Rh1AG337900

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0016116
Physical Location & Seq
Reverse (-)
57158791 .. 57162919
4129 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG337900.1

Sequence Viewer

Length: 588 bp
ATGCGCTCCGCTCATCCCCAAAACGGCGGCGAAACCCCCTACCAAATCCCCACCCACCCTAACTTCCAGTCCACCGTCTCCCTCCGCAAGCTCCGCCGCTTCAACTACCTCATCCTCATCTTCCGCGTCGCCACCTTCAGCTCCTCCCTCGCCTCGTTCGTCTTCATGCTCACCACCTCCCGCGACTCCGACCCCTCCTCCCCTCGCTGGTACCACTTCGACGCCTTCAGATTAGTGGTGGGAGCGAATGCGATAGTGGCGATATACTCGCTCTTCGAAATGGTGGCGTCGGTTTGGGAGATTTCCAGAGGCTCAACTCTGTTCAGCGAGGTGTTGCAGGTCTGGTTCGACTTCAGCCACGACCAGGTGTTCGCGTACCTGCTGCTGTCTGCGGACTCGGCGGGAACGGCGCTGGCGAGGGTTTTGAAAGGGATGGACACGTGTACGGCGTGGAGCGCTTTCTGCATAGAGACGGACATATCGATCGCGTTGGGGTTTGTCGGGTTTTTGTTCCTGGGCTTTTCGTCCGTGCTCTCGGGCTTTCGGGTCGCCTGCTTCGTAATCAAGGGTTCTCGTTTTCACATTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0048037 GO:0051536 GO:0051540
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF588

Protein Analysis

195

Amino Acids

21.8

Weight (kDa)

8.54

Isoelectric Point (pI)

40.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 36 - 171 3e-28 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: OG0016116)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G55390
fragaria_vesca FvH4_7g22070
malus_domestica MD01G1125700.v1.1
prunus_persica Prupe.2G232700_v2.0.a1
pyrus_communis pycom01g15150
rosa_chinensis RchiOBHm_Chr1g0366461
rosa_laevigata RLG00000027346
rosa_roxburghii Rroxscaffold_4G00289920 Rroxscaffold_4G00290180
rosa_rugosa Rorug01G0330000
rosa_samantha Rh1AG337900 Rh1BG299400 Rh1CG314500 Rh1DG331200
rosa_wichuraiana Rw1G029920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 328, 387
Acc65I GGTACC 1 cut(s) 210
AccB1I GGYRCC 1 cut(s) 210
AccBSI CCGCTC 1 cut(s) 11
AccII CGCG 4 cut(s) 126, 183, 374, 488
AciI CCGC 9 cut(s) 9, 27, 85, 94, 97, 124, 181, 392, 401
AcuI CTGAAG 3 cut(s) 121, 211, 337
AcvI CACGTG 1 cut(s) 441
AcyI GRCGYC 2 cut(s) 222, 287
AfaI GTAC 3 cut(s) 212, 377, 445
AfeI AGCGCT 1 cut(s) 457
AfiI CCNNNNNNNGG 3 cut(s) 23, 207, 364
AflIII ACRYGT 2 cut(s) 438, 440
AgsI TTSAA 2 cut(s) 103, 427
AjnI CCWGG 2 cut(s) 363, 513
AluBI AGCT 2 cut(s) 91, 141
AluI AGCT 2 cut(s) 91, 141
Alw21I GWGCWC 1 cut(s) 534
Alw26I GTCTC 2 cut(s) 82, 464
Ama87I CYCGRG 1 cut(s) 535
Aor51HI AGCGCT 1 cut(s) 457
ApeKI GCWGC 1 cut(s) 382
ArsI GACNNNNNNTTYG 2 cut(s) 353, 385
Asp718I GGTACC 1 cut(s) 210
AspLEI GCGC 3 cut(s) 6, 412, 458
AsuHPI GGTGA 1 cut(s) 163
AsuII TTCGAA 1 cut(s) 276
AvaI CYCGRG 1 cut(s) 535
BanI GGYRCC 1 cut(s) 210
BbrPI CACGTG 1 cut(s) 441
BbsI GAAGAC 1 cut(s) 154
Bbv12I GWGCWC 1 cut(s) 534
BbvI GCAGC 1 cut(s) 369
BccI CCATC 1 cut(s) 427
BceAI ACGGC 3 cut(s) 40, 423, 462
BciT130I CCWGG 2 cut(s) 365, 515
BcoDI GTCTC 2 cut(s) 82, 464
BfoI RGCGCY 2 cut(s) 413, 459
BfuAI ACCTGC 2 cut(s) 328, 387
BisI GCNGC 3 cut(s) 28, 97, 383
BlsI GCNGC 3 cut(s) 29, 98, 384
Bme1390I CCNGG 2 cut(s) 365, 515
BmeT110I CYCGRG 1 cut(s) 535
BmiI GGNNCC 1 cut(s) 212
BmrFI CCNGG 2 cut(s) 365, 515
BpiI GAAGAC 1 cut(s) 154
Bpu14I TTCGAA 1 cut(s) 276
Bsa29I ATCGAT 1 cut(s) 482
BsaAI YACGTR 1 cut(s) 441
BsaHI GRCGYC 2 cut(s) 222, 287
BsaJI CCNNGG 1 cut(s) 514
BsaXI ACNNNNNCTCC 2 cut(s) 182, 212
Bsc4I CCNNNNNNNGG 3 cut(s) 23, 207, 364
Bse1I ACTGG 1 cut(s) 67
BseBI CCWGG 2 cut(s) 365, 515
BseCI ATCGAT 1 cut(s) 482
BseDI CCNNGG 1 cut(s) 514
BseGI GGATG 3 cut(s) 13, 111, 438
BseLI CCNNNNNNNGG 3 cut(s) 23, 207, 364
BseNI ACTGG 1 cut(s) 67
BseRI GAGGAG 2 cut(s) 133, 187
BseXI GCAGC 1 cut(s) 369
Bsh1236I CGCG 4 cut(s) 126, 183, 374, 488
Bsh1285I CGRYCG 1 cut(s) 486
BshNI GGYRCC 1 cut(s) 210
BshVI ATCGAT 1 cut(s) 482
BsiEI CGRYCG 1 cut(s) 486
BsiHKAI GWGCWC 1 cut(s) 534
BsiHKCI CYCGRG 1 cut(s) 535
BslI CCNNNNNNNGG 3 cut(s) 23, 207, 364
BsmAI GTCTC 2 cut(s) 82, 464
BsmBI CGTCTC 2 cut(s) 82, 464
BsmI GAATGC 1 cut(s) 253
BsoBI CYCGRG 1 cut(s) 535
Bsp119I TTCGAA 1 cut(s) 276
Bsp1286I GDGCHC 1 cut(s) 534
Bsp143I GATC 1 cut(s) 483
BspACI CCGC 9 cut(s) 9, 27, 85, 94, 97, 124, 181, 392, 401
BspDI ATCGAT 1 cut(s) 482
BspFNI CGCG 4 cut(s) 126, 183, 374, 488
BspLI GGNNCC 1 cut(s) 212
BspMI ACCTGC 2 cut(s) 328, 387
BspQI GCTCTTC 1 cut(s) 278
BspT104I TTCGAA 1 cut(s) 276
BspT107I GGYRCC 1 cut(s) 210
BsrBI CCGCTC 1 cut(s) 11
BsrI ACTGG 1 cut(s) 67
BssECI CCNNGG 1 cut(s) 514
BssMI GATC 1 cut(s) 483
BssNI GRCGYC 2 cut(s) 222, 287
Bst2UI CCWGG 2 cut(s) 365, 515
Bst4CI ACNGT 1 cut(s) 76
Bst6I CTCTTC 1 cut(s) 278
BstACI GRCGYC 2 cut(s) 222, 287
BstBAI YACGTR 1 cut(s) 441
BstBI TTCGAA 1 cut(s) 276
BstC8I GCNNGC 3 cut(s) 89, 414, 553
BstF5I GGATG 3 cut(s) 13, 111, 438
BstFNI CGCG 4 cut(s) 126, 183, 374, 488
BstH2I RGCGCY 2 cut(s) 413, 459
BstHHI GCGC 3 cut(s) 6, 412, 458
BstKTI GATC 1 cut(s) 486
BstMAI GTCTC 2 cut(s) 82, 464
BstMBI GATC 1 cut(s) 483
BstMCI CGRYCG 1 cut(s) 486
BstMWI GCNNNNNNNGC 6 cut(s) 93, 257, 398, 407, 455, 462
BstNI CCWGG 2 cut(s) 365, 515
BstSCI CCNGG 2 cut(s) 363, 513
BstUI CGCG 4 cut(s) 126, 183, 374, 488
BstV1I GCAGC 1 cut(s) 369
BstV2I GAAGAC 1 cut(s) 154
Bsu15I ATCGAT 1 cut(s) 482
BsuTUI ATCGAT 1 cut(s) 482
BtsCI GGATG 3 cut(s) 13, 111, 438
BveI ACCTGC 2 cut(s) 328, 387
Cac8I GCNNGC 3 cut(s) 89, 414, 553
CfoI GCGC 3 cut(s) 6, 412, 458
ClaI ATCGAT 1 cut(s) 482
CseI GACGC 3 cut(s) 115, 230, 276
CsiI ACCWGGT 1 cut(s) 363
Csp6I GTAC 3 cut(s) 211, 376, 444
CviAII CATG 1 cut(s) 166
CviJI RGCY 6 cut(s) 91, 141, 312, 357, 519, 540
CviKI_1 RGCY 6 cut(s) 91, 141, 312, 357, 519, 540
CviQI GTAC 3 cut(s) 211, 376, 444
DpnI GATC 1 cut(s) 485
DpnII GATC 1 cut(s) 483
Eam1104I CTCTTC 1 cut(s) 278
EarI CTCTTC 1 cut(s) 278
EciI GGCGGA 1 cut(s) 83
Eco47III AGCGCT 1 cut(s) 457
Eco57I CTGAAG 3 cut(s) 121, 211, 337
Eco72I CACGTG 1 cut(s) 441
Eco88I CYCGRG 1 cut(s) 535
EcoRII CCWGG 2 cut(s) 363, 513
Esp3I CGTCTC 2 cut(s) 82, 464
FaeI CATG 1 cut(s) 169
FaiI YATR 4 cut(s) 167, 265, 467, 479
FatI CATG 1 cut(s) 165
FauI CCCGC 2 cut(s) 188, 394
Fnu4HI GCNGC 3 cut(s) 28, 97, 383
FokI GGATG 2 cut(s) 98, 445
Fsp4HI GCNGC 3 cut(s) 28, 97, 383
GlaI GCGC 3 cut(s) 5, 411, 457
GluI GCNGC 3 cut(s) 28, 97, 383
HaeII RGCGCY 2 cut(s) 413, 459
HgaI GACGC 3 cut(s) 115, 230, 276
HhaI GCGC 3 cut(s) 6, 412, 458
Hin1I GRCGYC 2 cut(s) 222, 287
Hin1II CATG 1 cut(s) 169
Hin6I GCGC 3 cut(s) 4, 410, 456
HinP1I GCGC 3 cut(s) 4, 410, 456
HinfI GANTC 2 cut(s) 185, 395
HphI GGTGA 1 cut(s) 163
Hpy166II GTNNAC 2 cut(s) 72, 444
Hpy188I TCNGA 2 cut(s) 190, 230
Hpy188III TCNNGA 1 cut(s) 306
Hpy8I GTNNAC 2 cut(s) 72, 444
Hpy99I CGWCG 3 cut(s) 131, 224, 292
HpyAV CCTTC 2 cut(s) 145, 235
HpyCH4III ACNGT 1 cut(s) 76
HpyCH4IV ACGT 1 cut(s) 440
HpyCH4V TGCA 2 cut(s) 337, 465
HpyF10VI GCNNNNNNNGC 6 cut(s) 93, 257, 398, 407, 455, 462
HpySE526I ACGT 1 cut(s) 440
Hsp92I GRCGYC 2 cut(s) 222, 287
Hsp92II CATG 1 cut(s) 169
HspAI GCGC 3 cut(s) 4, 410, 456
KpnI GGTACC 1 cut(s) 214
Kzo9I GATC 1 cut(s) 483
LguI GCTCTTC 1 cut(s) 278
LmnI GCTCC 5 cut(s) 11, 96, 146, 242, 453
Lsp1109I GCAGC 1 cut(s) 369
MabI ACCWGGT 1 cut(s) 363
MaeII ACGT 1 cut(s) 440
MalI GATC 1 cut(s) 485
MbiI CCGCTC 1 cut(s) 11
MboI GATC 1 cut(s) 483
MboII GAAGA 3 cut(s) 112, 154, 265
MhlI GDGCHC 1 cut(s) 534
MlyI GAGTC 2 cut(s) 179, 389
MmeI TCCRAC 1 cut(s) 213
MspR9I CCNGG 2 cut(s) 365, 515
Mva1269I GAATGC 1 cut(s) 253
MvaI CCWGG 2 cut(s) 365, 515
MvnI CGCG 4 cut(s) 126, 183, 374, 488
MwoI GCNNNNNNNGC 6 cut(s) 93, 257, 398, 407, 455, 462
NdeII GATC 1 cut(s) 483
NlaIII CATG 1 cut(s) 169
NlaIV GGNNCC 1 cut(s) 212
NmeAIII GCCGAG 1 cut(s) 377
NspV TTCGAA 1 cut(s) 276
PciSI GCTCTTC 1 cut(s) 278
PcsI WCGNNNNNNNCGW 5 cut(s) 156, 413, 446, 479, 555
PctI GAATGC 1 cut(s) 253
PkrI GCNGC 3 cut(s) 29, 98, 384
Ple19I CGATCG 1 cut(s) 486
PleI GAGTC 2 cut(s) 179, 389
PmaCI CACGTG 1 cut(s) 441
PmlI CACGTG 1 cut(s) 441
PpsI GAGTC 2 cut(s) 179, 389
Ppu21I YACGTR 1 cut(s) 441
Psp6I CCWGG 2 cut(s) 363, 513
PspCI CACGTG 1 cut(s) 441
PspGI CCWGG 2 cut(s) 363, 513
PspN4I GGNNCC 1 cut(s) 212
PvuI CGATCG 1 cut(s) 486
RsaI GTAC 3 cut(s) 212, 377, 445
RsaNI GTAC 3 cut(s) 211, 376, 444
SapI GCTCTTC 1 cut(s) 278
SatI GCNGC 3 cut(s) 28, 97, 383
Sau3AI GATC 1 cut(s) 483
SchI GAGTC 2 cut(s) 179, 389
ScrFI CCNGG 2 cut(s) 365, 515
SduI GDGCHC 1 cut(s) 534
SexAI ACCWGGT 1 cut(s) 363
SfuI TTCGAA 1 cut(s) 276
SsiI CCGC 9 cut(s) 9, 27, 85, 94, 97, 124, 181, 392, 401
StyD4I CCNGG 2 cut(s) 363, 513
TaaI ACNGT 1 cut(s) 76
TaiI ACGT 1 cut(s) 443
TaqI TCGA 4 cut(s) 219, 276, 348, 482
TauI GCSGC 2 cut(s) 30, 99
TseI GCWGC 1 cut(s) 382
TspDTI ATGAA 1 cut(s) 154
TspGWI ACGGA 2 cut(s) 488, 517
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.