Rh4BG232500

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0017286
Physical Location & Seq
Reverse (-)
39780219 .. 39784598
4380 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG232500.1

Sequence Viewer

Length: 450 bp
ATGGCCGGCCGGTGGAGAATGTCAACTAAACATTCCTTTGAGCCTTATGGTTTTGCTCCCTATATAACACAGTGCTTAGTTAACAACAACTTGACCTATTCACAAACACTCACAGCAGCATCATCAGCAGTCATGGGAACAACGAAGAGGCCTGTGGTTTACTTTTGCTTGAGTTTTCTTCTCCGGATGTTGTTGATCGTGGCCTCGACAATTAGTGCTGTGACCATGGTAAGTAGCAAGGATACCCAATATTGGTACGATCCAGGGACTGAGTATGACAGTGGAACCTATTCCGTCAAATTCACTGATTCACCCTCATTCATGTACACCTCAGCAACTGGGAGTGCCGGTAGTGTTGCATATAGCATACTCAAGGCTGATCTTTGCTCTACTTACAACCGCTACTGTCGACATCTAGGAGTCGCCTTGGGGTTCGCCTTATTTGCCTAA
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

149

Amino Acids

16.43

Weight (kDa)

8.9

Isoelectric Point (pI)

37.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 57 - 125 5.2e-07 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: OG0017286)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g17260
malus_domestica MD13G1173400.v1.1
prunus_persica Prupe.1G141600_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0421181
rosa_laevigata RLG00000007708
rosa_multiflora Rmu_sc0009290.1_g000009
rosa_roxburghii Rroxscaffold_5G00363480
rosa_rugosa Rorug04G0170000
rosa_samantha Rh4AG229800 Rh4BG232500 Rh4CG244100 Rh4DG228300
rosa_wichuraiana Rw4G020400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 409
AccIII TCCGGA 1 cut(s) 183
AciI CCGC 1 cut(s) 400
AclWI GGATC 1 cut(s) 254
AcoI YGGCCR 2 cut(s) 3, 7
AcsI RAATTY 1 cut(s) 299
AfaI GTAC 2 cut(s) 257, 326
AfiI CCNNNNNNNGG 2 cut(s) 12, 252
AjnI CCWGG 1 cut(s) 262
AlwI GGATC 1 cut(s) 254
AlwNI CAGNNNCTG 2 cut(s) 269, 338
Aor13HI TCCGGA 1 cut(s) 183
AoxI GGCC 4 cut(s) 3, 7, 149, 201
ApeKI GCWGC 1 cut(s) 116
ApoI RAATTY 1 cut(s) 299
Asp700I GAANNNNTTC 1 cut(s) 289
AsuHPI GGTGA 1 cut(s) 303
BbvCI CCTCAGC 1 cut(s) 331
BbvI GCAGC 1 cut(s) 128
BciT130I CCWGG 1 cut(s) 264
BciVI GTATCC 1 cut(s) 235
BfaI CTAG 1 cut(s) 416
BfuI GTATCC 1 cut(s) 235
BisI GCNGC 1 cut(s) 117
BlsI GCNGC 1 cut(s) 118
Bme1390I CCNGG 1 cut(s) 264
BmiI GGNNCC 1 cut(s) 286
BmrFI CCNGG 1 cut(s) 264
BmrI ACTGGG 1 cut(s) 348
BmsI GCATC 1 cut(s) 128
BmuI ACTGGG 1 cut(s) 348
Bpu10I CCTNAGC 1 cut(s) 331
BpuEI CTTGAG 2 cut(s) 190, 356
BsaJI CCNNGG 3 cut(s) 225, 263, 426
BsaWI WCCGGW 1 cut(s) 183
BsaXI ACNNNNNCTCC 2 cut(s) 334, 364
Bsc4I CCNNNNNNNGG 2 cut(s) 12, 252
Bse118I RCCGGY 3 cut(s) 5, 9, 347
Bse1I ACTGG 1 cut(s) 343
BseAI TCCGGA 1 cut(s) 183
BseBI CCWGG 1 cut(s) 264
BseDI CCNNGG 3 cut(s) 225, 263, 426
BseGI GGATG 1 cut(s) 192
BseLI CCNNNNNNNGG 2 cut(s) 12, 252
BseMII CTCAG 2 cut(s) 261, 345
BseNI ACTGG 1 cut(s) 343
BseX3I CGGCCG 1 cut(s) 7
BseXI GCAGC 1 cut(s) 128
Bsh1285I CGRYCG 1 cut(s) 10
BshFI GGCC 4 cut(s) 5, 9, 151, 203
BsiEI CGRYCG 1 cut(s) 10
BsiSI CCGG 4 cut(s) 6, 10, 184, 348
BslFI GGGAC 1 cut(s) 280
BslI CCNNNNNNNGG 2 cut(s) 12, 252
BsmFI GGGAC 1 cut(s) 280
BsnI GGCC 4 cut(s) 5, 9, 151, 203
Bsp13I TCCGGA 1 cut(s) 183
Bsp1407I TGTACA 1 cut(s) 324
Bsp143I GATC 3 cut(s) 195, 259, 379
Bsp19I CCATGG 1 cut(s) 225
BspACI CCGC 1 cut(s) 400
BspANI GGCC 4 cut(s) 5, 9, 151, 203
BspCNI CTCAG 2 cut(s) 262, 344
BspEI TCCGGA 1 cut(s) 183
BspLI GGNNCC 1 cut(s) 286
BspPI GGATC 1 cut(s) 254
BsrFI RCCGGY 3 cut(s) 5, 9, 347
BsrGI TGTACA 1 cut(s) 324
BsrI ACTGG 1 cut(s) 343
BssAI RCCGGY 3 cut(s) 5, 9, 347
BssECI CCNNGG 3 cut(s) 225, 263, 426
BssMI GATC 3 cut(s) 195, 259, 379
BssT1I CCWWGG 2 cut(s) 225, 426
Bst2UI CCWGG 1 cut(s) 264
Bst4CI ACNGT 3 cut(s) 72, 281, 407
Bst6I CTCTTC 1 cut(s) 140
BstAUI TGTACA 1 cut(s) 324
BstC8I GCNNGC 1 cut(s) 7
BstDEI CTNAG 3 cut(s) 76, 270, 331
BstDSI CCRYGG 1 cut(s) 225
BstF5I GGATG 1 cut(s) 192
BstKTI GATC 3 cut(s) 198, 262, 382
BstMBI GATC 3 cut(s) 195, 259, 379
BstMCI CGRYCG 1 cut(s) 10
BstMWI GCNNNNNNNGC 2 cut(s) 125, 443
BstNI CCWGG 1 cut(s) 264
BstSCI CCNGG 1 cut(s) 262
BstV1I GCAGC 1 cut(s) 128
BstZI CGGCCG 1 cut(s) 7
BsuI GTATCC 1 cut(s) 235
BsuRI GGCC 4 cut(s) 5, 9, 151, 203
BtgI CCRYGG 1 cut(s) 225
BtsCI GGATG 1 cut(s) 192
BtsIMutI CAGTG 3 cut(s) 77, 286, 303
Cac8I GCNNGC 1 cut(s) 7
CaiI CAGNNNCTG 2 cut(s) 269, 338
Cfr10I RCCGGY 3 cut(s) 5, 9, 347
Csp6I GTAC 2 cut(s) 256, 325
CviAII CATG 3 cut(s) 133, 226, 322
CviJI RGCY 6 cut(s) 5, 9, 43, 151, 203, 377
CviKI_1 RGCY 6 cut(s) 5, 9, 43, 151, 203, 377
CviQI GTAC 2 cut(s) 256, 325
DdeI CTNAG 3 cut(s) 76, 270, 331
DpnI GATC 3 cut(s) 197, 261, 381
DpnII GATC 3 cut(s) 195, 259, 379
EaeI YGGCCR 2 cut(s) 3, 7
EagI CGGCCG 1 cut(s) 7
Eam1104I CTCTTC 1 cut(s) 140
EarI CTCTTC 1 cut(s) 140
EclXI CGGCCG 1 cut(s) 7
Eco130I CCWWGG 2 cut(s) 225, 426
Eco147I AGGCCT 1 cut(s) 151
Eco52I CGGCCG 1 cut(s) 7
EcoRII CCWGG 1 cut(s) 262
EcoT14I CCWWGG 2 cut(s) 225, 426
ErhI CCWWGG 2 cut(s) 225, 426
FaeI CATG 3 cut(s) 136, 229, 325
FaqI GGGAC 1 cut(s) 280
FatI CATG 3 cut(s) 132, 225, 321
FblI GTMKAC 1 cut(s) 409
Fnu4HI GCNGC 1 cut(s) 117
FokI GGATG 1 cut(s) 199
FseI GGCCGGCC 1 cut(s) 9
Fsp4HI GCNGC 1 cut(s) 117
FspBI CTAG 1 cut(s) 416
GluI GCNGC 1 cut(s) 117
HaeIII GGCC 4 cut(s) 5, 9, 151, 203
HapII CCGG 4 cut(s) 6, 10, 184, 348
Hin1II CATG 3 cut(s) 136, 229, 325
HincII GTYRAC 3 cut(s) 24, 82, 410
HindII GTYRAC 3 cut(s) 24, 82, 410
HinfI GANTC 2 cut(s) 308, 420
HpaI GTTAAC 1 cut(s) 82
HpaII CCGG 4 cut(s) 6, 10, 184, 348
HphI GGTGA 1 cut(s) 303
Hpy166II GTNNAC 5 cut(s) 24, 82, 160, 327, 410
Hpy188III TCNNGA 1 cut(s) 184
Hpy8I GTNNAC 5 cut(s) 24, 82, 160, 327, 410
HpyCH4III ACNGT 3 cut(s) 72, 281, 407
HpyCH4V TGCA 1 cut(s) 359
HpyF10VI GCNNNNNNNGC 2 cut(s) 125, 443
HpyF3I CTNAG 3 cut(s) 76, 270, 331
Hsp92II CATG 3 cut(s) 136, 229, 325
Kpn2I TCCGGA 1 cut(s) 183
KroI GCCGGC 1 cut(s) 5
KroNI GCCGGC 1 cut(s) 7
KspAI GTTAAC 1 cut(s) 82
Kzo9I GATC 3 cut(s) 195, 259, 379
LmnI GCTCC 1 cut(s) 61
LpnPI CCDG 8 cut(s) 19, 23, 165, 197, 249, 276, 324, 361
Lsp1109I GCAGC 1 cut(s) 128
LweI GCATC 1 cut(s) 128
MaeI CTAG 1 cut(s) 416
MaeIII GTNAC 1 cut(s) 220
MalI GATC 3 cut(s) 197, 261, 381
MboI GATC 3 cut(s) 195, 259, 379
MboII GAAGA 2 cut(s) 157, 170
MluCI AATT 2 cut(s) 210, 299
MlyI GAGTC 1 cut(s) 429
MnlI CCTC 4 cut(s) 141, 214, 325, 340
MroI TCCGGA 1 cut(s) 183
MroNI GCCGGC 1 cut(s) 5
MroXI GAANNNNTTC 1 cut(s) 289
MseI TTAA 1 cut(s) 81
MspI CCGG 4 cut(s) 6, 10, 184, 348
MspR9I CCNGG 1 cut(s) 264
MvaI CCWGG 1 cut(s) 264
MwoI GCNNNNNNNGC 2 cut(s) 125, 443
NaeI GCCGGC 1 cut(s) 7
NcoI CCATGG 1 cut(s) 225
NdeII GATC 3 cut(s) 195, 259, 379
NgoMIV GCCGGC 1 cut(s) 5
NlaIII CATG 3 cut(s) 136, 229, 325
NlaIV GGNNCC 1 cut(s) 286
NmuCI GTSAC 1 cut(s) 220
PceI AGGCCT 1 cut(s) 151
PdiI GCCGGC 1 cut(s) 7
PdmI GAANNNNTTC 1 cut(s) 289
PfeI GAWTC 1 cut(s) 308
PkrI GCNGC 1 cut(s) 118
PleI GAGTC 1 cut(s) 428
PpsI GAGTC 1 cut(s) 428
Psp6I CCWGG 1 cut(s) 262
PspGI CCWGG 1 cut(s) 262
PspN4I GGNNCC 1 cut(s) 286
PstNI CAGNNNCTG 2 cut(s) 269, 338
RigI GGCCGGCC 1 cut(s) 9
RsaI GTAC 2 cut(s) 257, 326
RsaNI GTAC 2 cut(s) 256, 325
SalI GTCGAC 1 cut(s) 408
SaqAI TTAA 1 cut(s) 81
SatI GCNGC 1 cut(s) 117
Sau3AI GATC 3 cut(s) 195, 259, 379
SchI GAGTC 1 cut(s) 429
ScrFI CCNGG 1 cut(s) 264
SetI ASST 3 cut(s) 98, 290, 332
SfaNI GCATC 1 cut(s) 128
SmlI CTYRAG 2 cut(s) 169, 371
SmoI CTYRAG 2 cut(s) 169, 371
Sse9I AATT 2 cut(s) 210, 299
SseBI AGGCCT 1 cut(s) 151
SsiI CCGC 1 cut(s) 400
SspI AATATT 1 cut(s) 251
SspMI CTAG 1 cut(s) 416
StuI AGGCCT 1 cut(s) 151
StyD4I CCNGG 1 cut(s) 262
StyI CCWWGG 2 cut(s) 225, 426
TaaI ACNGT 3 cut(s) 72, 281, 407
TaqI TCGA 2 cut(s) 206, 409
TasI AATT 2 cut(s) 210, 299
TatI WGTACW 1 cut(s) 324
TfiI GAWTC 1 cut(s) 308
Tru1I TTAA 1 cut(s) 81
Tru9I TTAA 1 cut(s) 81
TscAI CASTG 3 cut(s) 77, 286, 310
TseFI GTSAC 1 cut(s) 220
TseI GCWGC 1 cut(s) 116
Tsp45I GTSAC 1 cut(s) 220
TspDTI ATGAA 1 cut(s) 310
TspGWI ACGGA 1 cut(s) 283
TspRI CASTG 3 cut(s) 77, 286, 310
XapI RAATTY 1 cut(s) 299
XmiI GTMKAC 1 cut(s) 409
XmnI GAANNNNTTC 1 cut(s) 289
XspI CTAG 1 cut(s) 416
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.