCGTGTAGCTTGTTTCCTTATTACTGGCTCTCGTTTTCACCTTTACTCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0048037 GO:0051536 GO:0051540
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF588

Protein Analysis

194

Amino Acids

21.69

Weight (kDa)

8.72

Isoelectric Point (pI)

38.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 33 - 168 4.9e-32 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: OG0016116)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G55390
fragaria_vesca FvH4_7g22070
malus_domestica MD01G1125700.v1.1
prunus_persica Prupe.2G232700_v2.0.a1
pyrus_communis pycom01g15150
rosa_chinensis RchiOBHm_Chr1g0366461
rosa_laevigata RLG00000027346
rosa_roxburghii Rroxscaffold_4G00289920 Rroxscaffold_4G00290180
rosa_rugosa Rorug01G0330000
rosa_samantha Rh1AG337900 Rh1BG299400 Rh1CG314500 Rh1DG331200
rosa_wichuraiana Rw1G029920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 312
AccII CGCG 2 cut(s) 180, 242
AciI CCGC 6 cut(s) 11, 153, 178, 180, 186, 383
AclWI GGATC 1 cut(s) 394
AcoI YGGCCR 1 cut(s) 346
AcsI RAATTY 1 cut(s) 290
AcuI CTGAAG 1 cut(s) 339
AcvI CACGTG 1 cut(s) 432
AfaI GTAC 3 cut(s) 203, 368, 436
AfiI CCNNNNNNNGG 2 cut(s) 312, 355
AflIII ACRYGT 2 cut(s) 429, 431
AgsI TTSAA 3 cut(s) 100, 269, 297
AjnI CCWGG 1 cut(s) 354
AjuI GAANNNNNNNTTGG 2 cut(s) 268, 300
AluBI AGCT 4 cut(s) 80, 323, 509, 542
AluI AGCT 4 cut(s) 80, 323, 509, 542
Alw26I GTCTC 1 cut(s) 128
AlwI GGATC 1 cut(s) 394
AoxI GGCC 2 cut(s) 314, 346
ApeKI GCWGC 4 cut(s) 392, 395, 398, 491
ApoI RAATTY 1 cut(s) 290
Asp700I GAANNNNTTC 1 cut(s) 324
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 1 cut(s) 49
AsuHPI GGTGA 3 cut(s) 160, 437, 563
AvaII GGWCC 1 cut(s) 49
BalI TGGCCA 1 cut(s) 348
BbrPI CACGTG 1 cut(s) 432
BbvI GCAGC 4 cut(s) 379, 407, 410, 478
BceAI ACGGC 3 cut(s) 43, 140, 453
BciT130I CCWGG 1 cut(s) 356
BcoDI GTCTC 1 cut(s) 128
BfaI CTAG 1 cut(s) 408
BfmI CTRYAG 1 cut(s) 393
BisI GCNGC 6 cut(s) 11, 181, 393, 396, 399, 492
BlsI GCNGC 6 cut(s) 12, 182, 394, 397, 400, 493
Bme1390I CCNGG 1 cut(s) 356
Bme18I GGWCC 1 cut(s) 49
BmgT120I GGNCC 1 cut(s) 49
BmiI GGNNCC 2 cut(s) 50, 184
BmrFI CCNGG 1 cut(s) 356
Bpu10I CCTNAGC 1 cut(s) 481
BsaAI YACGTR 1 cut(s) 432
BsaJI CCNNGG 1 cut(s) 178
Bsc4I CCNNNNNNNGG 2 cut(s) 312, 355
Bse1I ACTGG 2 cut(s) 203, 562
BseBI CCWGG 1 cut(s) 356
BseDI CCNNGG 1 cut(s) 178
BseLI CCNNNNNNNGG 2 cut(s) 312, 355
BseMII CTCAG 1 cut(s) 95
BseNI ACTGG 2 cut(s) 203, 562
BseRI GAGGAG 3 cut(s) 104, 107, 183
BseXI GCAGC 4 cut(s) 379, 407, 410, 478
Bsh1236I CGCG 2 cut(s) 180, 242
Bsh1285I CGRYCG 1 cut(s) 246
BshFI GGCC 2 cut(s) 316, 348
BsiEI CGRYCG 1 cut(s) 246
BslFI GGGAC 1 cut(s) 62
BslI CCNNNNNNNGG 2 cut(s) 312, 355
BsmAI GTCTC 1 cut(s) 128
BsmBI CGTCTC 1 cut(s) 128
BsmFI GGGAC 1 cut(s) 62
BsnI GGCC 2 cut(s) 316, 348
Bsp143I GATC 2 cut(s) 243, 386
BspACI CCGC 6 cut(s) 11, 153, 178, 180, 186, 383
BspANI GGCC 2 cut(s) 316, 348
BspCNI CTCAG 1 cut(s) 94
BspFNI CGCG 2 cut(s) 180, 242
BspHI TCATGA 1 cut(s) 581
BspLI GGNNCC 2 cut(s) 50, 184
BspMAI CTGCAG 1 cut(s) 397
BspPI GGATC 1 cut(s) 394
BsrI ACTGG 2 cut(s) 203, 562
BssECI CCNNGG 1 cut(s) 178
BssMI GATC 2 cut(s) 243, 386
Bst2UI CCWGG 1 cut(s) 356
Bst4CI ACNGT 1 cut(s) 73
Bst6I CTCTTC 1 cut(s) 520
BstBAI YACGTR 1 cut(s) 432
BstC8I GCNNGC 3 cut(s) 8, 15, 458
BstDEI CTNAG 3 cut(s) 81, 481, 505
BstDSI CCRYGG 1 cut(s) 178
BstFNI CGCG 2 cut(s) 180, 242
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 2 cut(s) 246, 389
BstMAI GTCTC 1 cut(s) 128
BstMBI GATC 2 cut(s) 243, 386
BstMCI CGRYCG 1 cut(s) 246
BstMWI GCNNNNNNNGC 6 cut(s) 10, 248, 389, 398, 404, 446
BstNI CCWGG 1 cut(s) 356
BstNSI RCATGY 1 cut(s) 17
BstSCI CCNGG 1 cut(s) 354
BstSFI CTRYAG 1 cut(s) 393
BstUI CGCG 2 cut(s) 180, 242
BstV1I GCAGC 4 cut(s) 379, 407, 410, 478
BsuRI GGCC 2 cut(s) 316, 348
BtgI CCRYGG 1 cut(s) 178
BtsIMutI CAGTG 1 cut(s) 196
Cac8I GCNNGC 3 cut(s) 8, 15, 458
CciI TCATGA 1 cut(s) 581
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 1 cut(s) 49
Cfr42I CCGCGG 1 cut(s) 181
CseI GACGC 1 cut(s) 221
CsiI ACCWGGT 1 cut(s) 354
Csp6I GTAC 3 cut(s) 202, 367, 435
CviAII CATG 3 cut(s) 14, 350, 582
CviQI GTAC 3 cut(s) 202, 367, 435
DdeI CTNAG 3 cut(s) 81, 481, 505
DpnI GATC 2 cut(s) 245, 388
DpnII GATC 2 cut(s) 243, 386
EaeI YGGCCR 1 cut(s) 346
Eam1104I CTCTTC 1 cut(s) 520
EarI CTCTTC 1 cut(s) 520
EciI GGCGGA 1 cut(s) 142
Eco47I GGWCC 1 cut(s) 49
Eco57I CTGAAG 1 cut(s) 339
Eco72I CACGTG 1 cut(s) 432
EcoRII CCWGG 1 cut(s) 354
Esp3I CGTCTC 1 cut(s) 128
FaeI CATG 3 cut(s) 17, 353, 585
FaiI YATR 7 cut(s) 15, 54, 164, 256, 313, 351, 583
FaqI GGGAC 1 cut(s) 62
FatI CATG 3 cut(s) 13, 349, 581
FauI CCCGC 2 cut(s) 185, 376
Fnu4HI GCNGC 6 cut(s) 11, 181, 393, 396, 399, 492
Fsp4HI GCNGC 6 cut(s) 11, 181, 393, 396, 399, 492
FspBI CTAG 1 cut(s) 408
GlaI GCGC 1 cut(s) 5
GluI GCNGC 6 cut(s) 11, 181, 393, 396, 399, 492
HaeIII GGCC 2 cut(s) 316, 348
HgaI GACGC 1 cut(s) 221
HhaI GCGC 1 cut(s) 6
Hin1II CATG 3 cut(s) 17, 353, 585
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HindIII AAGCTT 1 cut(s) 321
HinfI GANTC 3 cut(s) 32, 96, 222
HphI GGTGA 3 cut(s) 160, 437, 563
Hpy166II GTNNAC 1 cut(s) 435
Hpy188I TCNGA 4 cut(s) 39, 84, 221, 466
Hpy188III TCNNGA 2 cut(s) 297, 582
Hpy8I GTNNAC 1 cut(s) 435
Hpy99I CGWCG 2 cut(s) 96, 215
HpyAV CCTTC 1 cut(s) 148
HpyCH4III ACNGT 1 cut(s) 73
HpyCH4IV ACGT 1 cut(s) 431
HpyCH4V TGCA 2 cut(s) 395, 460
HpyF10VI GCNNNNNNNGC 6 cut(s) 10, 248, 389, 398, 404, 446
HpyF3I CTNAG 3 cut(s) 81, 481, 505
HpySE526I ACGT 1 cut(s) 431
Hsp92II CATG 3 cut(s) 17, 353, 585
HspAI GCGC 1 cut(s) 4
KspI CCGCGG 1 cut(s) 181
Kzo9I GATC 2 cut(s) 243, 386
LmnI GCTCC 1 cut(s) 188
LpnPI CCDG 8 cut(s) 184, 314, 319, 330, 341, 368, 513, 543
Lsp1109I GCAGC 4 cut(s) 379, 407, 410, 478
MabI ACCWGGT 1 cut(s) 354
MaeI CTAG 1 cut(s) 408
MaeII ACGT 1 cut(s) 431
MaeIII GTNAC 3 cut(s) 23, 73, 425
MalI GATC 2 cut(s) 245, 388
MboI GATC 2 cut(s) 243, 386
MboII GAAGA 1 cut(s) 507
MlsI TGGCCA 1 cut(s) 348
MluCI AATT 2 cut(s) 172, 290
MluNI TGGCCA 1 cut(s) 348
MmeI TCCRAC 1 cut(s) 62
MnlI CCTC 5 cut(s) 122, 125, 128, 204, 413
Mox20I TGGCCA 1 cut(s) 348
MroXI GAANNNNTTC 1 cut(s) 324
MscI TGGCCA 1 cut(s) 348
MseI TTAA 1 cut(s) 107
Msp20I TGGCCA 1 cut(s) 348
MspA1I CMGCKG 1 cut(s) 180
MspR9I CCNGG 1 cut(s) 356
MvaI CCWGG 1 cut(s) 356
MvnI CGCG 2 cut(s) 180, 242
MwoI GCNNNNNNNGC 6 cut(s) 10, 248, 389, 398, 404, 446
NdeII GATC 2 cut(s) 243, 386
NlaIII CATG 3 cut(s) 17, 353, 585
NlaIV GGNNCC 2 cut(s) 50, 184
NmuCI GTSAC 2 cut(s) 73, 425
NspI RCATGY 1 cut(s) 17
PaeI GCATGC 1 cut(s) 17
PagI TCATGA 1 cut(s) 581
PcsI WCGNNNNNNNCGW 1 cut(s) 153
PdmI GAANNNNTTC 1 cut(s) 324
PfeI GAWTC 3 cut(s) 32, 96, 222
PflMI CCANNNNNTGG 1 cut(s) 312
PkrI GCNGC 6 cut(s) 12, 182, 394, 397, 400, 493
Ple19I CGATCG 1 cut(s) 246
PmaCI CACGTG 1 cut(s) 432
PmlI CACGTG 1 cut(s) 432
Ppu21I YACGTR 1 cut(s) 432
Psp6I CCWGG 1 cut(s) 354
PspCI CACGTG 1 cut(s) 432
PspGI CCWGG 1 cut(s) 354
PspN4I GGNNCC 2 cut(s) 50, 184
PspPI GGNCC 1 cut(s) 49
PstI CTGCAG 1 cut(s) 397
PvuI CGATCG 1 cut(s) 246
RsaI GTAC 3 cut(s) 203, 368, 436
RsaNI GTAC 3 cut(s) 202, 367, 435
SacII CCGCGG 1 cut(s) 181
SaqAI TTAA 1 cut(s) 107
SatI GCNGC 6 cut(s) 11, 181, 393, 396, 399, 492
Sau3AI GATC 2 cut(s) 243, 386
Sau96I GGNCC 1 cut(s) 49
ScrFI CCNGG 1 cut(s) 356
SexAI ACCWGGT 1 cut(s) 354
SfcI CTRYAG 1 cut(s) 393
Sfr303I CCGCGG 1 cut(s) 181
SgrBI CCGCGG 1 cut(s) 181
SinI GGWCC 1 cut(s) 49
SphI GCATGC 1 cut(s) 17
Sse9I AATT 2 cut(s) 172, 290
SsiI CCGC 6 cut(s) 11, 153, 178, 180, 186, 383
SspMI CTAG 1 cut(s) 408
StyD4I CCNGG 1 cut(s) 354
TaaI ACNGT 1 cut(s) 73
TaiI ACGT 1 cut(s) 434
TaqI TCGA 3 cut(s) 94, 210, 339
TasI AATT 2 cut(s) 172, 290
TauI GCSGC 2 cut(s) 13, 183
TfiI GAWTC 3 cut(s) 32, 96, 222
Tru1I TTAA 1 cut(s) 107
Tru9I TTAA 1 cut(s) 107
TscAI CASTG 1 cut(s) 203
TseFI GTSAC 2 cut(s) 73, 425
TseI GCWGC 4 cut(s) 392, 395, 398, 491
Tsp45I GTSAC 2 cut(s) 73, 425
TspGWI ACGGA 3 cut(s) 11, 80, 110
TspRI CASTG 1 cut(s) 203
Van91I CCANNNNNTGG 1 cut(s) 312
VpaK11BI GGWCC 1 cut(s) 49
XapI RAATTY 1 cut(s) 290
XceI RCATGY 1 cut(s) 17
XmnI GAANNNNTTC 1 cut(s) 324
XspI CTAG 1 cut(s) 408
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.