Rh1BG301000

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0017713
Physical Location & Seq
Forward (+)
43630170 .. 43631712
1543 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG301000.1

Sequence Viewer

Length: 681 bp
ATGGCCTTTATGCTTTCGCCTGGGGTCTCGCGAATCGTTACTATTGTATTGAGGGTCCTGACTGCCATTGTTCTGTTTGTATCACTCGTGATGCTCGTAATCAATAATCAGGATTATCAAGACCCTAATGACAACGGAAACACTAAAACCGCTCGTTTTTATGATCAAGTTGGATTCCAATATATGGCTGCCACAACAGTTCTCGGAATTGGGTTTTCAATCTATGGAACCGTAATTGTAGCTTTGCGCATCAAGAGAGGAAATGATGAAGGGAACCTGTTGATTGATTTCTATGGCCAGAAGGTATGGGTGCATAGTTACTTAATTTGCACTTTTCATTATTATTATTATTATTTTTCTGATACCAGAAAAGAAAAACTACAACGAAAACTCACAAATACAACCCCCAACCATGGAACGCTGGGAACATGGGGAGACAAGAAAACCAAACAGCAGGTTTTGTCGAATTTATTAGTTACAGGAGCTGTTGCAGGATTTCTTACGGTCCAAGCTGTGGATAAAGCTCTCTCTGATCACTTTGGCACGTTCGCGGAGCTGGCCACTAACGGCTATTATTGGGGTTTGTATAAGACATGTTCTGGACTTGTCCTCCTTGGCTTCTTCTTGTCTGTAGCACTGTCGATCCTGTCTTCCCATACCCTTGCTAGAAGGAATTATTAG
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

226

Amino Acids

25.35

Weight (kDa)

9.33

Isoelectric Point (pI)

19.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 11 - 99 2.3e-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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Orthologous Genes (Group: OG0017713)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g22230
rosa_chinensis RchiOBHm_Chr1g0366621
rosa_laevigata RLG00000027332
rosa_multiflora Rmu_sc0003180.1_g000008
rosa_roxburghii Rroxscaffold_4G00289810
rosa_rugosa Rorug01G0330900 Rorug01G0331000
rosa_samantha Rh1AG339300 Rh1BG301000 Rh1CG315800 Rh1DG332600
rosa_wichuraiana Rw1G030050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 248
Acc36I ACCTGC 1 cut(s) 445
AccB7I CCANNNNNTGG 2 cut(s) 184, 514
AccBSI CCGCTC 1 cut(s) 152
AccII CGCG 2 cut(s) 31, 551
AciI CCGC 2 cut(s) 150, 551
AclWI GGATC 1 cut(s) 637
AcoI YGGCCR 2 cut(s) 295, 558
AcsI RAATTY 1 cut(s) 466
AfiI CCNNNNNNNGG 3 cut(s) 184, 413, 514
AflIII ACRYGT 1 cut(s) 593
AgsI TTSAA 1 cut(s) 219
AjnI CCWGG 1 cut(s) 19
AluBI AGCT 5 cut(s) 242, 485, 512, 524, 556
AluI AGCT 5 cut(s) 242, 485, 512, 524, 556
Alw26I GTCTC 2 cut(s) 31, 429
AlwI GGATC 1 cut(s) 637
AlwNI CAGNNNCTG 1 cut(s) 485
AoxI GGCC 3 cut(s) 3, 295, 558
ApeKI GCWGC 1 cut(s) 188
ApoI RAATTY 1 cut(s) 466
AspLEI GCGC 1 cut(s) 249
AspS9I GGNCC 2 cut(s) 55, 505
AvaII GGWCC 2 cut(s) 55, 505
BalI TGGCCA 2 cut(s) 297, 560
BauI CACGAG 1 cut(s) 86
BbsI GAAGAC 1 cut(s) 642
BbvI GCAGC 1 cut(s) 175
BceAI ACGGC 1 cut(s) 583
BciT130I CCWGG 1 cut(s) 21
BclI TGATCA 2 cut(s) 163, 532
BcoDI GTCTC 2 cut(s) 31, 429
BfaI CTAG 1 cut(s) 666
BfmI CTRYAG 1 cut(s) 630
BfuAI ACCTGC 1 cut(s) 445
BisI GCNGC 1 cut(s) 189
BlsI GCNGC 1 cut(s) 190
Bme1390I CCNGG 1 cut(s) 21
Bme18I GGWCC 2 cut(s) 55, 505
BmgT120I GGNCC 2 cut(s) 55, 505
BmiI GGNNCC 3 cut(s) 56, 229, 275
BmrFI CCNGG 1 cut(s) 21
BmsI GCATC 2 cut(s) 81, 258
BpiI GAAGAC 1 cut(s) 642
BsaI GGTCTC 1 cut(s) 31
BsaJI CCNNGG 3 cut(s) 20, 412, 613
BsaXI ACNNNNNCTCC 2 cut(s) 594, 624
Bsc4I CCNNNNNNNGG 3 cut(s) 184, 413, 514
BseBI CCWGG 1 cut(s) 21
BseDI CCNNGG 3 cut(s) 20, 412, 613
BseLI CCNNNNNNNGG 3 cut(s) 184, 413, 514
BseXI GCAGC 1 cut(s) 175
BseYI CCCAGC 1 cut(s) 421
Bsh1236I CGCG 2 cut(s) 31, 551
BshFI GGCC 3 cut(s) 5, 297, 560
BslI CCNNNNNNNGG 3 cut(s) 184, 413, 514
BsmAI GTCTC 2 cut(s) 31, 429
BsnI GGCC 3 cut(s) 5, 297, 560
Bso31I GGTCTC 1 cut(s) 31
Bsp143I GATC 3 cut(s) 163, 532, 642
Bsp19I CCATGG 1 cut(s) 412
Bsp68I TCGCGA 1 cut(s) 31
BspACI CCGC 2 cut(s) 150, 551
BspANI GGCC 3 cut(s) 5, 297, 560
BspFNI CGCG 2 cut(s) 31, 551
BspLI GGNNCC 3 cut(s) 56, 229, 275
BspMI ACCTGC 1 cut(s) 445
BspPI GGATC 1 cut(s) 637
BspTNI GGTCTC 1 cut(s) 31
BsrBI CCGCTC 1 cut(s) 152
BssECI CCNNGG 3 cut(s) 20, 412, 613
BssMI GATC 3 cut(s) 163, 532, 642
BssSI CACGAG 1 cut(s) 86
BssT1I CCWWGG 2 cut(s) 412, 613
Bst2BI CACGAG 1 cut(s) 86
Bst2UI CCWGG 1 cut(s) 21
Bst4CI ACNGT 4 cut(s) 199, 232, 505, 639
BstC8I GCNNGC 1 cut(s) 558
BstDSI CCRYGG 1 cut(s) 412
BstFNI CGCG 2 cut(s) 31, 551
BstHHI GCGC 1 cut(s) 249
BstKTI GATC 3 cut(s) 166, 535, 645
BstMAI GTCTC 2 cut(s) 31, 429
BstMBI GATC 3 cut(s) 163, 532, 642
BstMWI GCNNNNNNNGC 1 cut(s) 557
BstNI CCWGG 1 cut(s) 21
BstNSI RCATGY 1 cut(s) 597
BstSCI CCNGG 1 cut(s) 19
BstSFI CTRYAG 1 cut(s) 630
BstUI CGCG 2 cut(s) 31, 551
BstV1I GCAGC 1 cut(s) 175
BstV2I GAAGAC 1 cut(s) 642
BsuRI GGCC 3 cut(s) 5, 297, 560
BtgI CCRYGG 1 cut(s) 412
BtsIMutI CAGTG 1 cut(s) 635
BtuMI TCGCGA 1 cut(s) 31
BveI ACCTGC 1 cut(s) 445
Cac8I GCNNGC 1 cut(s) 558
CaiI CAGNNNCTG 1 cut(s) 485
CfoI GCGC 1 cut(s) 249
Cfr13I GGNCC 2 cut(s) 55, 505
CviAII CATG 3 cut(s) 413, 429, 594
DpnI GATC 3 cut(s) 165, 534, 644
DpnII GATC 3 cut(s) 163, 532, 642
EaeI YGGCCR 2 cut(s) 295, 558
Eco130I CCWWGG 2 cut(s) 412, 613
Eco31I GGTCTC 1 cut(s) 31
Eco47I GGWCC 2 cut(s) 55, 505
EcoO109I RGGNCCY 1 cut(s) 55
EcoRII CCWGG 1 cut(s) 19
EcoT14I CCWWGG 2 cut(s) 412, 613
ErhI CCWWGG 2 cut(s) 412, 613
FaeI CATG 3 cut(s) 416, 432, 597
FatI CATG 3 cut(s) 412, 428, 593
FbaI TGATCA 2 cut(s) 163, 532
Fnu4HI GCNGC 1 cut(s) 189
Fsp4HI GCNGC 1 cut(s) 189
FspBI CTAG 1 cut(s) 666
FspI TGCGCA 1 cut(s) 248
GlaI GCGC 1 cut(s) 248
GluI GCNGC 1 cut(s) 189
GsaI CCCAGC 1 cut(s) 425
HaeIII GGCC 3 cut(s) 5, 297, 560
HhaI GCGC 1 cut(s) 249
Hin1II CATG 3 cut(s) 416, 432, 597
Hin6I GCGC 1 cut(s) 247
HinP1I GCGC 1 cut(s) 247
HinfI GANTC 2 cut(s) 33, 174
Hpy188I TCNGA 3 cut(s) 206, 361, 532
Hpy188III TCNNGA 7 cut(s) 30, 58, 88, 110, 119, 253, 600
HpyAV CCTTC 3 cut(s) 263, 295, 663
HpyCH4III ACNGT 4 cut(s) 199, 232, 505, 639
HpyCH4IV ACGT 1 cut(s) 545
HpyCH4V TGCA 3 cut(s) 313, 330, 491
HpyF10VI GCNNNNNNNGC 1 cut(s) 557
HpySE526I ACGT 1 cut(s) 545
Hsp92II CATG 3 cut(s) 416, 432, 597
HspAI GCGC 1 cut(s) 247
Ksp22I TGATCA 2 cut(s) 163, 532
Kzo9I GATC 3 cut(s) 163, 532, 642
LmnI GCTCC 2 cut(s) 482, 553
Lsp1109I GCAGC 1 cut(s) 175
LweI GCATC 2 cut(s) 81, 258
MaeI CTAG 1 cut(s) 666
MaeII ACGT 1 cut(s) 545
MaeIII GTNAC 3 cut(s) 37, 317, 475
MalI GATC 3 cut(s) 165, 534, 644
MbiI CCGCTC 1 cut(s) 152
MboI GATC 3 cut(s) 163, 532, 642
MboII GAAGA 2 cut(s) 613, 642
MlsI TGGCCA 2 cut(s) 297, 560
MluCI AATT 5 cut(s) 207, 234, 324, 466, 673
MluNI TGGCCA 2 cut(s) 297, 560
MmeI TCCRAC 1 cut(s) 151
MnlI CCTC 3 cut(s) 45, 251, 620
Mox20I TGGCCA 2 cut(s) 297, 560
MscI TGGCCA 2 cut(s) 297, 560
MseI TTAA 1 cut(s) 323
Msp20I TGGCCA 2 cut(s) 297, 560
MspR9I CCNGG 1 cut(s) 21
MvaI CCWGG 1 cut(s) 21
MvnI CGCG 2 cut(s) 31, 551
MwoI GCNNNNNNNGC 1 cut(s) 557
NcoI CCATGG 1 cut(s) 412
NdeII GATC 3 cut(s) 163, 532, 642
NlaIII CATG 3 cut(s) 416, 432, 597
NlaIV GGNNCC 3 cut(s) 56, 229, 275
NruI TCGCGA 1 cut(s) 31
NsbI TGCGCA 1 cut(s) 248
NspI RCATGY 1 cut(s) 597
PciI ACATGT 1 cut(s) 593
PcsI WCGNNNNNNNCGW 1 cut(s) 93
PfeI GAWTC 2 cut(s) 33, 174
PflMI CCANNNNNTGG 2 cut(s) 184, 514
PkrI GCNGC 1 cut(s) 190
PpuMI RGGWCCY 1 cut(s) 55
PscI ACATGT 1 cut(s) 593
Psp5II RGGWCCY 1 cut(s) 55
Psp6I CCWGG 1 cut(s) 19
PspFI CCCAGC 1 cut(s) 421
PspGI CCWGG 1 cut(s) 19
PspN4I GGNNCC 3 cut(s) 56, 229, 275
PspPI GGNCC 2 cut(s) 55, 505
PspPPI RGGWCCY 1 cut(s) 55
PstNI CAGNNNCTG 1 cut(s) 485
RruI TCGCGA 1 cut(s) 31
SaqAI TTAA 1 cut(s) 323
SatI GCNGC 1 cut(s) 189
Sau3AI GATC 3 cut(s) 163, 532, 642
Sau96I GGNCC 2 cut(s) 55, 505
ScrFI CCNGG 1 cut(s) 21
SetI ASST 9 cut(s) 244, 279, 306, 459, 487, 514, 526, 548, 558
SfaNI GCATC 2 cut(s) 81, 258
SfcI CTRYAG 1 cut(s) 630
SinI GGWCC 2 cut(s) 55, 505
Sse9I AATT 5 cut(s) 207, 234, 324, 466, 673
SsiI CCGC 2 cut(s) 150, 551
SspMI CTAG 1 cut(s) 666
StyD4I CCNGG 1 cut(s) 19
StyI CCWWGG 2 cut(s) 412, 613
TaaI ACNGT 4 cut(s) 199, 232, 505, 639
TaiI ACGT 1 cut(s) 548
TaqI TCGA 2 cut(s) 464, 641
TasI AATT 5 cut(s) 207, 234, 324, 466, 673
TfiI GAWTC 2 cut(s) 33, 174
Tru1I TTAA 1 cut(s) 323
Tru9I TTAA 1 cut(s) 323
TscAI CASTG 1 cut(s) 642
TseI GCWGC 1 cut(s) 188
TspDTI ATGAA 2 cut(s) 282, 326
TspGWI ACGGA 1 cut(s) 150
TspRI CASTG 1 cut(s) 642
Van91I CCANNNNNTGG 2 cut(s) 184, 514
VpaK11BI GGWCC 2 cut(s) 55, 505
XapI RAATTY 1 cut(s) 466
XceI RCATGY 1 cut(s) 597
XspI CTAG 1 cut(s) 666
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.