Rh4BG108600

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0016020
Physical Location & Seq
Reverse (-)
18455512 .. 18459065
3554 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG108600.1

Sequence Viewer

Length: 504 bp
ATGAAGTATCACATGGAGAACACAGAAGCCTTCCTGAGGCTCTCTTCAGTTATCCTCTTGGTCCTCACTGCGTTACTAGTAGGACTTGATCACCAGACCAAATTTGTCTTCTTCGCTTACAGAAAAGCTTCTTTCGACCAGATCAATGCCCTCCTGGTTCTGGTTTATGTTGATGCTGTGGTTGCTGGATACAATCTGGTTCGACTGTTTGGCAAGTGTTCAATGTCAGCTGGTTTAGTCAAACAAAATCCACAAGGGTCCAGCGTATTCCTAGCTTGGCTTTCTCTATTGCTCGATCAGGTATTACACTTCACTTCCCTGGCTCTTACTCTGTTTACTCTTAGCCATAATACCACTGAGGGCTTCTTTCATACAGTTACCGGACGGTTGACAATTCCGGTTAATCGCACGATAATTCTCCGTGTATTACTTCAAACGGAGATAACTAAAAATGATAACCGCCTTTTTGGGGGAATAGTAAAATATTCATTTTTTCAAAATTAA
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

167

Amino Acids

18.82

Weight (kDa)

9.56

Isoelectric Point (pI)

25.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 7 - 108 6.6e-14 Casparian strip membrane protein domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016020)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25830
fragaria_vesca FvH4_4g09300
malus_domestica MD13G1269300.v1.1
prunus_persica Prupe.1G088100_v2.0.a1
pyrus_communis pycom13g22330
rosa_chinensis RchiOBHm_Chr4g0402761
rosa_laevigata RLG00000009048
rosa_multiflora Rmu_sc0002451.1_g000031
rosa_roxburghii Rroxscaffold_5G00347520
rosa_rugosa Rorug04G0038600
rosa_samantha Rh4AG116000 Rh4BG108600 Rh4CG123300 Rh4DG108800
rosa_wichuraiana Rw4G009280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 460
AcsI RAATTY 1 cut(s) 101
AcuI CTGAAG 1 cut(s) 30
AfiI CCNNNNNNNGG 3 cut(s) 36, 160, 469
AgsI TTSAA 3 cut(s) 222, 434, 497
AhlI ACTAGT 1 cut(s) 76
AjnI CCWGG 2 cut(s) 153, 318
AjuI GAANNNNNNNTTGG 2 cut(s) 92, 124
AluBI AGCT 3 cut(s) 128, 230, 275
AluI AGCT 3 cut(s) 128, 230, 275
ApoI RAATTY 1 cut(s) 101
Asp700I GAANNNNTTC 1 cut(s) 127
AspS9I GGNCC 2 cut(s) 61, 258
AsuHPI GGTGA 1 cut(s) 83
AvaII GGWCC 2 cut(s) 61, 258
AxyI CCTNAGG 1 cut(s) 35
BbsI GAAGAC 1 cut(s) 100
BciT130I CCWGG 2 cut(s) 155, 320
BciVI GTATCC 1 cut(s) 182
BclI TGATCA 1 cut(s) 88
BcuI ACTAGT 1 cut(s) 76
BfaI CTAG 2 cut(s) 77, 272
BfuI GTATCC 1 cut(s) 182
Bme1390I CCNGG 2 cut(s) 155, 320
Bme18I GGWCC 2 cut(s) 61, 258
BmgT120I GGNCC 2 cut(s) 61, 258
BmiI GGNNCC 1 cut(s) 259
BmrFI CCNGG 2 cut(s) 155, 320
BmsI GCATC 1 cut(s) 163
BpiI GAAGAC 1 cut(s) 100
BsaJI CCNNGG 1 cut(s) 318
BsaWI WCCGGW 2 cut(s) 380, 397
Bsc4I CCNNNNNNNGG 3 cut(s) 36, 160, 469
Bse21I CCTNAGG 1 cut(s) 35
BseBI CCWGG 2 cut(s) 155, 320
BseDI CCNNGG 1 cut(s) 318
BseLI CCNNNNNNNGG 3 cut(s) 36, 160, 469
BseMII CTCAG 2 cut(s) 26, 348
BsiSI CCGG 2 cut(s) 381, 398
BslI CCNNNNNNNGG 3 cut(s) 36, 160, 469
Bsp143I GATC 3 cut(s) 88, 141, 295
BspACI CCGC 1 cut(s) 460
BspCNI CTCAG 2 cut(s) 27, 349
BspLI GGNNCC 1 cut(s) 259
BssECI CCNNGG 1 cut(s) 318
BssMI GATC 3 cut(s) 88, 141, 295
Bst2UI CCWGG 2 cut(s) 155, 320
Bst4CI ACNGT 3 cut(s) 207, 376, 387
Bst6I CTCTTC 1 cut(s) 49
BstDEI CTNAG 3 cut(s) 35, 341, 357
BstENI CCTNNNNNAGG 1 cut(s) 34
BstKTI GATC 3 cut(s) 91, 144, 298
BstMBI GATC 3 cut(s) 88, 141, 295
BstMWI GCNNNNNNNGC 1 cut(s) 182
BstNI CCWGG 2 cut(s) 155, 320
BstSCI CCNGG 2 cut(s) 153, 318
BstV2I GAAGAC 1 cut(s) 100
Bsu36I CCTNAGG 1 cut(s) 35
BsuI GTATCC 1 cut(s) 182
BtsI GCAGTG 1 cut(s) 66
BtsIMutI CAGTG 2 cut(s) 66, 354
Cfr13I GGNCC 2 cut(s) 61, 258
CviAII CATG 1 cut(s) 13
CviJI RGCY 9 cut(s) 29, 40, 128, 230, 275, 280, 323, 345, 363
CviKI_1 RGCY 9 cut(s) 29, 40, 128, 230, 275, 280, 323, 345, 363
DdeI CTNAG 3 cut(s) 35, 341, 357
DpnI GATC 3 cut(s) 90, 143, 297
DpnII GATC 3 cut(s) 88, 141, 295
Eam1104I CTCTTC 1 cut(s) 49
EarI CTCTTC 1 cut(s) 49
Eco47I GGWCC 2 cut(s) 61, 258
Eco57I CTGAAG 1 cut(s) 30
Eco81I CCTNAGG 1 cut(s) 35
EcoNI CCTNNNNNAGG 1 cut(s) 34
EcoRII CCWGG 2 cut(s) 153, 318
FaeI CATG 1 cut(s) 16
FaiI YATR 4 cut(s) 14, 168, 348, 372
FatI CATG 1 cut(s) 12
FbaI TGATCA 1 cut(s) 88
FspBI CTAG 2 cut(s) 77, 272
HapII CCGG 2 cut(s) 381, 398
Hin1II CATG 1 cut(s) 16
HincII GTYRAC 1 cut(s) 390
HindII GTYRAC 1 cut(s) 390
HindIII AAGCTT 1 cut(s) 126
HpaII CCGG 2 cut(s) 381, 398
HphI GGTGA 1 cut(s) 83
Hpy166II GTNNAC 2 cut(s) 336, 390
Hpy188III TCNNGA 1 cut(s) 34
Hpy8I GTNNAC 2 cut(s) 336, 390
HpyAV CCTTC 1 cut(s) 40
HpyCH4III ACNGT 3 cut(s) 207, 376, 387
HpyF10VI GCNNNNNNNGC 1 cut(s) 182
HpyF3I CTNAG 3 cut(s) 35, 341, 357
Hsp92II CATG 1 cut(s) 16
Ksp22I TGATCA 1 cut(s) 88
Kzo9I GATC 3 cut(s) 88, 141, 295
LweI GCATC 1 cut(s) 163
MaeI CTAG 2 cut(s) 77, 272
MaeIII GTNAC 2 cut(s) 72, 376
MalI GATC 3 cut(s) 90, 143, 297
MboI GATC 3 cut(s) 88, 141, 295
MboII GAAGA 3 cut(s) 36, 100, 103
MluCI AATT 4 cut(s) 101, 393, 414, 499
MnlI CCTC 5 cut(s) 30, 65, 74, 161, 352
MroXI GAANNNNTTC 1 cut(s) 127
MseI TTAA 2 cut(s) 402, 502
MspA1I CMGCKG 1 cut(s) 230
MspI CCGG 2 cut(s) 381, 398
MspR9I CCNGG 2 cut(s) 155, 320
MvaI CCWGG 2 cut(s) 155, 320
MwoI GCNNNNNNNGC 1 cut(s) 182
NdeII GATC 3 cut(s) 88, 141, 295
NlaIII CATG 1 cut(s) 16
NlaIV GGNNCC 1 cut(s) 259
PdmI GAANNNNTTC 1 cut(s) 127
Psp6I CCWGG 2 cut(s) 153, 318
PspGI CCWGG 2 cut(s) 153, 318
PspN4I GGNNCC 1 cut(s) 259
PspPI GGNCC 2 cut(s) 61, 258
PvuII CAGCTG 1 cut(s) 230
SaqAI TTAA 2 cut(s) 402, 502
Sau3AI GATC 3 cut(s) 88, 141, 295
Sau96I GGNCC 2 cut(s) 61, 258
ScrFI CCNGG 2 cut(s) 155, 320
SetI ASST 4 cut(s) 130, 232, 277, 303
SfaNI GCATC 1 cut(s) 163
SinI GGWCC 2 cut(s) 61, 258
SpeI ACTAGT 1 cut(s) 76
Sse9I AATT 4 cut(s) 101, 393, 414, 499
SsiI CCGC 1 cut(s) 460
SspI AATATT 1 cut(s) 485
SspMI CTAG 2 cut(s) 77, 272
StyD4I CCNGG 2 cut(s) 153, 318
TaaI ACNGT 3 cut(s) 207, 376, 387
TaqI TCGA 3 cut(s) 135, 202, 294
TasI AATT 4 cut(s) 101, 393, 414, 499
Tru1I TTAA 2 cut(s) 402, 502
Tru9I TTAA 2 cut(s) 402, 502
TscAI CASTG 2 cut(s) 73, 361
TspDTI ATGAA 3 cut(s) 17, 359, 477
TspGWI ACGGA 2 cut(s) 410, 452
TspRI CASTG 2 cut(s) 73, 361
VpaK11BI GGWCC 2 cut(s) 61, 258
XagI CCTNNNNNAGG 1 cut(s) 34
XapI RAATTY 1 cut(s) 101
XmnI GAANNNNTTC 1 cut(s) 127
XspI CTAG 2 cut(s) 77, 272
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.