Rh4CG244000

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0010939
Physical Location & Seq
Reverse (-)
49219651 .. 49225598
5948 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG244000.1

Sequence Viewer

Length: 459 bp
ATGGCATCGACGGATAAGTCAGCTAACCCGGAAACCGGTAAGGAAGTTCCACCACCAAAGGCCTCGTACGGAGACACGCCTCCTCCTCCTCCTCCTCCAAAAGCAGTTGACTTGTTTGCAGTCGATGTGGCACTTAGGTTCTTGGTGTTTGCAGCATCACTAACAAGTGTATTGGTCATGGTAACTAGCAAGCAGACGGTATTCCGAGGCCCTATCCCGTTAAAAGCCAAGTTTGATCACTCTCCTGCCCTCATATACTTTGTAGTGGCACTATCAGTTGCAGGCCTCTATGGTATTCTTACTACACTAGCATCCCTTTCAGTCATCTGGAAGCCAATATTCTCAACCAAGTTCTTGCTCCACTTTGCATTTTGGGATGTGGTAAGCAAGCTCAGCTGCATTCTTTCTGTATATAGTATATTTGTACCAACAACACAAACAAACTGGACGGTACTATGA
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

152

Amino Acids

16.47

Weight (kDa)

9.3

Isoelectric Point (pI)

23.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 40 - 128 1.4e-14 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)
AasI GACNNNNNNGTC 1 cut(s) 16
AfaI GTAC 3 cut(s) 68, 426, 453
AfiI CCNNNNNNNGG 1 cut(s) 35
AgeI ACCGGT 1 cut(s) 35
AluBI AGCT 3 cut(s) 23, 391, 396
AluI AGCT 3 cut(s) 23, 391, 396
Alw26I GTCTC 1 cut(s) 66
AoxI GGCC 3 cut(s) 60, 208, 283
ApeKI GCWGC 2 cut(s) 152, 396
AsiGI ACCGGT 1 cut(s) 35
AspS9I GGNCC 1 cut(s) 209
AsuC2I CCSGG 1 cut(s) 29
BbvI GCAGC 2 cut(s) 164, 383
BclI TGATCA 1 cut(s) 235
BcnI CCSGG 1 cut(s) 29
BcoDI GTCTC 1 cut(s) 66
BfaI CTAG 2 cut(s) 186, 308
BisI GCNGC 2 cut(s) 153, 397
BlpI GCTNAGC 1 cut(s) 392
BlsI GCNGC 2 cut(s) 154, 398
Bme1390I CCNGG 1 cut(s) 29
BmgT120I GGNCC 1 cut(s) 209
BmrFI CCNGG 1 cut(s) 29
BmsI GCATC 3 cut(s) 14, 164, 320
Bpu1102I GCTNAGC 1 cut(s) 392
BpuMI CCSGG 1 cut(s) 29
BsaJI CCNNGG 1 cut(s) 205
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) 449
BseDI CCNNGG 1 cut(s) 205
BseGI GGATG 2 cut(s) 311, 382
BseLI CCNNNNNNNGG 1 cut(s) 35
BseMII CTCAG 1 cut(s) 406
BseNI ACTGG 1 cut(s) 449
BseRI GAGGAG 5 cut(s) 72, 75, 78, 81, 84
BseXI GCAGC 2 cut(s) 164, 383
BshFI GGCC 3 cut(s) 62, 210, 285
BshTI ACCGGT 1 cut(s) 35
BsiSI CCGG 2 cut(s) 29, 36
BsiWI CGTACG 1 cut(s) 66
BslI CCNNNNNNNGG 1 cut(s) 35
BsmAI GTCTC 1 cut(s) 66
BsmI GAATGC 1 cut(s) 399
BsnI GGCC 3 cut(s) 62, 210, 285
Bsp143I GATC 1 cut(s) 235
Bsp1720I GCTNAGC 1 cut(s) 392
BspANI GGCC 3 cut(s) 62, 210, 285
BspCNI CTCAG 1 cut(s) 405
BsrFI RCCGGY 1 cut(s) 35
BsrI ACTGG 1 cut(s) 449
BssAI RCCGGY 1 cut(s) 35
BssECI CCNNGG 1 cut(s) 205
BssMI GATC 1 cut(s) 235
Bst4CI ACNGT 2 cut(s) 199, 451
BstC8I GCNNGC 3 cut(s) 191, 283, 389
BstDEI CTNAG 2 cut(s) 134, 392
BstF5I GGATG 2 cut(s) 311, 382
BstKTI GATC 1 cut(s) 238
BstMAI GTCTC 1 cut(s) 66
BstMBI GATC 1 cut(s) 235
BstMWI GCNNNNNNNGC 1 cut(s) 393
BstSCI CCNGG 1 cut(s) 27
BstV1I GCAGC 2 cut(s) 164, 383
BsuRI GGCC 3 cut(s) 62, 210, 285
BtsCI GGATG 2 cut(s) 311, 382
Cac8I GCNNGC 3 cut(s) 191, 283, 389
Cfr10I RCCGGY 1 cut(s) 35
Cfr13I GGNCC 1 cut(s) 209
Csp6I GTAC 3 cut(s) 67, 425, 452
CspAI ACCGGT 1 cut(s) 35
CviAII CATG 1 cut(s) 178
CviJI RGCY 8 cut(s) 23, 62, 210, 227, 285, 334, 391, 396
CviKI_1 RGCY 8 cut(s) 23, 62, 210, 227, 285, 334, 391, 396
CviQI GTAC 3 cut(s) 67, 425, 452
DdeI CTNAG 2 cut(s) 134, 392
DpnI GATC 1 cut(s) 237
DpnII GATC 1 cut(s) 235
DrdI GACNNNNNNGTC 1 cut(s) 16
DseDI GACNNNNNNGTC 1 cut(s) 16
Eco147I AGGCCT 2 cut(s) 62, 285
EcoO109I RGGNCCY 1 cut(s) 209
FaeI CATG 1 cut(s) 181
FaiI YATR 8 cut(s) 179, 254, 256, 291, 412, 414, 419, 457
FatI CATG 1 cut(s) 177
FbaI TGATCA 1 cut(s) 235
Fnu4HI GCNGC 2 cut(s) 153, 397
FokI GGATG 2 cut(s) 298, 389
Fsp4HI GCNGC 2 cut(s) 153, 397
FspBI CTAG 2 cut(s) 186, 308
GluI GCNGC 2 cut(s) 153, 397
HaeIII GGCC 3 cut(s) 62, 210, 285
HapII CCGG 2 cut(s) 29, 36
Hin1II CATG 1 cut(s) 181
HincII GTYRAC 1 cut(s) 109
HindII GTYRAC 1 cut(s) 109
HpaII CCGG 2 cut(s) 29, 36
Hpy166II GTNNAC 1 cut(s) 109
Hpy188I TCNGA 1 cut(s) 206
Hpy188III TCNNGA 1 cut(s) 328
Hpy8I GTNNAC 1 cut(s) 109
Hpy99I CGWCG 1 cut(s) 13
HpyCH4III ACNGT 2 cut(s) 199, 451
HpyCH4V TGCA 5 cut(s) 119, 152, 281, 368, 399
HpyF10VI GCNNNNNNNGC 1 cut(s) 393
HpyF3I CTNAG 2 cut(s) 134, 392
Hsp92II CATG 1 cut(s) 181
Ksp22I TGATCA 1 cut(s) 235
Kzo9I GATC 1 cut(s) 235
LmnI GCTCC 1 cut(s) 363
LpnPI CCDG 6 cut(s) 42, 49, 258, 267, 313, 430
Lsp1109I GCAGC 2 cut(s) 164, 383
LweI GCATC 3 cut(s) 14, 164, 320
MaeI CTAG 2 cut(s) 186, 308
MaeIII GTNAC 1 cut(s) 181
MalI GATC 1 cut(s) 237
MboI GATC 1 cut(s) 235
MseI TTAA 1 cut(s) 221
MspA1I CMGCKG 1 cut(s) 396
MspI CCGG 2 cut(s) 29, 36
MspR9I CCNGG 1 cut(s) 29
Mva1269I GAATGC 1 cut(s) 399
MwoI GCNNNNNNNGC 1 cut(s) 393
NciI CCSGG 1 cut(s) 29
NdeII GATC 1 cut(s) 235
NlaIII CATG 1 cut(s) 181
PceI AGGCCT 2 cut(s) 62, 285
PctI GAATGC 1 cut(s) 399
Pfl23II CGTACG 1 cut(s) 66
PinAI ACCGGT 1 cut(s) 35
PkrI GCNGC 2 cut(s) 154, 398
PspLI CGTACG 1 cut(s) 66
PspPI GGNCC 1 cut(s) 209
PvuII CAGCTG 1 cut(s) 396
RsaI GTAC 3 cut(s) 68, 426, 453
RsaNI GTAC 3 cut(s) 67, 425, 452
SaqAI TTAA 1 cut(s) 221
SatI GCNGC 2 cut(s) 153, 397
Sau3AI GATC 1 cut(s) 235
Sau96I GGNCC 1 cut(s) 209
ScrFI CCNGG 1 cut(s) 29
SetI ASST 4 cut(s) 25, 140, 393, 398
SfaNI GCATC 3 cut(s) 14, 164, 320
SseBI AGGCCT 2 cut(s) 62, 285
SspI AATATT 1 cut(s) 339
SspMI CTAG 2 cut(s) 186, 308
StuI AGGCCT 2 cut(s) 62, 285
StyD4I CCNGG 1 cut(s) 27
TaaI ACNGT 2 cut(s) 199, 451
TaqI TCGA 2 cut(s) 8, 123
Tru1I TTAA 1 cut(s) 221
Tru9I TTAA 1 cut(s) 221
TseI GCWGC 2 cut(s) 152, 396
TspGWI ACGGA 2 cut(s) 26, 84
XspI CTAG 2 cut(s) 186, 308
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.