Rw3G009260

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0012275
Physical Location & Seq
Reverse (-)
8853369 .. 8854820
1452 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G009260.1

Sequence Viewer

Length: 708 bp
ATGACGACGAATCAAGACGACGCGTCGCAGAATCATGACCAGCAACAACAAAAACAATCCCCGCCGGTTGTCCCCACGGCTCCACCGGCTGCTGCTGACGTGGAGAGCCAGACGGAGCCGGCACCGGCCCGGGCCCGGGCGGCTGGGAGCGGGTTCGGGGTGGCAGGGATCATACGGCGGTGGAAGAGAGATGACTTGTTGAGGAAAGGCTCTCTGGCGTTGAGAGGACTGTCCTTGGTCTTCTCTTTGCTGGCTTTCATCATCATGGCCAGTAACAAACACGGCGATTGGAAGGACTTCGATAAATATGAAGAATACAGGTACATATTTCTAGTCAATATTGATTTTGTTGTCATCGATTTCATATTTTCAATTGTGGAAATTTGGTCTAGGTATCTGTTGGGAATAGCGATATTGGCGACGTTGTACACCGGCGCACAAGCTTTCAGAAACGCCACAGGGAAAGAGATGTTTCAGCGCCGGACGTCGGCTCTGGCCGACTTCATCGGAGATCAGATTATGGCATACCTTCTGATATCATCATCATCTTCGGCGATTCCGTTAACAAATAGGATGAGGGAATCACAAGACAACATCTTTACAGACGCCTCTGCATCTGCCATTAGTATGGCTTTTCTCGCTTTCGTTTCCCTTGCACTCTTGGCCCTCATTTCCGGACAGAAGTTATCTTCTCAGTCTTACATCTGA
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

235

Amino Acids

25.91

Weight (kDa)

6.74

Isoelectric Point (pI)

49.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 67 - 114 4.4e-07 Casparian strip membrane protein domain
CASP_dom PF04535 131 - 216 2.3e-14 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012275)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G38480
fragaria_vesca FvH4_6g10520
malus_domestica MD04G1167600.v1.1 MD12G1180900.v1.1
prunus_persica Prupe.6G285800_v2.0.a1 Prupe.6G285900_v2.0.a1
pyrus_communis pycom04g14880 pycom12g17050
rosa_chinensis RchiOBHm_Chr3g0461491
rosa_laevigata RLG00000024930
rosa_multiflora Rmu_sc0002677.1_g000004
rosa_roxburghii Rroxscaffold_6G00418240 Rroxscaffold_6G00418570
rosa_rugosa Rorug03G0051200.1
rosa_samantha Rh3AG108900 Rh3BG112600 Rh3CG114300 Rh3DG114400
rosa_wichuraiana Rw3G009260

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 488
AccB1I GGYRCC 1 cut(s) 121
AccBSI CCGCTC 1 cut(s) 150
AccII CGCG 1 cut(s) 23
AccIII TCCGGA 1 cut(s) 674
AciI CCGC 4 cut(s) 62, 140, 150, 178
AclWI GGATC 1 cut(s) 176
AcoI YGGCCR 2 cut(s) 267, 495
AcsI RAATTY 1 cut(s) 381
AcyI GRCGYC 2 cut(s) 485, 606
AfaI GTAC 2 cut(s) 323, 428
AfiI CCNNNNNNNGG 3 cut(s) 135, 136, 487
AflIII ACRYGT 1 cut(s) 21
AgsI TTSAA 1 cut(s) 372
AhdI GACNNNNNGTC 1 cut(s) 22
AjiI CACGTC 1 cut(s) 100
AluBI AGCT 1 cut(s) 443
AluI AGCT 1 cut(s) 443
AlwI GGATC 1 cut(s) 176
Ama87I CYCGRG 2 cut(s) 129, 135
Aor13HI TCCGGA 1 cut(s) 674
AoxI GGCC 5 cut(s) 126, 132, 267, 495, 663
ApaI GGGCCC 1 cut(s) 136
ApeKI GCWGC 2 cut(s) 89, 92
ApoI RAATTY 1 cut(s) 381
Asp700I GAANNNNTTC 1 cut(s) 296
AspLEI GCGC 2 cut(s) 437, 480
AspS9I GGNCC 4 cut(s) 127, 132, 133, 664
AsuC2I CCSGG 4 cut(s) 130, 131, 136, 137
AvaI CYCGRG 2 cut(s) 129, 135
BaeGI GKGCMC 1 cut(s) 136
BalI TGGCCA 1 cut(s) 269
BanI GGYRCC 1 cut(s) 121
BanII GRGCYC 1 cut(s) 136
BbsI GAAGAC 1 cut(s) 232
BbvI GCAGC 2 cut(s) 76, 79
BceAI ACGGC 3 cut(s) 93, 191, 298
BcnI CCSGG 4 cut(s) 130, 131, 136, 137
BfaI CTAG 2 cut(s) 332, 390
BfoI RGCGCY 1 cut(s) 481
BglI GCCNNNNNGGC 1 cut(s) 140
BisI GCNGC 3 cut(s) 90, 93, 141
BlsI GCNGC 3 cut(s) 91, 94, 142
Bme1390I CCNGG 4 cut(s) 130, 131, 136, 137
BmeRI GACNNNNNGTC 1 cut(s) 22
BmeT110I CYCGRG 2 cut(s) 129, 135
BmgBI CACGTC 1 cut(s) 100
BmgT120I GGNCC 4 cut(s) 127, 132, 133, 664
BmiI GGNNCC 4 cut(s) 81, 117, 123, 134
BmrFI CCNGG 4 cut(s) 130, 131, 136, 137
BmsI GCATC 1 cut(s) 623
BpiI GAAGAC 1 cut(s) 232
BpuMI CCSGG 4 cut(s) 130, 131, 136, 137
Bsa29I ATCGAT 1 cut(s) 357
BsaHI GRCGYC 2 cut(s) 485, 606
BsaJI CCNNGG 4 cut(s) 75, 129, 135, 234
BsaWI WCCGGW 1 cut(s) 674
Bsc4I CCNNNNNNNGG 3 cut(s) 135, 136, 487
Bse118I RCCGGY 5 cut(s) 64, 85, 118, 124, 431
Bse1I ACTGG 1 cut(s) 270
BseAI TCCGGA 1 cut(s) 674
BseCI ATCGAT 1 cut(s) 357
BseDI CCNNGG 4 cut(s) 75, 129, 135, 234
BseGI GGATG 1 cut(s) 579
BseLI CCNNNNNNNGG 3 cut(s) 135, 136, 487
BseMII CTCAG 1 cut(s) 707
BseNI ACTGG 1 cut(s) 270
BseSI GKGCMC 1 cut(s) 136
BseXI GCAGC 2 cut(s) 76, 79
BseYI CCCAGC 1 cut(s) 143
Bsh1236I CGCG 1 cut(s) 23
BshFI GGCC 5 cut(s) 128, 134, 269, 497, 665
BshNI GGYRCC 1 cut(s) 121
BshVI ATCGAT 1 cut(s) 357
BsiHKCI CYCGRG 2 cut(s) 129, 135
BsiSI CCGG 9 cut(s) 65, 86, 119, 125, 130, 136, 432, 481, 675
BslFI GGGAC 1 cut(s) 56
BslI CCNNNNNNNGG 3 cut(s) 135, 136, 487
BsmFI GGGAC 1 cut(s) 56
BsnI GGCC 5 cut(s) 128, 134, 269, 497, 665
BsoBI CYCGRG 2 cut(s) 129, 135
Bsp120I GGGCCC 1 cut(s) 132
Bsp1286I GDGCHC 1 cut(s) 136
Bsp13I TCCGGA 1 cut(s) 674
Bsp1407I TGTACA 1 cut(s) 426
Bsp143I GATC 2 cut(s) 168, 511
BspACI CCGC 4 cut(s) 62, 140, 150, 178
BspANI GGCC 5 cut(s) 128, 134, 269, 497, 665
BspCNI CTCAG 1 cut(s) 706
BspDI ATCGAT 1 cut(s) 357
BspEI TCCGGA 1 cut(s) 674
BspFNI CGCG 1 cut(s) 23
BspHI TCATGA 1 cut(s) 34
BspLI GGNNCC 4 cut(s) 81, 117, 123, 134
BspPI GGATC 1 cut(s) 176
BspT107I GGYRCC 1 cut(s) 121
BsrBI CCGCTC 1 cut(s) 150
BsrFI RCCGGY 5 cut(s) 64, 85, 118, 124, 431
BsrGI TGTACA 1 cut(s) 426
BsrI ACTGG 1 cut(s) 270
BssAI RCCGGY 5 cut(s) 64, 85, 118, 124, 431
BssECI CCNNGG 4 cut(s) 75, 129, 135, 234
BssMI GATC 2 cut(s) 168, 511
BssNI GRCGYC 2 cut(s) 485, 606
BssT1I CCWWGG 1 cut(s) 234
Bst4CI ACNGT 1 cut(s) 231
Bst6I CTCTTC 1 cut(s) 179
BstACI GRCGYC 2 cut(s) 485, 606
BstAUI TGTACA 1 cut(s) 426
BstC8I GCNNGC 2 cut(s) 120, 252
BstDEI CTNAG 1 cut(s) 693
BstDSI CCRYGG 1 cut(s) 75
BstF5I GGATG 1 cut(s) 579
BstFNI CGCG 1 cut(s) 23
BstH2I RGCGCY 1 cut(s) 481
BstHHI GCGC 2 cut(s) 437, 480
BstKTI GATC 2 cut(s) 171, 514
BstMBI GATC 2 cut(s) 168, 511
BstMWI GCNNNNNNNGC 5 cut(s) 86, 140, 416, 638, 662
BstSCI CCNGG 4 cut(s) 128, 129, 134, 135
BstSLI GKGCMC 1 cut(s) 136
BstUI CGCG 1 cut(s) 23
BstV1I GCAGC 2 cut(s) 76, 79
BstV2I GAAGAC 1 cut(s) 232
BstXI CCANNNNNNTGG 1 cut(s) 628
Bsu15I ATCGAT 1 cut(s) 357
BsuRI GGCC 5 cut(s) 128, 134, 269, 497, 665
BsuTUI ATCGAT 1 cut(s) 357
BtgI CCRYGG 1 cut(s) 75
BtrI CACGTC 1 cut(s) 100
BtsCI GGATG 1 cut(s) 579
Cac8I GCNNGC 2 cut(s) 120, 252
CciI TCATGA 1 cut(s) 34
CfoI GCGC 2 cut(s) 437, 480
Cfr10I RCCGGY 5 cut(s) 64, 85, 118, 124, 431
Cfr13I GGNCC 4 cut(s) 127, 132, 133, 664
Cfr9I CCCGGG 2 cut(s) 129, 135
ClaI ATCGAT 1 cut(s) 357
CseI GACGC 3 cut(s) 12, 29, 614
Csp6I GTAC 2 cut(s) 322, 427
CviAII CATG 2 cut(s) 35, 265
CviQI GTAC 2 cut(s) 322, 427
DdeI CTNAG 1 cut(s) 693
DpnI GATC 2 cut(s) 170, 513
DpnII GATC 2 cut(s) 168, 511
DriI GACNNNNNGTC 1 cut(s) 22
EaeI YGGCCR 2 cut(s) 267, 495
Eam1104I CTCTTC 1 cut(s) 179
Eam1105I GACNNNNNGTC 1 cut(s) 22
EarI CTCTTC 1 cut(s) 179
Eco130I CCWWGG 1 cut(s) 234
Eco24I GRGCYC 1 cut(s) 136
Eco32I GATATC 1 cut(s) 537
Eco88I CYCGRG 2 cut(s) 129, 135
EcoRV GATATC 1 cut(s) 537
EcoT14I CCWWGG 1 cut(s) 234
EcoT38I GRGCYC 1 cut(s) 136
ErhI CCWWGG 1 cut(s) 234
FaeI CATG 2 cut(s) 38, 268
FaiI YATR 9 cut(s) 36, 173, 266, 309, 326, 365, 521, 526, 629
FaqI GGGAC 1 cut(s) 56
FatI CATG 2 cut(s) 34, 264
FauI CCCGC 2 cut(s) 69, 143
Fnu4HI GCNGC 3 cut(s) 90, 93, 141
FokI GGATG 1 cut(s) 586
FriOI GRGCYC 1 cut(s) 136
Fsp4HI GCNGC 3 cut(s) 90, 93, 141
FspBI CTAG 2 cut(s) 332, 390
GlaI GCGC 2 cut(s) 436, 479
GluI GCNGC 3 cut(s) 90, 93, 141
GsaI CCCAGC 1 cut(s) 147
HaeII RGCGCY 1 cut(s) 481
HaeIII GGCC 5 cut(s) 128, 134, 269, 497, 665
HapII CCGG 9 cut(s) 65, 86, 119, 125, 130, 136, 432, 481, 675
HgaI GACGC 3 cut(s) 12, 29, 614
HhaI GCGC 2 cut(s) 437, 480
Hin1I GRCGYC 2 cut(s) 485, 606
Hin1II CATG 2 cut(s) 38, 268
Hin6I GCGC 2 cut(s) 435, 478
HinP1I GCGC 2 cut(s) 435, 478
HincII GTYRAC 1 cut(s) 564
HindII GTYRAC 1 cut(s) 564
HindIII AAGCTT 1 cut(s) 441
HinfI GANTC 4 cut(s) 10, 31, 556, 581
HpaI GTTAAC 1 cut(s) 564
HpaII CCGG 9 cut(s) 65, 86, 119, 125, 130, 136, 432, 481, 675
Hpy166II GTNNAC 2 cut(s) 429, 564
Hpy188I TCNGA 5 cut(s) 449, 509, 516, 534, 707
Hpy188III TCNNGA 3 cut(s) 14, 35, 675
Hpy8I GTNNAC 2 cut(s) 429, 564
Hpy99I CGWCG 5 cut(s) 10, 23, 28, 424, 490
HpyAV CCTTC 2 cut(s) 286, 539
HpyCH4III ACNGT 1 cut(s) 231
HpyCH4IV ACGT 3 cut(s) 99, 422, 485
HpyCH4V TGCA 2 cut(s) 614, 656
HpyF10VI GCNNNNNNNGC 5 cut(s) 86, 140, 416, 638, 662
HpyF3I CTNAG 1 cut(s) 693
HpySE526I ACGT 3 cut(s) 99, 422, 485
Hsp92I GRCGYC 2 cut(s) 485, 606
Hsp92II CATG 2 cut(s) 38, 268
HspAI GCGC 2 cut(s) 435, 478
Kpn2I TCCGGA 1 cut(s) 674
KroI GCCGGC 1 cut(s) 118
KroNI GCCGGC 1 cut(s) 120
KspAI GTTAAC 1 cut(s) 564
Kzo9I GATC 2 cut(s) 168, 511
LmnI GCTCC 3 cut(s) 85, 115, 147
Lsp1109I GCAGC 2 cut(s) 76, 79
LweI GCATC 1 cut(s) 623
MaeI CTAG 2 cut(s) 332, 390
MaeII ACGT 3 cut(s) 99, 422, 485
MaeIII GTNAC 1 cut(s) 272
MalI GATC 2 cut(s) 170, 513
MbiI CCGCTC 1 cut(s) 150
MboI GATC 2 cut(s) 168, 511
MboII GAAGA 5 cut(s) 196, 232, 323, 540, 681
MfeI CAATTG 1 cut(s) 372
MhlI GDGCHC 1 cut(s) 136
MlsI TGGCCA 1 cut(s) 269
MluCI AATT 2 cut(s) 372, 381
MluI ACGCGT 1 cut(s) 21
MluNI TGGCCA 1 cut(s) 269
MnlI CCTC 5 cut(s) 195, 218, 570, 619, 677
Mox20I TGGCCA 1 cut(s) 269
MroI TCCGGA 1 cut(s) 674
MroNI GCCGGC 1 cut(s) 118
MroXI GAANNNNTTC 1 cut(s) 296
MscI TGGCCA 1 cut(s) 269
MseI TTAA 1 cut(s) 563
MslI CAYNNNNRTG 2 cut(s) 263, 626
Msp20I TGGCCA 1 cut(s) 269
MspI CCGG 9 cut(s) 65, 86, 119, 125, 130, 136, 432, 481, 675
MspR9I CCNGG 4 cut(s) 130, 131, 136, 137
MunI CAATTG 1 cut(s) 372
MvnI CGCG 1 cut(s) 23
MwoI GCNNNNNNNGC 5 cut(s) 86, 140, 416, 638, 662
NaeI GCCGGC 1 cut(s) 120
NciI CCSGG 4 cut(s) 130, 131, 136, 137
NdeII GATC 2 cut(s) 168, 511
NgoMIV GCCGGC 1 cut(s) 118
NlaIII CATG 2 cut(s) 38, 268
NlaIV GGNNCC 4 cut(s) 81, 117, 123, 134
PagI TCATGA 1 cut(s) 34
PcsI WCGNNNNNNNCGW 1 cut(s) 557
PdiI GCCGGC 1 cut(s) 120
PdmI GAANNNNTTC 1 cut(s) 296
PfeI GAWTC 4 cut(s) 10, 31, 556, 581
PkrI GCNGC 3 cut(s) 91, 94, 142
PspFI CCCAGC 1 cut(s) 143
PspN4I GGNNCC 4 cut(s) 81, 117, 123, 134
PspOMI GGGCCC 1 cut(s) 132
PspPI GGNCC 4 cut(s) 127, 132, 133, 664
RsaI GTAC 2 cut(s) 323, 428
RsaNI GTAC 2 cut(s) 322, 427
RseI CAYNNNNRTG 2 cut(s) 263, 626
SaqAI TTAA 1 cut(s) 563
SatI GCNGC 3 cut(s) 90, 93, 141
Sau3AI GATC 2 cut(s) 168, 511
Sau96I GGNCC 4 cut(s) 127, 132, 133, 664
ScrFI CCNGG 4 cut(s) 130, 131, 136, 137
SduI GDGCHC 1 cut(s) 136
SetI ASST 7 cut(s) 102, 323, 395, 425, 445, 488, 531
SfaNI GCATC 1 cut(s) 623
SgrAI CRCCGGYG 1 cut(s) 431
SmaI CCCGGG 2 cut(s) 131, 137
SmiMI CAYNNNNRTG 2 cut(s) 263, 626
SrfI GCCCGGGC 2 cut(s) 131, 137
Sse9I AATT 2 cut(s) 372, 381
SsiI CCGC 4 cut(s) 62, 140, 150, 178
SspI AATATT 1 cut(s) 340
SspMI CTAG 2 cut(s) 332, 390
StyD4I CCNGG 4 cut(s) 128, 129, 134, 135
StyI CCWWGG 1 cut(s) 234
TaaI ACNGT 1 cut(s) 231
TaiI ACGT 3 cut(s) 102, 425, 488
TaqI TCGA 2 cut(s) 300, 357
TasI AATT 2 cut(s) 372, 381
TatI WGTACW 1 cut(s) 426
TauI GCSGC 1 cut(s) 143
TfiI GAWTC 4 cut(s) 10, 31, 556, 581
Tru1I TTAA 1 cut(s) 563
Tru9I TTAA 1 cut(s) 563
TseI GCWGC 2 cut(s) 89, 92
TspDTI ATGAA 4 cut(s) 247, 324, 352, 493
TspGWI ACGGA 2 cut(s) 128, 549
TspMI CCCGGG 2 cut(s) 129, 135
XapI RAATTY 1 cut(s) 381
XmaI CCCGGG 2 cut(s) 129, 135
XmnI GAANNNNTTC 1 cut(s) 296
XspI CTAG 2 cut(s) 332, 390
ZraI GACGTC 1 cut(s) 486
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.