Rh3DG114400

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0012275
Physical Location & Seq
Reverse (-)
9480505 .. 9482691
2187 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG114400.1

Sequence Viewer

Length: 522 bp
ATGACGACGAATCAAGACGACGCGTCGCAGAATCATGACCAGCAACAACAAAAACAATCCCCGCCGGTTGTCCCCACGGCTCCACCGGCTGCTGCTGCTGACGTGGAGAGCCAGACGGAGCCGGCACCGGCCCGGGCCCGGGCGGCTGGGAGCGGGTTCGGGGTGGCAGGGATCATACGGCGGTGGAAGAGAGATGACTTGTTGAGGAAAGGCTCTCTGGCGTTGAGAGGACTGTCCTTGGTCTTCTCTTTGCTGGCTTTCATCATCATGGCCAGTAACAAACACGGCGATTGGAAGGACTTCGATAAATATGAAGAATACAGGTATCTGTTGGGAATAGCGATATTGGCGACGTTGTACACCGGCGCACAAGCTTTCAAAAACGCCACAGGGAAAGAGATGTTTCAGCGCCGGACGTCGGCCCTGGCCGACTTCATCGGAGATCAGGTTTGCCGTATTTGCATCTCTATATTGACTTTTTGCATCCTAAATAAAACGTTGACCAAAAAAATTAATTCGTAA
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

173

Amino Acids

19.04

Weight (kDa)

9.37

Isoelectric Point (pI)

48.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 67 - 151 7.1e-15 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: 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) 419
AccB1I GGYRCC 1 cut(s) 124
AccBSI CCGCTC 1 cut(s) 153
AccII CGCG 1 cut(s) 23
AciI CCGC 4 cut(s) 62, 143, 153, 181
AclI AACGTT 1 cut(s) 497
AclWI GGATC 1 cut(s) 179
AcoI YGGCCR 2 cut(s) 270, 426
AcyI GRCGYC 1 cut(s) 416
AfaI GTAC 1 cut(s) 359
AfiI CCNNNNNNNGG 3 cut(s) 138, 139, 418
AflIII ACRYGT 1 cut(s) 21
AgsI TTSAA 1 cut(s) 379
AhdI GACNNNNNGTC 1 cut(s) 22
AjiI CACGTC 1 cut(s) 103
AjnI CCWGG 1 cut(s) 423
AluBI AGCT 1 cut(s) 374
AluI AGCT 1 cut(s) 374
AlwI GGATC 1 cut(s) 179
Ama87I CYCGRG 2 cut(s) 132, 138
AoxI GGCC 5 cut(s) 129, 135, 270, 420, 426
ApaI GGGCCC 1 cut(s) 139
ApeKI GCWGC 3 cut(s) 89, 92, 95
AseI ATTAAT 1 cut(s) 513
Asp700I GAANNNNTTC 1 cut(s) 299
AspLEI GCGC 2 cut(s) 368, 411
AspS9I GGNCC 4 cut(s) 130, 135, 136, 421
AsuC2I CCSGG 4 cut(s) 133, 134, 139, 140
AvaI CYCGRG 2 cut(s) 132, 138
BaeGI GKGCMC 1 cut(s) 139
BalI TGGCCA 1 cut(s) 272
BanI GGYRCC 1 cut(s) 124
BanII GRGCYC 1 cut(s) 139
BbsI GAAGAC 1 cut(s) 235
BbvI GCAGC 3 cut(s) 76, 79, 82
BceAI ACGGC 4 cut(s) 93, 194, 301, 438
BciT130I CCWGG 1 cut(s) 425
BcnI CCSGG 4 cut(s) 133, 134, 139, 140
BfoI RGCGCY 1 cut(s) 412
BglI GCCNNNNNGGC 1 cut(s) 143
BisI GCNGC 4 cut(s) 90, 93, 96, 144
BlsI GCNGC 4 cut(s) 91, 94, 97, 145
Bme1390I CCNGG 5 cut(s) 133, 134, 139, 140, 425
BmeRI GACNNNNNGTC 1 cut(s) 22
BmeT110I CYCGRG 2 cut(s) 132, 138
BmgBI CACGTC 1 cut(s) 103
BmgT120I GGNCC 4 cut(s) 130, 135, 136, 421
BmiI GGNNCC 4 cut(s) 81, 120, 126, 137
BmrFI CCNGG 5 cut(s) 133, 134, 139, 140, 425
BmsI GCATC 2 cut(s) 471, 492
BpiI GAAGAC 1 cut(s) 235
BpuMI CCSGG 4 cut(s) 133, 134, 139, 140
BsaHI GRCGYC 1 cut(s) 416
BsaJI CCNNGG 5 cut(s) 75, 132, 138, 237, 423
BsaXI ACNNNNNCTCC 2 cut(s) 432, 462
Bsc4I CCNNNNNNNGG 3 cut(s) 138, 139, 418
Bse118I RCCGGY 5 cut(s) 64, 85, 121, 127, 362
Bse1I ACTGG 1 cut(s) 273
BseBI CCWGG 1 cut(s) 425
BseDI CCNNGG 5 cut(s) 75, 132, 138, 237, 423
BseGI GGATG 1 cut(s) 483
BseLI CCNNNNNNNGG 3 cut(s) 138, 139, 418
BseNI ACTGG 1 cut(s) 273
BseSI GKGCMC 1 cut(s) 139
BseXI GCAGC 3 cut(s) 76, 79, 82
BseYI CCCAGC 1 cut(s) 146
Bsh1236I CGCG 1 cut(s) 23
BshFI GGCC 5 cut(s) 131, 137, 272, 422, 428
BshNI GGYRCC 1 cut(s) 124
BsiHKCI CYCGRG 2 cut(s) 132, 138
BsiSI CCGG 8 cut(s) 65, 86, 122, 128, 133, 139, 363, 412
BslFI GGGAC 1 cut(s) 56
BslI CCNNNNNNNGG 3 cut(s) 138, 139, 418
BsmFI GGGAC 1 cut(s) 56
BsnI GGCC 5 cut(s) 131, 137, 272, 422, 428
BsoBI CYCGRG 2 cut(s) 132, 138
Bsp120I GGGCCC 1 cut(s) 135
Bsp1286I GDGCHC 1 cut(s) 139
Bsp1407I TGTACA 1 cut(s) 357
Bsp143I GATC 2 cut(s) 171, 442
BspACI CCGC 4 cut(s) 62, 143, 153, 181
BspANI GGCC 5 cut(s) 131, 137, 272, 422, 428
BspFNI CGCG 1 cut(s) 23
BspHI TCATGA 1 cut(s) 34
BspLI GGNNCC 4 cut(s) 81, 120, 126, 137
BspPI GGATC 1 cut(s) 179
BspT107I GGYRCC 1 cut(s) 124
BsrBI CCGCTC 1 cut(s) 153
BsrFI RCCGGY 5 cut(s) 64, 85, 121, 127, 362
BsrGI TGTACA 1 cut(s) 357
BsrI ACTGG 1 cut(s) 273
BssAI RCCGGY 5 cut(s) 64, 85, 121, 127, 362
BssECI CCNNGG 5 cut(s) 75, 132, 138, 237, 423
BssMI GATC 2 cut(s) 171, 442
BssNI GRCGYC 1 cut(s) 416
BssT1I CCWWGG 1 cut(s) 237
Bst2UI CCWGG 1 cut(s) 425
Bst4CI ACNGT 1 cut(s) 234
Bst6I CTCTTC 1 cut(s) 182
BstACI GRCGYC 1 cut(s) 416
BstAUI TGTACA 1 cut(s) 357
BstC8I GCNNGC 2 cut(s) 123, 255
BstDSI CCRYGG 1 cut(s) 75
BstF5I GGATG 1 cut(s) 483
BstFNI CGCG 1 cut(s) 23
BstH2I RGCGCY 1 cut(s) 412
BstHHI GCGC 2 cut(s) 368, 411
BstKTI GATC 2 cut(s) 174, 445
BstMBI GATC 2 cut(s) 171, 442
BstMWI GCNNNNNNNGC 5 cut(s) 86, 95, 143, 347, 459
BstNI CCWGG 1 cut(s) 425
BstSCI CCNGG 5 cut(s) 131, 132, 137, 138, 423
BstSLI GKGCMC 1 cut(s) 139
BstUI CGCG 1 cut(s) 23
BstV1I GCAGC 3 cut(s) 76, 79, 82
BstV2I GAAGAC 1 cut(s) 235
BsuRI GGCC 5 cut(s) 131, 137, 272, 422, 428
BtgI CCRYGG 1 cut(s) 75
BtrI CACGTC 1 cut(s) 103
BtsCI GGATG 1 cut(s) 483
Cac8I GCNNGC 2 cut(s) 123, 255
CciI TCATGA 1 cut(s) 34
CfoI GCGC 2 cut(s) 368, 411
Cfr10I RCCGGY 5 cut(s) 64, 85, 121, 127, 362
Cfr13I GGNCC 4 cut(s) 130, 135, 136, 421
Cfr9I CCCGGG 2 cut(s) 132, 138
CseI GACGC 2 cut(s) 12, 29
Csp6I GTAC 1 cut(s) 358
CviAII CATG 2 cut(s) 35, 268
CviQI GTAC 1 cut(s) 358
DpnI GATC 2 cut(s) 173, 444
DpnII GATC 2 cut(s) 171, 442
DriI GACNNNNNGTC 1 cut(s) 22
EaeI YGGCCR 2 cut(s) 270, 426
Eam1104I CTCTTC 1 cut(s) 182
Eam1105I GACNNNNNGTC 1 cut(s) 22
EarI CTCTTC 1 cut(s) 182
Eco130I CCWWGG 1 cut(s) 237
Eco24I GRGCYC 1 cut(s) 139
Eco88I CYCGRG 2 cut(s) 132, 138
EcoRII CCWGG 1 cut(s) 423
EcoT14I CCWWGG 1 cut(s) 237
EcoT38I GRGCYC 1 cut(s) 139
ErhI CCWWGG 1 cut(s) 237
FaeI CATG 2 cut(s) 38, 271
FaiI YATR 5 cut(s) 36, 176, 269, 312, 470
FaqI GGGAC 1 cut(s) 56
FatI CATG 2 cut(s) 34, 267
FauI CCCGC 2 cut(s) 69, 146
Fnu4HI GCNGC 4 cut(s) 90, 93, 96, 144
FokI GGATG 1 cut(s) 470
FriOI GRGCYC 1 cut(s) 139
Fsp4HI GCNGC 4 cut(s) 90, 93, 96, 144
GlaI GCGC 2 cut(s) 367, 410
GluI GCNGC 4 cut(s) 90, 93, 96, 144
GsaI CCCAGC 1 cut(s) 150
HaeII RGCGCY 1 cut(s) 412
HaeIII GGCC 5 cut(s) 131, 137, 272, 422, 428
HapII CCGG 8 cut(s) 65, 86, 122, 128, 133, 139, 363, 412
HgaI GACGC 2 cut(s) 12, 29
HhaI GCGC 2 cut(s) 368, 411
Hin1I GRCGYC 1 cut(s) 416
Hin1II CATG 2 cut(s) 38, 271
Hin6I GCGC 2 cut(s) 366, 409
HinP1I GCGC 2 cut(s) 366, 409
HincII GTYRAC 1 cut(s) 501
HindII GTYRAC 1 cut(s) 501
HindIII AAGCTT 1 cut(s) 372
HinfI GANTC 2 cut(s) 10, 31
HpaII CCGG 8 cut(s) 65, 86, 122, 128, 133, 139, 363, 412
Hpy166II GTNNAC 2 cut(s) 360, 501
Hpy188I TCNGA 1 cut(s) 440
Hpy188III TCNNGA 2 cut(s) 14, 35
Hpy8I GTNNAC 2 cut(s) 360, 501
Hpy99I CGWCG 5 cut(s) 10, 23, 28, 355, 421
HpyAV CCTTC 1 cut(s) 289
HpyCH4III ACNGT 1 cut(s) 234
HpyCH4IV ACGT 4 cut(s) 102, 353, 416, 497
HpyCH4V TGCA 2 cut(s) 462, 483
HpyF10VI GCNNNNNNNGC 5 cut(s) 86, 95, 143, 347, 459
HpySE526I ACGT 4 cut(s) 102, 353, 416, 497
Hsp92I GRCGYC 1 cut(s) 416
Hsp92II CATG 2 cut(s) 38, 271
HspAI GCGC 2 cut(s) 366, 409
KroI GCCGGC 1 cut(s) 121
KroNI GCCGGC 1 cut(s) 123
Kzo9I GATC 2 cut(s) 171, 442
LmnI GCTCC 3 cut(s) 85, 118, 150
Lsp1109I GCAGC 3 cut(s) 76, 79, 82
LweI GCATC 2 cut(s) 471, 492
MaeII ACGT 4 cut(s) 102, 353, 416, 497
MaeIII GTNAC 1 cut(s) 275
MalI GATC 2 cut(s) 173, 444
MbiI CCGCTC 1 cut(s) 153
MboI GATC 2 cut(s) 171, 442
MboII GAAGA 3 cut(s) 199, 235, 326
MhlI GDGCHC 1 cut(s) 139
MlsI TGGCCA 1 cut(s) 272
MluCI AATT 2 cut(s) 510, 514
MluI ACGCGT 1 cut(s) 21
MluNI TGGCCA 1 cut(s) 272
MnlI CCTC 2 cut(s) 198, 221
Mox20I TGGCCA 1 cut(s) 272
MroNI GCCGGC 1 cut(s) 121
MroXI GAANNNNTTC 1 cut(s) 299
MscI TGGCCA 1 cut(s) 272
MseI TTAA 1 cut(s) 513
MslI CAYNNNNRTG 1 cut(s) 266
Msp20I TGGCCA 1 cut(s) 272
MspI CCGG 8 cut(s) 65, 86, 122, 128, 133, 139, 363, 412
MspR9I CCNGG 5 cut(s) 133, 134, 139, 140, 425
MvaI CCWGG 1 cut(s) 425
MvnI CGCG 1 cut(s) 23
MwoI GCNNNNNNNGC 5 cut(s) 86, 95, 143, 347, 459
NaeI GCCGGC 1 cut(s) 123
NciI CCSGG 4 cut(s) 133, 134, 139, 140
NdeII GATC 2 cut(s) 171, 442
NgoMIV GCCGGC 1 cut(s) 121
NlaIII CATG 2 cut(s) 38, 271
NlaIV GGNNCC 4 cut(s) 81, 120, 126, 137
PagI TCATGA 1 cut(s) 34
PdiI GCCGGC 1 cut(s) 123
PdmI GAANNNNTTC 1 cut(s) 299
PfeI GAWTC 2 cut(s) 10, 31
PkrI GCNGC 4 cut(s) 91, 94, 97, 145
PshBI ATTAAT 1 cut(s) 513
Psp1406I AACGTT 1 cut(s) 497
Psp6I CCWGG 1 cut(s) 423
PspFI CCCAGC 1 cut(s) 146
PspGI CCWGG 1 cut(s) 423
PspN4I GGNNCC 4 cut(s) 81, 120, 126, 137
PspOMI GGGCCC 1 cut(s) 135
PspPI GGNCC 4 cut(s) 130, 135, 136, 421
RsaI GTAC 1 cut(s) 359
RsaNI GTAC 1 cut(s) 358
RseI CAYNNNNRTG 1 cut(s) 266
SaqAI TTAA 1 cut(s) 513
SatI GCNGC 4 cut(s) 90, 93, 96, 144
Sau3AI GATC 2 cut(s) 171, 442
Sau96I GGNCC 4 cut(s) 130, 135, 136, 421
ScrFI CCNGG 5 cut(s) 133, 134, 139, 140, 425
SduI GDGCHC 1 cut(s) 139
SetI ASST 7 cut(s) 105, 326, 356, 376, 419, 450, 500
SfaNI GCATC 2 cut(s) 471, 492
SgrAI CRCCGGYG 1 cut(s) 362
SmaI CCCGGG 2 cut(s) 134, 140
SmiMI CAYNNNNRTG 1 cut(s) 266
SrfI GCCCGGGC 2 cut(s) 134, 140
Sse9I AATT 2 cut(s) 510, 514
SsiI CCGC 4 cut(s) 62, 143, 153, 181
StyD4I CCNGG 5 cut(s) 131, 132, 137, 138, 423
StyI CCWWGG 1 cut(s) 237
TaaI ACNGT 1 cut(s) 234
TaiI ACGT 4 cut(s) 105, 356, 419, 500
TaqI TCGA 1 cut(s) 303
TasI AATT 2 cut(s) 510, 514
TatI WGTACW 1 cut(s) 357
TauI GCSGC 1 cut(s) 146
TfiI GAWTC 2 cut(s) 10, 31
Tru1I TTAA 1 cut(s) 513
Tru9I TTAA 1 cut(s) 513
TseI GCWGC 3 cut(s) 89, 92, 95
TspDTI ATGAA 3 cut(s) 250, 327, 424
TspGWI ACGGA 1 cut(s) 131
TspMI CCCGGG 2 cut(s) 132, 138
VspI ATTAAT 1 cut(s) 513
XmaI CCCGGG 2 cut(s) 132, 138
XmnI GAANNNNTTC 1 cut(s) 299
ZraI GACGTC 1 cut(s) 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.