Rh4BG232400

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0010939
Physical Location & Seq
Reverse (-)
39770804 .. 39772804
2001 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG232400.1

Sequence Viewer

Length: 597 bp
ATGGCATCGACGGATAAGCCAGCTAACCCGGAAACCGGTAAGGAAGTTCCACCACCAAAGGCCTCGTACGGAGACACGCCTCCTCCTCCAAAAGCAGTTGACTTGTTTGCAGTCGATGTGGCACTTAGGTTCTTGGTGTTTGCAGCATCACTAACAAGTGTATTGGTCATGGTAACTAGCAAGCAGAGGGTATTCCAAGGCCCTATCCCGTTAAAAGCCAAGTTTGATCACTCTCCTGCCTTCATATACTTTGTAGTGGCACTATCAGTTGCAGGCCTCTATGCTATTCTTACTTCACTAGCATCCCTTTCAGTCATCTGGAAGCCAATATTCTCAACTAAGTTCTTGCTCCACTTTGCATTTTGGGATGTGCTGATACTGGGTCTAGTGGCCTCTGCCACGGGTACCGCCGGGGGTGTTGCGTATATTGGATACAAGGGCAATGAACATTTGCAGTGGAACAAGGTTTGCTCTATTTTTGACAAGTACTGCAAACATCTAGCAGGCTCCCTCGCTACGTCGTTGTTTGCTTCAGTTTTGCTGGTCCTTCTGGTGTGGCTGTCAACTTTCTCACTCCACAAGAAAATTCCCAAATAG
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

198

Amino Acids

21.41

Weight (kDa)

9.52

Isoelectric Point (pI)

24.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 37 - 180 1.9e-35 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: OG0010939)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G06390 AT4G15610 AT4G15610
fragaria_vesca FvH4_4g17250
malus_domestica MD13G1173500.v1.1 MD16G1174700.v1.1
prunus_persica Prupe.1G141700_v2.0.a1 Prupe.1G141700_v2.0.a1
pyrus_communis pycom13g14910 pycom16g14660
rosa_chinensis RchiOBHm_Chr4g0421171
rosa_laevigata RLG00000007710
rosa_multiflora Rmu_sc0009290.1_g000005
rosa_roxburghii Rroxscaffold_5G00363470
rosa_rugosa Rorug04G0170000
rosa_samantha Rh4AG229700 Rh4BG232400 Rh4CG244000 Rh4DG228100
rosa_wichuraiana Rw4G020410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 404
AccB1I GGYRCC 1 cut(s) 404
AciI CCGC 1 cut(s) 408
AcsI RAATTY 1 cut(s) 585
AcuI CTGAAG 1 cut(s) 516
AfaI GTAC 3 cut(s) 68, 406, 488
AfiI CCNNNNNNNGG 1 cut(s) 35
AgeI ACCGGT 1 cut(s) 35
AluBI AGCT 1 cut(s) 23
AluI AGCT 1 cut(s) 23
Alw26I GTCTC 1 cut(s) 66
AoxI GGCC 4 cut(s) 60, 199, 274, 390
ApeKI GCWGC 1 cut(s) 143
ApoI RAATTY 1 cut(s) 585
AsiGI ACCGGT 1 cut(s) 35
Asp718I GGTACC 1 cut(s) 404
AspS9I GGNCC 2 cut(s) 200, 544
AsuC2I CCSGG 2 cut(s) 29, 412
AvaII GGWCC 1 cut(s) 544
BanI GGYRCC 1 cut(s) 404
BbvI GCAGC 1 cut(s) 155
BciVI GTATCC 1 cut(s) 425
BclI TGATCA 1 cut(s) 226
BcnI CCSGG 2 cut(s) 29, 412
BcoDI GTCTC 1 cut(s) 66
BfaI CTAG 4 cut(s) 177, 299, 386, 500
BfuI GTATCC 1 cut(s) 425
BisI GCNGC 1 cut(s) 144
BlsI GCNGC 1 cut(s) 145
BmcAI AGTACT 1 cut(s) 488
Bme1390I CCNGG 2 cut(s) 29, 412
Bme18I GGWCC 1 cut(s) 544
BmgT120I GGNCC 2 cut(s) 200, 544
BmiI GGNNCC 2 cut(s) 406, 508
BmrFI CCNGG 2 cut(s) 29, 412
BmrI ACTGGG 1 cut(s) 389
BmsI GCATC 3 cut(s) 14, 155, 311
BmuI ACTGGG 1 cut(s) 389
BpuMI CCSGG 2 cut(s) 29, 412
BsaJI CCNNGG 3 cut(s) 196, 399, 411
BsaWI WCCGGW 1 cut(s) 35
BsaXI ACNNNNNCTCC 2 cut(s) 67, 97
Bsc4I CCNNNNNNNGG 1 cut(s) 35
Bse118I RCCGGY 1 cut(s) 35
Bse1I ACTGG 1 cut(s) 384
Bse3DI GCAATG 1 cut(s) 448
BseDI CCNNGG 3 cut(s) 196, 399, 411
BseGI GGATG 2 cut(s) 302, 373
BseLI CCNNNNNNNGG 1 cut(s) 35
BseMI GCAATG 1 cut(s) 448
BseNI ACTGG 1 cut(s) 384
BseRI GAGGAG 2 cut(s) 72, 75
BseXI GCAGC 1 cut(s) 155
BshFI GGCC 4 cut(s) 62, 201, 276, 392
BshNI GGYRCC 1 cut(s) 404
BshTI ACCGGT 1 cut(s) 35
BsiSI CCGG 3 cut(s) 29, 36, 411
BsiWI CGTACG 1 cut(s) 66
BslI CCNNNNNNNGG 1 cut(s) 35
BsmAI GTCTC 1 cut(s) 66
BsnI GGCC 4 cut(s) 62, 201, 276, 392
Bsp143I GATC 1 cut(s) 226
BspACI CCGC 1 cut(s) 408
BspANI GGCC 4 cut(s) 62, 201, 276, 392
BspLI GGNNCC 2 cut(s) 406, 508
BspT107I GGYRCC 1 cut(s) 404
BsrDI GCAATG 1 cut(s) 448
BsrFI RCCGGY 1 cut(s) 35
BsrI ACTGG 1 cut(s) 384
BssAI RCCGGY 1 cut(s) 35
BssECI CCNNGG 3 cut(s) 196, 399, 411
BssMI GATC 1 cut(s) 226
BssT1I CCWWGG 1 cut(s) 196
BstC8I GCNNGC 4 cut(s) 21, 182, 274, 505
BstDEI CTNAG 2 cut(s) 125, 339
BstDSI CCRYGG 1 cut(s) 399
BstF5I GGATG 2 cut(s) 302, 373
BstKTI GATC 1 cut(s) 229
BstMAI GTCTC 1 cut(s) 66
BstMBI GATC 1 cut(s) 226
BstSCI CCNGG 2 cut(s) 27, 410
BstV1I GCAGC 1 cut(s) 155
BsuI GTATCC 1 cut(s) 425
BsuRI GGCC 4 cut(s) 62, 201, 276, 392
BtgI CCRYGG 1 cut(s) 399
BtsCI GGATG 2 cut(s) 302, 373
BtsI GCAGTG 1 cut(s) 461
BtsIMutI CAGTG 1 cut(s) 461
Cac8I GCNNGC 4 cut(s) 21, 182, 274, 505
Cfr10I RCCGGY 1 cut(s) 35
Cfr13I GGNCC 2 cut(s) 200, 544
Csp6I GTAC 3 cut(s) 67, 405, 487
CspAI ACCGGT 1 cut(s) 35
CviAII CATG 1 cut(s) 169
CviQI GTAC 3 cut(s) 67, 405, 487
DdeI CTNAG 2 cut(s) 125, 339
DpnI GATC 1 cut(s) 228
DpnII GATC 1 cut(s) 226
Eco130I CCWWGG 1 cut(s) 196
Eco147I AGGCCT 2 cut(s) 62, 276
Eco47I GGWCC 1 cut(s) 544
Eco57I CTGAAG 1 cut(s) 516
EcoO109I RGGNCCY 1 cut(s) 200
EcoT14I CCWWGG 1 cut(s) 196
ErhI CCWWGG 1 cut(s) 196
FaeI CATG 1 cut(s) 172
FaiI YATR 5 cut(s) 170, 245, 247, 282, 426
FatI CATG 1 cut(s) 168
FbaI TGATCA 1 cut(s) 226
Fnu4HI GCNGC 1 cut(s) 144
FokI GGATG 2 cut(s) 289, 380
Fsp4HI GCNGC 1 cut(s) 144
FspBI CTAG 4 cut(s) 177, 299, 386, 500
GluI GCNGC 1 cut(s) 144
HaeIII GGCC 4 cut(s) 62, 201, 276, 392
HapII CCGG 3 cut(s) 29, 36, 411
Hin1II CATG 1 cut(s) 172
HincII GTYRAC 2 cut(s) 100, 564
HindII GTYRAC 2 cut(s) 100, 564
HpaII CCGG 3 cut(s) 29, 36, 411
Hpy166II GTNNAC 2 cut(s) 100, 564
Hpy188III TCNNGA 1 cut(s) 319
Hpy8I GTNNAC 2 cut(s) 100, 564
Hpy99I CGWCG 2 cut(s) 13, 523
HpyAV CCTTC 2 cut(s) 250, 557
HpyCH4IV ACGT 1 cut(s) 518
HpyCH4V TGCA 6 cut(s) 110, 143, 272, 359, 454, 492
HpyF3I CTNAG 2 cut(s) 125, 339
HpySE526I ACGT 1 cut(s) 518
Hsp92II CATG 1 cut(s) 172
KpnI GGTACC 1 cut(s) 408
Ksp22I TGATCA 1 cut(s) 226
Kzo9I GATC 1 cut(s) 226
LmnI GCTCC 2 cut(s) 354, 512
Lsp1109I GCAGC 1 cut(s) 155
LweI GCATC 3 cut(s) 14, 155, 311
MaeI CTAG 4 cut(s) 177, 299, 386, 500
MaeII ACGT 1 cut(s) 518
MaeIII GTNAC 1 cut(s) 172
MalI GATC 1 cut(s) 228
MboI GATC 1 cut(s) 226
MluCI AATT 1 cut(s) 585
MnlI CCTC 8 cut(s) 73, 90, 93, 96, 180, 287, 403, 521
MseI TTAA 1 cut(s) 212
MspI CCGG 3 cut(s) 29, 36, 411
MspR9I CCNGG 2 cut(s) 29, 412
NciI CCSGG 2 cut(s) 29, 412
NdeII GATC 1 cut(s) 226
NlaIII CATG 1 cut(s) 172
NlaIV GGNNCC 2 cut(s) 406, 508
PceI AGGCCT 2 cut(s) 62, 276
Pfl23II CGTACG 1 cut(s) 66
PinAI ACCGGT 1 cut(s) 35
PkrI GCNGC 1 cut(s) 145
PspLI CGTACG 1 cut(s) 66
PspN4I GGNNCC 2 cut(s) 406, 508
PspPI GGNCC 2 cut(s) 200, 544
RsaI GTAC 3 cut(s) 68, 406, 488
RsaNI GTAC 3 cut(s) 67, 405, 487
SaqAI TTAA 1 cut(s) 212
SatI GCNGC 1 cut(s) 144
Sau3AI GATC 1 cut(s) 226
Sau96I GGNCC 2 cut(s) 200, 544
ScaI AGTACT 1 cut(s) 488
ScrFI CCNGG 2 cut(s) 29, 412
SetI ASST 4 cut(s) 25, 131, 468, 521
SfaNI GCATC 3 cut(s) 14, 155, 311
SinI GGWCC 1 cut(s) 544
Sse9I AATT 1 cut(s) 585
SseBI AGGCCT 2 cut(s) 62, 276
SsiI CCGC 1 cut(s) 408
SspI AATATT 1 cut(s) 330
SspMI CTAG 4 cut(s) 177, 299, 386, 500
StuI AGGCCT 2 cut(s) 62, 276
StyD4I CCNGG 2 cut(s) 27, 410
StyI CCWWGG 1 cut(s) 196
TaiI ACGT 1 cut(s) 521
TaqI TCGA 2 cut(s) 8, 114
TasI AATT 1 cut(s) 585
TatI WGTACW 1 cut(s) 486
Tru1I TTAA 1 cut(s) 212
Tru9I TTAA 1 cut(s) 212
TscAI CASTG 1 cut(s) 461
TseI GCWGC 1 cut(s) 143
TspDTI ATGAA 2 cut(s) 232, 459
TspGWI ACGGA 2 cut(s) 26, 84
TspRI CASTG 1 cut(s) 461
VpaK11BI GGWCC 1 cut(s) 544
XapI RAATTY 1 cut(s) 585
XspI CTAG 4 cut(s) 177, 299, 386, 500
ZrmI AGTACT 1 cut(s) 488
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.