AT3G53850

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0004667
Physical Location & Seq
Reverse (-)
19948093 .. 19949346
1254 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G53850.3

Sequence Viewer

Length: 465 bp
ATGAAGAAGCTTTTAGGAGGTCCGGGAACTGTGTGTGGTCTGTTACTGAGAATCGGACAATGTGCTTCAGCTGCTGCTTCAATCGGCGTTATGGTCTCTGCTAAAGAGTTCTCTGTTCACACTGCTTTTTGCTACTTGATTGCGTCAATGGGTCTTCAATTGTTGTGGAGCTTTGGGCTAGCATGTCTTGATGTTTATGCTCTCAGGGGAAAGAAAGATCTCCAAAACCCTATCTTGGTTAGCTTATTCGTCGTTGGTGATTGGGTGACGGCAATGTTATCTCTTGCAGCTGCATGTTCATCAGCAGGAGTTGTAGTCTTGTATGAAAAAGATATCAAGTATTGCAATACTCAAAGCCAATATCCATGTCTTAGGTATGAAGTAGCTGTAGCGCTTTCTTTCGTCACTTGGATCCAGATTGCTGTTTCTTCTCATGTCACATTTTGGATCTTAGCCTCGGTTTAG
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
DUF588

Protein Analysis

154

Amino Acids

16.53

Weight (kDa)

8.49

Isoelectric Point (pI)

29.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 8 - 125 5e-22 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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 3 cut(s) 406, 419, 455
AcuI CTGAAG 1 cut(s) 51
AfeI AGCGCT 1 cut(s) 393
AfiI CCNNNNNNNGG 1 cut(s) 235
AgsI TTSAA 2 cut(s) 81, 158
AluBI AGCT 6 cut(s) 10, 71, 171, 243, 290, 386
AluI AGCT 6 cut(s) 10, 71, 171, 243, 290, 386
Alw26I GTCTC 1 cut(s) 100
AlwI GGATC 3 cut(s) 406, 419, 455
AlwNI CAGNNNCTG 1 cut(s) 74
Aor51HI AGCGCT 1 cut(s) 393
ApeKI GCWGC 4 cut(s) 71, 74, 287, 290
AspLEI GCGC 1 cut(s) 394
AspS9I GGNCC 1 cut(s) 20
AsuC2I CCSGG 1 cut(s) 24
AsuHPI GGTGA 2 cut(s) 269, 277
AsuNHI GCTAGC 1 cut(s) 178
AvaII GGWCC 1 cut(s) 20
BamHI GGATCC 1 cut(s) 411
BbsI GAAGAC 1 cut(s) 146
BbvI GCAGC 4 cut(s) 58, 61, 277, 299
BceAI ACGGC 1 cut(s) 285
BcnI CCSGG 1 cut(s) 24
BcoDI GTCTC 1 cut(s) 100
BfaI CTAG 1 cut(s) 179
BfmI CTRYAG 1 cut(s) 387
BfoI RGCGCY 1 cut(s) 395
BglII AGATCT 1 cut(s) 217
BisI GCNGC 4 cut(s) 72, 75, 288, 291
BlsI GCNGC 4 cut(s) 73, 76, 289, 292
Bme1390I CCNGG 1 cut(s) 24
Bme18I GGWCC 1 cut(s) 20
BmgT120I GGNCC 1 cut(s) 20
BmiI GGNNCC 1 cut(s) 413
BmrFI CCNGG 1 cut(s) 24
BmtI GCTAGC 1 cut(s) 182
BpiI GAAGAC 1 cut(s) 146
BpuMI CCSGG 1 cut(s) 24
BsaI GGTCTC 1 cut(s) 100
BsaJI CCNNGG 1 cut(s) 456
BsaXI ACNNNNNCTCC 2 cut(s) 300, 330
Bsc4I CCNNNNNNNGG 1 cut(s) 235
Bse3DI GCAATG 1 cut(s) 279
BseDI CCNNGG 1 cut(s) 456
BseLI CCNNNNNNNGG 1 cut(s) 235
BseMI GCAATG 1 cut(s) 279
BseMII CTCAG 2 cut(s) 38, 217
BseXI GCAGC 4 cut(s) 58, 61, 277, 299
BsiSI CCGG 1 cut(s) 23
BslI CCNNNNNNNGG 1 cut(s) 235
BsmAI GTCTC 1 cut(s) 100
Bso31I GGTCTC 1 cut(s) 100
Bsp143I GATC 3 cut(s) 217, 411, 447
BspCNI CTCAG 2 cut(s) 39, 216
BspLI GGNNCC 1 cut(s) 413
BspOI GCTAGC 1 cut(s) 182
BspPI GGATC 3 cut(s) 406, 419, 455
BspTNI GGTCTC 1 cut(s) 100
BsrDI GCAATG 1 cut(s) 279
BssECI CCNNGG 1 cut(s) 456
BssMI GATC 3 cut(s) 217, 411, 447
Bst4CI ACNGT 1 cut(s) 31
BstC8I GCNNGC 1 cut(s) 180
BstDEI CTNAG 4 cut(s) 47, 203, 371, 451
BstH2I RGCGCY 1 cut(s) 395
BstHHI GCGC 1 cut(s) 394
BstKTI GATC 3 cut(s) 220, 414, 450
BstMAI GTCTC 1 cut(s) 100
BstMBI GATC 3 cut(s) 217, 411, 447
BstMWI GCNNNNNNNGC 1 cut(s) 71
BstNSI RCATGY 2 cut(s) 186, 297
BstSCI CCNGG 1 cut(s) 22
BstSFI CTRYAG 1 cut(s) 387
BstV1I GCAGC 4 cut(s) 58, 61, 277, 299
BstV2I GAAGAC 1 cut(s) 146
BstX2I RGATCY 3 cut(s) 217, 411, 447
BstYI RGATCY 3 cut(s) 217, 411, 447
BtsI GCAGTG 1 cut(s) 120
BtsIMutI CAGTG 1 cut(s) 120
Cac8I GCNNGC 1 cut(s) 180
CaiI CAGNNNCTG 1 cut(s) 74
CfoI GCGC 1 cut(s) 394
Cfr13I GGNCC 1 cut(s) 20
CseI GACGC 1 cut(s) 132
CspCI CAANNNNNGTGG 2 cut(s) 146, 181
CviAII CATG 4 cut(s) 183, 294, 366, 434
CviJI RGCY 9 cut(s) 10, 71, 171, 178, 243, 290, 357, 386, 455
CviKI_1 RGCY 9 cut(s) 10, 71, 171, 178, 243, 290, 357, 386, 455
DdeI CTNAG 4 cut(s) 47, 203, 371, 451
DpnI GATC 3 cut(s) 219, 413, 449
DpnII GATC 3 cut(s) 217, 411, 447
Eco31I GGTCTC 1 cut(s) 100
Eco32I GATATC 1 cut(s) 334
Eco47I GGWCC 1 cut(s) 20
Eco47III AGCGCT 1 cut(s) 393
Eco57I CTGAAG 1 cut(s) 51
EcoRV GATATC 1 cut(s) 334
FaeI CATG 4 cut(s) 186, 297, 369, 437
FaiI YATR 8 cut(s) 92, 184, 198, 295, 324, 367, 378, 435
FatI CATG 4 cut(s) 182, 293, 365, 433
Fnu4HI GCNGC 4 cut(s) 72, 75, 288, 291
Fsp4HI GCNGC 4 cut(s) 72, 75, 288, 291
FspBI CTAG 1 cut(s) 179
GlaI GCGC 1 cut(s) 393
GluI GCNGC 4 cut(s) 72, 75, 288, 291
HaeII RGCGCY 1 cut(s) 395
HapII CCGG 1 cut(s) 23
HgaI GACGC 1 cut(s) 132
HhaI GCGC 1 cut(s) 394
Hin1II CATG 4 cut(s) 186, 297, 369, 437
Hin6I GCGC 1 cut(s) 392
HinP1I GCGC 1 cut(s) 392
HindIII AAGCTT 1 cut(s) 8
HinfI GANTC 1 cut(s) 51
HpaII CCGG 1 cut(s) 23
HphI GGTGA 2 cut(s) 269, 277
Hpy166II GTNNAC 1 cut(s) 118
Hpy188I TCNGA 1 cut(s) 56
Hpy188III TCNNGA 2 cut(s) 188, 415
Hpy8I GTNNAC 1 cut(s) 118
Hpy99I CGWCG 1 cut(s) 254
HpyCH4III ACNGT 1 cut(s) 31
HpyCH4V TGCA 3 cut(s) 287, 293, 345
HpyF10VI GCNNNNNNNGC 1 cut(s) 71
HpyF3I CTNAG 4 cut(s) 47, 203, 371, 451
Hsp92II CATG 4 cut(s) 186, 297, 369, 437
HspAI GCGC 1 cut(s) 392
Kzo9I GATC 3 cut(s) 217, 411, 447
LmnI GCTCC 1 cut(s) 168
LpnPI CCDG 4 cut(s) 36, 190, 291, 428
Lsp1109I GCAGC 4 cut(s) 58, 61, 277, 299
MaeI CTAG 1 cut(s) 179
MaeIII GTNAC 4 cut(s) 42, 265, 403, 436
MalI GATC 3 cut(s) 219, 413, 449
MboI GATC 3 cut(s) 217, 411, 447
MboII GAAGA 3 cut(s) 16, 146, 420
MfeI CAATTG 1 cut(s) 158
MflI RGATCY 3 cut(s) 217, 411, 447
MluCI AATT 1 cut(s) 158
MnlI CCTC 1 cut(s) 11
MspA1I CMGCKG 2 cut(s) 71, 290
MspI CCGG 1 cut(s) 23
MspR9I CCNGG 1 cut(s) 24
MunI CAATTG 1 cut(s) 158
MwoI GCNNNNNNNGC 1 cut(s) 71
NciI CCSGG 1 cut(s) 24
NdeII GATC 3 cut(s) 217, 411, 447
NheI GCTAGC 1 cut(s) 178
NlaIII CATG 4 cut(s) 186, 297, 369, 437
NlaIV GGNNCC 1 cut(s) 413
NmuCI GTSAC 3 cut(s) 265, 403, 436
NspI RCATGY 2 cut(s) 186, 297
PfeI GAWTC 1 cut(s) 51
PfoI TCCNGGA 1 cut(s) 22
PkrI GCNGC 4 cut(s) 73, 76, 289, 292
PspN4I GGNNCC 1 cut(s) 413
PspPI GGNCC 1 cut(s) 20
PstNI CAGNNNCTG 1 cut(s) 74
PsuI RGATCY 3 cut(s) 217, 411, 447
PvuII CAGCTG 2 cut(s) 71, 290
SatI GCNGC 4 cut(s) 72, 75, 288, 291
Sau3AI GATC 3 cut(s) 217, 411, 447
Sau96I GGNCC 1 cut(s) 20
ScrFI CCNGG 1 cut(s) 24
SetI ASST 8 cut(s) 12, 22, 73, 173, 245, 292, 377, 388
SfcI CTRYAG 1 cut(s) 387
SinI GGWCC 1 cut(s) 20
Sse9I AATT 1 cut(s) 158
SspMI CTAG 1 cut(s) 179
StyD4I CCNGG 1 cut(s) 22
TaaI ACNGT 1 cut(s) 31
TasI AATT 1 cut(s) 158
TfiI GAWTC 1 cut(s) 51
TscAI CASTG 1 cut(s) 127
TseFI GTSAC 3 cut(s) 265, 403, 436
TseI GCWGC 4 cut(s) 71, 74, 287, 290
Tsp45I GTSAC 3 cut(s) 265, 403, 436
TspDTI ATGAA 4 cut(s) 17, 288, 339, 393
TspRI CASTG 1 cut(s) 127
VpaK11BI GGWCC 1 cut(s) 20
XceI RCATGY 2 cut(s) 186, 297
XspI CTAG 1 cut(s) 179
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.