Rh3AG152500

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0016548
Physical Location & Seq
Reverse (-)
13690123 .. 13693906
3784 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG152500.1

Sequence Viewer

Length: 540 bp
ATGAGCGTGAGCCGTCCGTCGGTCCACCCGGTGGAGGCTCCACCGCTGATTGACGTGGCGGCCCAGAACGGCCTCCGAGTCAGGATGAAGGACGTTCAGGGCATGCCCGGCACCGCCGGCGGCCTCGCTCTCCGTCTTTGCCAGCTCGTCTTCGCCGGAGTCTCGCTCGCCGTCATGGCCTCCACCAATGATTTTCCATCTGTCACTGCGTTTTGCTACCTTGTTGCTGCTGTGAGCTTGCAATGTGTGTGGAGCTTGTCACTGGCGATTGTTGATTTGTATGCGATTTCGGTGCGGCGGAGTCTGCGAAACTGCAAGGTTATTTGTTTCTTCGCCATTGGAGATGGGATCACATCCACTCTTACATTTGCTGCCGCATGCGCTTCTGCTGGAATTACTGTCCTCATTGCCAATGATCTTAATAGATGTGCTGTGAACCATTGCAAAAGGTTTGAATCTGCAACAGCTATGGCTTTTATCAGTTGGTTTGTTGTGTCACCATCCTTTCTTTTAAACTTTTGGTCGCTGGCTTCGCGGTGA
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

179

Amino Acids

19.07

Weight (kDa)

8.92

Isoelectric Point (pI)

40.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 36 - 164 2.4e-26 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: OG0016548)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G37200 AT2G37200
fragaria_vesca FvH4_6g15940
malus_domestica MD12G1118500.v1.1
prunus_persica Prupe.6G236400_v2.0.a1
pyrus_communis pycom12g11710
rosa_chinensis RchiOBHm_Chr3g0469641
rosa_multiflora Rmu_sc0006483.1_g000020
rosa_roxburghii Rroxscaffold_6G00411610
rosa_rugosa Rorug03G0102800
rosa_samantha Rh3AG152500 Rh3CG167300 Rh3DG199300
rosa_wichuraiana Rw3G014380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 110
AccB7I CCANNNNNTGG 1 cut(s) 31
AccII CGCG 1 cut(s) 535
AciI CCGC 8 cut(s) 44, 59, 114, 120, 295, 298, 375, 535
AclWI GGATC 1 cut(s) 356
AdeI CACNNNGTG 1 cut(s) 31
AfiI CCNNNNNNNGG 3 cut(s) 19, 31, 34
AgsI TTSAA 1 cut(s) 455
AjiI CACGTC 1 cut(s) 55
AluBI AGCT 4 cut(s) 145, 237, 255, 467
AluI AGCT 4 cut(s) 145, 237, 255, 467
Alw26I GTCTC 1 cut(s) 166
AlwI GGATC 1 cut(s) 356
AoxI GGCC 4 cut(s) 60, 70, 121, 177
ApeKI GCWGC 2 cut(s) 227, 371
AspLEI GCGC 1 cut(s) 383
AspS9I GGNCC 2 cut(s) 22, 61
AsuC2I CCSGG 2 cut(s) 29, 108
AsuHPI GGTGA 1 cut(s) 489
AvaII GGWCC 1 cut(s) 22
BanI GGYRCC 1 cut(s) 110
BbsI GAAGAC 1 cut(s) 142
BbvI GCAGC 2 cut(s) 214, 358
BccI CCATC 3 cut(s) 205, 338, 508
BceAI ACGGC 2 cut(s) 85, 155
BcgI CGANNNNNNTGC 2 cut(s) 274, 308
BcnI CCSGG 2 cut(s) 29, 108
BcoDI GTCTC 1 cut(s) 166
BglI GCCNNNNNGGC 1 cut(s) 176
BisI GCNGC 6 cut(s) 60, 121, 228, 296, 372, 375
BlsI GCNGC 6 cut(s) 61, 122, 229, 297, 373, 376
Bme1390I CCNGG 2 cut(s) 29, 108
Bme18I GGWCC 1 cut(s) 22
BmgBI CACGTC 1 cut(s) 55
BmgT120I GGNCC 2 cut(s) 22, 61
BmiI GGNNCC 2 cut(s) 39, 112
BmrFI CCNGG 2 cut(s) 29, 108
BpiI GAAGAC 1 cut(s) 142
BplI GAGNNNNNCTC 2 cut(s) 150, 182
BpuMI CCSGG 2 cut(s) 29, 108
Bsc4I CCNNNNNNNGG 3 cut(s) 19, 31, 34
Bse118I RCCGGY 1 cut(s) 116
Bse1I ACTGG 1 cut(s) 267
Bse3DI GCAATG 3 cut(s) 248, 405, 439
BseGI GGATG 3 cut(s) 90, 353, 500
BseLI CCNNNNNNNGG 3 cut(s) 19, 31, 34
BseMI GCAATG 3 cut(s) 248, 405, 439
BseNI ACTGG 1 cut(s) 267
BseXI GCAGC 2 cut(s) 214, 358
Bsh1236I CGCG 1 cut(s) 535
BshFI GGCC 4 cut(s) 62, 72, 123, 179
BshNI GGYRCC 1 cut(s) 110
BsiSI CCGG 4 cut(s) 29, 108, 117, 156
BslI CCNNNNNNNGG 3 cut(s) 19, 31, 34
BsmAI GTCTC 1 cut(s) 166
BsnI GGCC 4 cut(s) 62, 72, 123, 179
Bsp143I GATC 2 cut(s) 348, 415
BspACI CCGC 8 cut(s) 44, 59, 114, 120, 295, 298, 375, 535
BspANI GGCC 4 cut(s) 62, 72, 123, 179
BspFNI CGCG 1 cut(s) 535
BspLI GGNNCC 2 cut(s) 39, 112
BspPI GGATC 1 cut(s) 356
BspT107I GGYRCC 1 cut(s) 110
BsrDI GCAATG 3 cut(s) 248, 405, 439
BsrFI RCCGGY 1 cut(s) 116
BsrI ACTGG 1 cut(s) 267
BssAI RCCGGY 1 cut(s) 116
BssMI GATC 2 cut(s) 348, 415
Bst4CI ACNGT 1 cut(s) 400
BstC8I GCNNGC 7 cut(s) 104, 118, 143, 168, 239, 379, 528
BstF5I GGATG 3 cut(s) 90, 353, 500
BstFNI CGCG 1 cut(s) 535
BstHHI GCGC 1 cut(s) 383
BstKTI GATC 2 cut(s) 351, 418
BstMAI GTCTC 1 cut(s) 166
BstMBI GATC 2 cut(s) 348, 415
BstMWI GCNNNNNNNGC 6 cut(s) 108, 117, 176, 304, 380, 532
BstNSI RCATGY 2 cut(s) 106, 381
BstSCI CCNGG 2 cut(s) 27, 106
BstUI CGCG 1 cut(s) 535
BstV1I GCAGC 2 cut(s) 214, 358
BstV2I GAAGAC 1 cut(s) 142
BsuRI GGCC 4 cut(s) 62, 72, 123, 179
BtrI CACGTC 1 cut(s) 55
BtsCI GGATG 3 cut(s) 90, 353, 500
BtsI GCAGTG 1 cut(s) 204
BtsIMutI CAGTG 2 cut(s) 204, 260
Cac8I GCNNGC 7 cut(s) 104, 118, 143, 168, 239, 379, 528
CfoI GCGC 1 cut(s) 383
Cfr10I RCCGGY 1 cut(s) 116
Cfr13I GGNCC 2 cut(s) 22, 61
CspCI CAANNNNNGTGG 2 cut(s) 230, 265
CviAII CATG 3 cut(s) 103, 175, 378
DpnI GATC 2 cut(s) 350, 417
DpnII GATC 2 cut(s) 348, 415
DraI TTTAAA 1 cut(s) 513
DraIII CACNNNGTG 1 cut(s) 31
EciI GGCGGA 1 cut(s) 313
Eco47I GGWCC 1 cut(s) 22
FaeI CATG 3 cut(s) 106, 178, 381
FaiI YATR 5 cut(s) 104, 176, 282, 379, 470
FatI CATG 3 cut(s) 102, 174, 377
Fnu4HI GCNGC 6 cut(s) 60, 121, 228, 296, 372, 375
FokI GGATG 3 cut(s) 97, 340, 487
Fsp4HI GCNGC 6 cut(s) 60, 121, 228, 296, 372, 375
GlaI GCGC 1 cut(s) 382
GluI GCNGC 6 cut(s) 60, 121, 228, 296, 372, 375
HaeIII GGCC 4 cut(s) 62, 72, 123, 179
HapII CCGG 4 cut(s) 29, 108, 117, 156
HhaI GCGC 1 cut(s) 383
Hin1II CATG 3 cut(s) 106, 178, 381
Hin6I GCGC 1 cut(s) 381
HinP1I GCGC 1 cut(s) 381
HinfI GANTC 4 cut(s) 78, 159, 301, 455
HpaII CCGG 4 cut(s) 29, 108, 117, 156
HphI GGTGA 1 cut(s) 489
Hpy166II GTNNAC 2 cut(s) 25, 436
Hpy188I TCNGA 1 cut(s) 77
Hpy188III TCNNGA 1 cut(s) 82
Hpy8I GTNNAC 2 cut(s) 25, 436
Hpy99I CGWCG 1 cut(s) 22
HpyAV CCTTC 1 cut(s) 82
HpyCH4III ACNGT 1 cut(s) 400
HpyCH4IV ACGT 2 cut(s) 54, 93
HpyCH4V TGCA 4 cut(s) 241, 315, 444, 461
HpyF10VI GCNNNNNNNGC 6 cut(s) 108, 117, 176, 304, 380, 532
HpySE526I ACGT 2 cut(s) 54, 93
Hsp92II CATG 3 cut(s) 106, 178, 381
HspAI GCGC 1 cut(s) 381
KroI GCCGGC 1 cut(s) 116
KroNI GCCGGC 1 cut(s) 118
Kzo9I GATC 2 cut(s) 348, 415
LmnI GCTCC 2 cut(s) 43, 252
Lsp1109I GCAGC 2 cut(s) 214, 358
MaeII ACGT 2 cut(s) 54, 93
MaeIII GTNAC 3 cut(s) 202, 258, 495
MalI GATC 2 cut(s) 350, 417
MboI GATC 2 cut(s) 348, 415
MboII GAAGA 2 cut(s) 142, 322
MluCI AATT 1 cut(s) 393
MlyI GAGTC 3 cut(s) 87, 168, 310
MnlI CCTC 5 cut(s) 28, 83, 134, 190, 413
MreI CGCCGGCG 1 cut(s) 116
MroNI GCCGGC 1 cut(s) 116
MseI TTAA 2 cut(s) 420, 512
MspA1I CMGCKG 1 cut(s) 46
MspI CCGG 4 cut(s) 29, 108, 117, 156
MspR9I CCNGG 2 cut(s) 29, 108
MvnI CGCG 1 cut(s) 535
MwoI GCNNNNNNNGC 6 cut(s) 108, 117, 176, 304, 380, 532
NaeI GCCGGC 1 cut(s) 118
NciI CCSGG 2 cut(s) 29, 108
NdeII GATC 2 cut(s) 348, 415
NgoMIV GCCGGC 1 cut(s) 116
NlaIII CATG 3 cut(s) 106, 178, 381
NlaIV GGNNCC 2 cut(s) 39, 112
NmuCI GTSAC 3 cut(s) 202, 258, 495
NspI RCATGY 2 cut(s) 106, 381
PaeI GCATGC 2 cut(s) 106, 381
PdiI GCCGGC 1 cut(s) 118
PfeI GAWTC 1 cut(s) 455
PflMI CCANNNNNTGG 1 cut(s) 31
PkrI GCNGC 6 cut(s) 61, 122, 229, 297, 373, 376
PleI GAGTC 3 cut(s) 86, 167, 309
PpsI GAGTC 3 cut(s) 86, 167, 309
PspN4I GGNNCC 2 cut(s) 39, 112
PspPI GGNCC 2 cut(s) 22, 61
SaqAI TTAA 2 cut(s) 420, 512
SatI GCNGC 6 cut(s) 60, 121, 228, 296, 372, 375
Sau3AI GATC 2 cut(s) 348, 415
Sau96I GGNCC 2 cut(s) 22, 61
SchI GAGTC 3 cut(s) 87, 168, 310
ScrFI CCNGG 2 cut(s) 29, 108
SetI ASST 9 cut(s) 57, 96, 147, 222, 239, 257, 321, 452, 469
SgrAI CRCCGGYG 1 cut(s) 116
SinI GGWCC 1 cut(s) 22
SphI GCATGC 2 cut(s) 106, 381
Sse9I AATT 1 cut(s) 393
SsiI CCGC 8 cut(s) 44, 59, 114, 120, 295, 298, 375, 535
StyD4I CCNGG 2 cut(s) 27, 106
TaaI ACNGT 1 cut(s) 400
TaiI ACGT 2 cut(s) 57, 96
TaqII GACCGA 1 cut(s) 10
TasI AATT 1 cut(s) 393
TauI GCSGC 4 cut(s) 62, 123, 298, 377
TfiI GAWTC 1 cut(s) 455
Tru1I TTAA 2 cut(s) 420, 512
Tru9I TTAA 2 cut(s) 420, 512
TscAI CASTG 2 cut(s) 211, 267
TseFI GTSAC 3 cut(s) 202, 258, 495
TseI GCWGC 2 cut(s) 227, 371
Tsp45I GTSAC 3 cut(s) 202, 258, 495
TspDTI ATGAA 1 cut(s) 101
TspGWI ACGGA 2 cut(s) 6, 122
TspRI CASTG 2 cut(s) 211, 267
Van91I CCANNNNNTGG 1 cut(s) 31
VpaK11BI GGWCC 1 cut(s) 22
XceI RCATGY 2 cut(s) 106, 381
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.