Rw5G030990

Inner membrane component of T3SS, cytoplasmic domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0013459
Physical Location & Seq
Forward (+)
50114361 .. 50118439
4079 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G030990.1

Sequence Viewer

Length: 684 bp
ATGGAAATAACAGCCCACTCTCTTTCCCATTTCTCTGCATCTCCTCGCTTGTTTCGTTCCAATTCCAAAGCCTCCTCCTCTTCTCTTCTTGCTTCTACTACTGCACTACCTTTTCAGTGCTCCAACAACATTAATCTTACACGACAGCCCCAAGTCCAAGCCGTCAGGATCAAACCGAAGCAGCAACGAACCATAGGCGTTGGCCCCATATGTGCCTCCAACACACAAACTCCTCCTACAGATGTTTCCGAAAGATGGCTTCTGGAGCCTGTGGGTGATGGAGATACAAGGCATATTGGTTTCAAGGTTCAAATGCCAAATGCATTTGAAATTGCTTCTAATGTGGTGACTGTTGGCCGCCTTCCTGAGAAAGCTGATTTAGTGATTCCAGTTGCAACAGTATCTGGTTTGCATGCTCGCATTCGAAAGACAGATGGGAACCTCTTGGTAACAGATTTGGACAGCACCAATGGGACATTCATTGATGACCAACGGCTGAGACCCGGAGTTGTTGCCACCTTATCACCTGGATCTTGTGTTACATTTGGAGATGAACATTTGGCTGTGTTTCGCGTCTCAAAGTTAGATAATGTAGAAGCTGCAAGCAATCCAGGTCCCTCTGAAGATAAAGTAGAGACTGTCATCCCTGAAGAAGTCCCTACTGAAAACAGTAAAACAGTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
FHA

Protein Analysis

227

Amino Acids

24.39

Weight (kDa)

6.21

Isoelectric Point (pI)

41.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Yop-YscD_cpl PF16697 108 - 189 5.1e-09 Inner membrane component of T3SS, cytoplasmic domain
FHA PF00498 116 - 183 2.5e-15 FHA 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: OG0013459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G21530
fragaria_vesca FvH4_3g27180 FvH4_3g27180 FvH4_3g27180
malus_domestica MD11G1181300.v1.1
prunus_persica Prupe.6G154100_v2.0.a1
pyrus_communis pycom11g15640
rosa_chinensis RchiOBHm_Chr5g0049851
rosa_laevigata RLG00000034657
rosa_multiflora Rmu_sc0001991.1_g000006
rosa_roxburghii Rroxscaffold_1G00031920
rosa_rugosa Rorug05G0253000 Rorug05G0253100
rosa_samantha Rh5AG328200 Rh5BG338700 Rh5CG363900 Rh5DG351100
rosa_wichuraiana Rw5G030990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 573
AciI CCGC 1 cut(s) 358
AclWI GGATC 2 cut(s) 176, 538
AcoI YGGCCR 1 cut(s) 355
AcuI CTGAAG 2 cut(s) 642, 669
AfiI CCNNNNNNNGG 1 cut(s) 255
AgsI TTSAA 3 cut(s) 304, 311, 329
AjnI CCWGG 2 cut(s) 526, 610
AjuI GAANNNNNNNTTGG 2 cut(s) 461, 493
AluBI AGCT 2 cut(s) 374, 599
AluI AGCT 2 cut(s) 374, 599
Alw21I GWGCWC 1 cut(s) 122
Alw26I GTCTC 3 cut(s) 493, 580, 629
AlwI GGATC 2 cut(s) 176, 538
AlwNI CAGNNNCTG 1 cut(s) 404
AoxI GGCC 2 cut(s) 202, 355
ApeKI GCWGC 2 cut(s) 181, 599
AseI ATTAAT 1 cut(s) 132
AspS9I GGNCC 2 cut(s) 203, 614
AsuC2I CCSGG 1 cut(s) 504
AsuHPI GGTGA 3 cut(s) 287, 358, 516
AsuII TTCGAA 1 cut(s) 424
AvaII GGWCC 1 cut(s) 614
Bbv12I GWGCWC 1 cut(s) 122
BbvI GCAGC 2 cut(s) 193, 586
BccI CCATC 3 cut(s) 249, 272, 428
BceAI ACGGC 2 cut(s) 146, 509
BciT130I CCWGG 2 cut(s) 528, 612
BcnI CCSGG 1 cut(s) 504
BcoDI GTCTC 3 cut(s) 493, 580, 629
BfmI CTRYAG 1 cut(s) 237
BisI GCNGC 3 cut(s) 182, 358, 600
BlsI GCNGC 3 cut(s) 183, 359, 601
Bme1390I CCNGG 3 cut(s) 504, 528, 612
Bme18I GGWCC 1 cut(s) 614
BmgT120I GGNCC 2 cut(s) 203, 614
BmiI GGNNCC 4 cut(s) 205, 267, 440, 616
BmrFI CCNGG 3 cut(s) 504, 528, 612
BmsI GCATC 1 cut(s) 47
BpmI CTGGAG 1 cut(s) 284
Bpu14I TTCGAA 1 cut(s) 424
BpuMI CCSGG 1 cut(s) 504
BsaI GGTCTC 1 cut(s) 493
BsaXI ACNNNNNCTCC 2 cut(s) 214, 244
Bsc4I CCNNNNNNNGG 1 cut(s) 255
Bse1I ACTGG 1 cut(s) 389
BseBI CCWGG 2 cut(s) 528, 612
BseGI GGATG 1 cut(s) 642
BseLI CCNNNNNNNGG 1 cut(s) 255
BseMII CTCAG 2 cut(s) 357, 488
BseNI ACTGG 1 cut(s) 389
BseRI GAGGAG 4 cut(s) 33, 64, 67, 222
BseXI GCAGC 2 cut(s) 193, 586
BsgI GTGCAG 1 cut(s) 87
Bsh1236I CGCG 1 cut(s) 573
BshFI GGCC 2 cut(s) 204, 357
BsiHKAI GWGCWC 1 cut(s) 122
BsiSI CCGG 1 cut(s) 504
BslFI GGGAC 3 cut(s) 487, 600, 641
BslI CCNNNNNNNGG 1 cut(s) 255
BsmAI GTCTC 3 cut(s) 493, 580, 629
BsmBI CGTCTC 1 cut(s) 580
BsmFI GGGAC 3 cut(s) 487, 600, 641
BsmI GAATGC 1 cut(s) 420
BsnI GGCC 2 cut(s) 204, 357
Bso31I GGTCTC 1 cut(s) 493
Bsp119I TTCGAA 1 cut(s) 424
Bsp1286I GDGCHC 1 cut(s) 122
Bsp143I GATC 2 cut(s) 168, 530
BspACI CCGC 1 cut(s) 358
BspANI GGCC 2 cut(s) 204, 357
BspCNI CTCAG 2 cut(s) 358, 489
BspFNI CGCG 1 cut(s) 573
BspLI GGNNCC 4 cut(s) 205, 267, 440, 616
BspPI GGATC 2 cut(s) 176, 538
BspT104I TTCGAA 1 cut(s) 424
BspTNI GGTCTC 1 cut(s) 493
BsrI ACTGG 1 cut(s) 389
BssMI GATC 2 cut(s) 168, 530
Bst2UI CCWGG 2 cut(s) 528, 612
Bst4CI ACNGT 5 cut(s) 352, 400, 640, 671, 679
Bst6I CTCTTC 2 cut(s) 85, 90
BstBI TTCGAA 1 cut(s) 424
BstC8I GCNNGC 3 cut(s) 414, 418, 604
BstDEI CTNAG 2 cut(s) 366, 497
BstF5I GGATG 1 cut(s) 642
BstFNI CGCG 1 cut(s) 573
BstKTI GATC 2 cut(s) 171, 533
BstMAI GTCTC 3 cut(s) 493, 580, 629
BstMBI GATC 2 cut(s) 168, 530
BstMWI GCNNNNNNNGC 1 cut(s) 265
BstNI CCWGG 2 cut(s) 528, 612
BstNSI RCATGY 1 cut(s) 416
BstSCI CCNGG 3 cut(s) 502, 526, 610
BstSFI CTRYAG 1 cut(s) 237
BstUI CGCG 1 cut(s) 573
BstV1I GCAGC 2 cut(s) 193, 586
BstX2I RGATCY 1 cut(s) 530
BstYI RGATCY 1 cut(s) 530
BsuRI GGCC 2 cut(s) 204, 357
BtsCI GGATG 1 cut(s) 642
BtsIMutI CAGTG 1 cut(s) 122
Cac8I GCNNGC 3 cut(s) 414, 418, 604
CaiI CAGNNNCTG 1 cut(s) 404
Cfr13I GGNCC 2 cut(s) 203, 614
CseI GACGC 1 cut(s) 562
CviAII CATG 1 cut(s) 413
DdeI CTNAG 2 cut(s) 366, 497
DpnI GATC 2 cut(s) 170, 532
DpnII GATC 2 cut(s) 168, 530
EaeI YGGCCR 1 cut(s) 355
Eam1104I CTCTTC 2 cut(s) 85, 90
EarI CTCTTC 2 cut(s) 85, 90
Eco31I GGTCTC 1 cut(s) 493
Eco47I GGWCC 1 cut(s) 614
Eco57I CTGAAG 2 cut(s) 642, 669
EcoO109I RGGNCCY 1 cut(s) 614
EcoRII CCWGG 2 cut(s) 526, 610
EcoT22I ATGCAT 1 cut(s) 325
Esp3I CGTCTC 1 cut(s) 580
FaeI CATG 1 cut(s) 416
FaiI YATR 6 cut(s) 194, 209, 211, 294, 414, 682
FaqI GGGAC 3 cut(s) 487, 600, 641
FatI CATG 1 cut(s) 412
FauNDI CATATG 1 cut(s) 209
Fnu4HI GCNGC 3 cut(s) 182, 358, 600
FokI GGATG 1 cut(s) 629
Fsp4HI GCNGC 3 cut(s) 182, 358, 600
GluI GCNGC 3 cut(s) 182, 358, 600
GsuI CTGGAG 1 cut(s) 284
HaeIII GGCC 2 cut(s) 204, 357
HapII CCGG 1 cut(s) 504
HgaI GACGC 1 cut(s) 562
Hin1II CATG 1 cut(s) 416
HinfI GANTC 1 cut(s) 385
HpaII CCGG 1 cut(s) 504
HphI GGTGA 3 cut(s) 287, 358, 516
Hpy188I TCNGA 2 cut(s) 250, 622
Hpy188III TCNNGA 3 cut(s) 166, 263, 365
HpyAV CCTTC 1 cut(s) 371
HpyCH4III ACNGT 5 cut(s) 352, 400, 640, 671, 679
HpyCH4V TGCA 6 cut(s) 38, 104, 323, 395, 412, 602
HpyF10VI GCNNNNNNNGC 1 cut(s) 265
HpyF3I CTNAG 2 cut(s) 366, 497
Hsp92II CATG 1 cut(s) 416
Kzo9I GATC 2 cut(s) 168, 530
LmnI GCTCC 2 cut(s) 125, 265
Lsp1109I GCAGC 2 cut(s) 193, 586
LweI GCATC 1 cut(s) 47
MaeIII GTNAC 3 cut(s) 346, 448, 538
MalI GATC 2 cut(s) 170, 532
MboI GATC 2 cut(s) 168, 530
MboII GAAGA 4 cut(s) 72, 77, 635, 662
MflI RGATCY 1 cut(s) 530
MhlI GDGCHC 1 cut(s) 122
MluCI AATT 2 cut(s) 61, 330
MmeI TCCRAC 2 cut(s) 147, 243
MnlI CCTC 8 cut(s) 54, 82, 85, 88, 226, 243, 452, 628
Mph1103I ATGCAT 1 cut(s) 325
MseI TTAA 1 cut(s) 132
MspI CCGG 1 cut(s) 504
MspR9I CCNGG 3 cut(s) 504, 528, 612
Mva1269I GAATGC 1 cut(s) 420
MvaI CCWGG 2 cut(s) 528, 612
MvnI CGCG 1 cut(s) 573
MwoI GCNNNNNNNGC 1 cut(s) 265
NciI CCSGG 1 cut(s) 504
NdeI CATATG 1 cut(s) 209
NdeII GATC 2 cut(s) 168, 530
NlaIII CATG 1 cut(s) 416
NlaIV GGNNCC 4 cut(s) 205, 267, 440, 616
NmuCI GTSAC 1 cut(s) 346
NsiI ATGCAT 1 cut(s) 325
NspI RCATGY 1 cut(s) 416
NspV TTCGAA 1 cut(s) 424
PaeI GCATGC 1 cut(s) 416
PcsI WCGNNNNNNNCGW 1 cut(s) 52
PctI GAATGC 1 cut(s) 420
PfeI GAWTC 1 cut(s) 385
PkrI GCNGC 3 cut(s) 183, 359, 601
PpuMI RGGWCCY 1 cut(s) 614
PshBI ATTAAT 1 cut(s) 132
Psp5II RGGWCCY 1 cut(s) 614
Psp6I CCWGG 2 cut(s) 526, 610
PspGI CCWGG 2 cut(s) 526, 610
PspN4I GGNNCC 4 cut(s) 205, 267, 440, 616
PspPI GGNCC 2 cut(s) 203, 614
PspPPI RGGWCCY 1 cut(s) 614
PstNI CAGNNNCTG 1 cut(s) 404
PsuI RGATCY 1 cut(s) 530
SaqAI TTAA 1 cut(s) 132
SatI GCNGC 3 cut(s) 182, 358, 600
Sau3AI GATC 2 cut(s) 168, 530
Sau96I GGNCC 2 cut(s) 203, 614
ScrFI CCNGG 3 cut(s) 504, 528, 612
SduI GDGCHC 1 cut(s) 122
SetI ASST 8 cut(s) 112, 309, 376, 444, 521, 529, 601, 616
SfaNI GCATC 1 cut(s) 47
SfcI CTRYAG 1 cut(s) 237
SfuI TTCGAA 1 cut(s) 424
SinI GGWCC 1 cut(s) 614
SphI GCATGC 1 cut(s) 416
Sse9I AATT 2 cut(s) 61, 330
SsiI CCGC 1 cut(s) 358
StyD4I CCNGG 3 cut(s) 502, 526, 610
TaaI ACNGT 5 cut(s) 352, 400, 640, 671, 679
TaqI TCGA 1 cut(s) 424
TasI AATT 2 cut(s) 61, 330
TauI GCSGC 1 cut(s) 360
TfiI GAWTC 1 cut(s) 385
Tru1I TTAA 1 cut(s) 132
Tru9I TTAA 1 cut(s) 132
TscAI CASTG 1 cut(s) 122
TseFI GTSAC 1 cut(s) 346
TseI GCWGC 2 cut(s) 181, 599
Tsp45I GTSAC 1 cut(s) 346
TspDTI ATGAA 2 cut(s) 469, 567
TspRI CASTG 1 cut(s) 122
VpaK11BI GGWCC 1 cut(s) 614
VspI ATTAAT 1 cut(s) 132
XceI RCATGY 1 cut(s) 416
Zsp2I ATGCAT 1 cut(s) 325
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.