AT2G39530

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0004142
Physical Location & Seq
Reverse (-)
16498364 .. 16499524
1161 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G39530.1

Sequence Viewer

Length: 537 bp
ATGGCTCCACCACCTCCGGCACCACCGTCCGTTACGTTGAGGACAGTGCTCCTTCTCCTTAGGGTTTTGACCGCGGCTTTCCTCCTCATAACGGTGGTCCTCATCAGCACCAACACCGTCACTCTCGAAATTTCAAGCACGTCTATCAAATTGCCTTTCAACGATGTCTATGCTTATAGATACATGCTGTCCGCTGCCGTCATCGGACTAGTTTACGCCGTTGTACAACTGTTCTTAACAATCTCCCAATTTGCCACCGGAAAAACACATCCTCTTACTTATCAGTTCGATTTCTACGGTGATAAGGTAATATCATATTTACTTGCAACGGGTTCGGCGGCAGGATTTGGAGTGAGCAAAGATTTGAAAGACACATACATAGCATTAATAGAATTTGATTCGACTGATCCAGTGGATAAGTTCTTTAGTAAAGGATATGCATCGGCCAGTCTTCTTCTCTTCGCATTCGTCTCTCTTGCCGTTTTATCCGTTTTCTCATCCCTTGCTCTTTCCAAACGACCAGTTCCAGTCTCATAA
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

178

Amino Acids

19.2

Weight (kDa)

8.8

Isoelectric Point (pI)

35.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 13 - 157 1.4e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 19
AccII CGCG 1 cut(s) 74
AciI CCGC 4 cut(s) 72, 74, 192, 338
AclWI GGATC 1 cut(s) 401
AcoI YGGCCR 1 cut(s) 444
AcsI RAATTY 2 cut(s) 129, 392
AfaI GTAC 1 cut(s) 225
AfiI CCNNNNNNNGG 1 cut(s) 91
AgsI TTSAA 3 cut(s) 135, 160, 367
AhlI ACTAGT 1 cut(s) 208
AjiI CACGTC 1 cut(s) 141
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 1 cut(s) 475
AlwI GGATC 1 cut(s) 401
AoxI GGCC 1 cut(s) 444
ApeKI GCWGC 1 cut(s) 194
ApoI RAATTY 2 cut(s) 129, 392
AseI ATTAAT 1 cut(s) 386
AspS9I GGNCC 1 cut(s) 97
AsuHPI GGTGA 1 cut(s) 311
AvaII GGWCC 1 cut(s) 97
AxyI CCTNAGG 1 cut(s) 59
BanI GGYRCC 1 cut(s) 19
BbsI GAAGAC 1 cut(s) 443
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 1 cut(s) 181
BceAI ACGGC 3 cut(s) 182, 203, 464
BcgI CGANNNNNNTGC 4 cut(s) 152, 186, 315, 349
BcoDI GTCTC 1 cut(s) 475
BcuI ACTAGT 1 cut(s) 208
BfaI CTAG 1 cut(s) 209
BisI GCNGC 3 cut(s) 75, 195, 339
BlsI GCNGC 3 cut(s) 76, 196, 340
Bme18I GGWCC 1 cut(s) 97
BmgBI CACGTC 1 cut(s) 141
BmgT120I GGNCC 1 cut(s) 97
BmiI GGNNCC 2 cut(s) 6, 21
BmsI GCATC 1 cut(s) 449
BpiI GAAGAC 1 cut(s) 443
BsaBI GATNNNNATC 1 cut(s) 439
BsaJI CCNNGG 1 cut(s) 72
BsaWI WCCGGW 1 cut(s) 257
Bsc4I CCNNNNNNNGG 1 cut(s) 91
Bse1I ACTGG 4 cut(s) 410, 447, 521, 527
Bse21I CCTNAGG 1 cut(s) 59
Bse8I GATNNNNATC 1 cut(s) 439
BseDI CCNNGG 1 cut(s) 72
BseGI GGATG 2 cut(s) 268, 497
BseJI GATNNNNATC 1 cut(s) 439
BseLI CCNNNNNNNGG 1 cut(s) 91
BseNI ACTGG 4 cut(s) 410, 447, 521, 527
BseRI GAGGAG 1 cut(s) 74
BseXI GCAGC 1 cut(s) 181
Bsh1236I CGCG 1 cut(s) 74
BshFI GGCC 1 cut(s) 446
BshNI GGYRCC 1 cut(s) 19
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 2 cut(s) 17, 258
BslI CCNNNNNNNGG 1 cut(s) 91
BsmAI GTCTC 1 cut(s) 475
BsmBI CGTCTC 1 cut(s) 475
BsmI GAATGC 1 cut(s) 464
BsnI GGCC 1 cut(s) 446
Bsp1286I GDGCHC 1 cut(s) 51
Bsp1407I TGTACA 1 cut(s) 223
Bsp143I GATC 1 cut(s) 406
BspACI CCGC 4 cut(s) 72, 74, 192, 338
BspANI GGCC 1 cut(s) 446
BspFNI CGCG 1 cut(s) 74
BspLI GGNNCC 2 cut(s) 6, 21
BspPI GGATC 1 cut(s) 401
BspT107I GGYRCC 1 cut(s) 19
BsrGI TGTACA 1 cut(s) 223
BsrI ACTGG 4 cut(s) 410, 447, 521, 527
BssECI CCNNGG 1 cut(s) 72
BssMI GATC 1 cut(s) 406
Bst4CI ACNGT 6 cut(s) 27, 46, 94, 118, 231, 299
Bst6I CTCTTC 1 cut(s) 464
BstAUI TGTACA 1 cut(s) 223
BstDEI CTNAG 1 cut(s) 59
BstDSI CCRYGG 1 cut(s) 72
BstF5I GGATG 2 cut(s) 268, 497
BstFNI CGCG 1 cut(s) 74
BstKTI GATC 1 cut(s) 409
BstMAI GTCTC 1 cut(s) 475
BstMBI GATC 1 cut(s) 406
BstNSI RCATGY 1 cut(s) 187
BstUI CGCG 1 cut(s) 74
BstV1I GCAGC 1 cut(s) 181
BstV2I GAAGAC 1 cut(s) 443
Bsu36I CCTNAGG 1 cut(s) 59
BsuRI GGCC 1 cut(s) 446
BtgI CCRYGG 1 cut(s) 72
BtrI CACGTC 1 cut(s) 141
BtsCI GGATG 2 cut(s) 268, 497
BtsIMutI CAGTG 2 cut(s) 51, 417
Cfr13I GGNCC 1 cut(s) 97
Cfr42I CCGCGG 1 cut(s) 75
Csp6I GTAC 1 cut(s) 224
CviAII CATG 1 cut(s) 184
CviJI RGCY 3 cut(s) 5, 77, 446
CviKI_1 RGCY 3 cut(s) 5, 77, 446
CviQI GTAC 1 cut(s) 224
DdeI CTNAG 1 cut(s) 59
DpnI GATC 1 cut(s) 408
DpnII GATC 1 cut(s) 406
EaeI YGGCCR 1 cut(s) 444
Eam1104I CTCTTC 1 cut(s) 464
EarI CTCTTC 1 cut(s) 464
Eco47I GGWCC 1 cut(s) 97
Eco81I CCTNAGG 1 cut(s) 59
EcoT22I ATGCAT 1 cut(s) 442
Esp3I CGTCTC 1 cut(s) 475
FaeI CATG 1 cut(s) 187
FaiI YATR 9 cut(s) 89, 171, 177, 185, 316, 376, 380, 438, 535
FatI CATG 1 cut(s) 183
Fnu4HI GCNGC 3 cut(s) 75, 195, 339
FokI GGATG 2 cut(s) 255, 484
Fsp4HI GCNGC 3 cut(s) 75, 195, 339
FspBI CTAG 1 cut(s) 209
GluI GCNGC 3 cut(s) 75, 195, 339
HaeIII GGCC 1 cut(s) 446
HapII CCGG 2 cut(s) 17, 258
Hin1II CATG 1 cut(s) 187
HinfI GANTC 1 cut(s) 398
HpaII CCGG 2 cut(s) 17, 258
HphI GGTGA 1 cut(s) 311
Hpy166II GTNNAC 1 cut(s) 214
Hpy188I TCNGA 1 cut(s) 206
Hpy188III TCNNGA 1 cut(s) 125
Hpy8I GTNNAC 1 cut(s) 214
HpyAV CCTTC 1 cut(s) 62
HpyCH4III ACNGT 6 cut(s) 27, 46, 94, 118, 231, 299
HpyCH4IV ACGT 2 cut(s) 35, 140
HpyCH4V TGCA 2 cut(s) 326, 440
HpyF3I CTNAG 1 cut(s) 59
HpySE526I ACGT 2 cut(s) 35, 140
Hsp92II CATG 1 cut(s) 187
KspI CCGCGG 1 cut(s) 75
Kzo9I GATC 1 cut(s) 406
LmnI GCTCC 2 cut(s) 10, 54
LpnPI CCDG 5 cut(s) 30, 271, 327, 423, 460
Lsp1109I GCAGC 1 cut(s) 181
LweI GCATC 1 cut(s) 449
MaeI CTAG 1 cut(s) 209
MaeII ACGT 2 cut(s) 35, 140
MaeIII GTNAC 2 cut(s) 31, 118
MalI GATC 1 cut(s) 408
MboI GATC 1 cut(s) 406
MboII GAAGA 3 cut(s) 443, 446, 451
MhlI GDGCHC 1 cut(s) 51
MluCI AATT 4 cut(s) 129, 149, 248, 392
MnlI CCTC 6 cut(s) 24, 33, 92, 95, 110, 282
Mph1103I ATGCAT 1 cut(s) 442
MseI TTAA 2 cut(s) 236, 386
MslI CAYNNNNRTG 1 cut(s) 92
MspA1I CMGCKG 2 cut(s) 74, 194
MspI CCGG 2 cut(s) 17, 258
Mva1269I GAATGC 1 cut(s) 464
MvnI CGCG 1 cut(s) 74
NdeII GATC 1 cut(s) 406
NlaIII CATG 1 cut(s) 187
NlaIV GGNNCC 2 cut(s) 6, 21
NmuCI GTSAC 1 cut(s) 118
NsiI ATGCAT 1 cut(s) 442
NspI RCATGY 1 cut(s) 187
PctI GAATGC 1 cut(s) 464
PfeI GAWTC 1 cut(s) 398
PkrI GCNGC 3 cut(s) 76, 196, 340
PshBI ATTAAT 1 cut(s) 386
PspN4I GGNNCC 2 cut(s) 6, 21
PspPI GGNCC 1 cut(s) 97
RsaI GTAC 1 cut(s) 225
RsaNI GTAC 1 cut(s) 224
RseI CAYNNNNRTG 1 cut(s) 92
SacII CCGCGG 1 cut(s) 75
SaqAI TTAA 2 cut(s) 236, 386
SatI GCNGC 3 cut(s) 75, 195, 339
Sau3AI GATC 1 cut(s) 406
Sau96I GGNCC 1 cut(s) 97
SduI GDGCHC 1 cut(s) 51
SetI ASST 4 cut(s) 16, 38, 143, 309
SfaNI GCATC 1 cut(s) 449
Sfr303I CCGCGG 1 cut(s) 75
SgrBI CCGCGG 1 cut(s) 75
SinI GGWCC 1 cut(s) 97
SmiMI CAYNNNNRTG 1 cut(s) 92
SpeI ACTAGT 1 cut(s) 208
Sse9I AATT 4 cut(s) 129, 149, 248, 392
SsiI CCGC 4 cut(s) 72, 74, 192, 338
SspMI CTAG 1 cut(s) 209
TaaI ACNGT 6 cut(s) 27, 46, 94, 118, 231, 299
TaiI ACGT 2 cut(s) 38, 143
TaqI TCGA 3 cut(s) 126, 288, 401
TasI AATT 4 cut(s) 129, 149, 248, 392
TatI WGTACW 1 cut(s) 223
TauI GCSGC 2 cut(s) 77, 341
TfiI GAWTC 1 cut(s) 398
Tru1I TTAA 2 cut(s) 236, 386
Tru9I TTAA 2 cut(s) 236, 386
TscAI CASTG 2 cut(s) 51, 417
TseFI GTSAC 1 cut(s) 118
TseI GCWGC 1 cut(s) 194
Tsp45I GTSAC 1 cut(s) 118
TspGWI ACGGA 2 cut(s) 19, 478
TspRI CASTG 2 cut(s) 51, 417
VpaK11BI GGWCC 1 cut(s) 97
VspI ATTAAT 1 cut(s) 386
XapI RAATTY 2 cut(s) 129, 392
XceI RCATGY 1 cut(s) 187
XspI CTAG 1 cut(s) 209
Zsp2I ATGCAT 1 cut(s) 442
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.