Rmu_sc0002141.1_g000028

root hair defective 3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002141.1
OG0000525
Physical Location & Seq
Forward (+)
119301 .. 121434
2134 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002141.1_g000028.1.cds

Sequence Viewer

Length: 366 bp
atggccaagtgtgtcggaattgatcctttcaccatcgccatggatttggagggtagtgatggcagggagagaggccagatctgggacgaaactccgaagcgtctagcacataaaaataccgaccttagagaaatctttagggtagaattagttgctctctccagttacgagagggaggaggagaagtttaaggaggaggttgctgatctacggaaacggtttctcaattctatttctgcaggagggcttgctgctgatagaagagatgtggtccctgcctcgacattttctactcatgccgagggaatctggaaaagaatcaaagaagatagggacctcgatctcccatctcacaaggttctttaa
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0012505 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RHD3

Protein Analysis

121

Amino Acids

13.83

Weight (kDa)

5.66

Isoelectric Point (pI)

42.96

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000525)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G45160
fragaria_vesca FvH4_3g11890
malus_domestica MD00G1023300.v1.1 MD00G1023500.v1.1 MD00G1046300.v1.1 MD00G1046400.v1.1 MD00G1047200.v1.1 MD05G1180600.v1.1 MD05G1256900.v1.1 MD05G1257200.v1.1 MD05G1257300.v1.1 MD05G1257400.v1.1 MD05G1257900.v1.1 MD05G1258000.v1.1 MD10G1213100.v1.1 MD10G1237400.v1.1
prunus_persica Prupe.4G106400_v2.0.a1 Prupe.4G106400_v2.0.a1 Prupe.4G106900_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.I001700_v2.0.a1
pyrus_communis pycom05g23620 pycom05g23630 pycom05g23880 pycom05g24090 pycom05g24270 pycom10g19870
rosa_chinensis RchiOBHm_Chr5g0019311 RchiOBHm_Chr5g0019391 RchiOBHm_Chr5g0019401 RchiOBHm_Chr7g0226131 RchiOBHm_Chr7g0226141 RchiOBHm_Chr7g0226161
rosa_laevigata RLG00000001766 RLG00000001767 RLG00000032437 RLG00000032441 RLG00000032445
rosa_multiflora Rmu_sc0001350.1_g000022 Rmu_sc0001350.1_g000031 Rmu_sc0002141.1_g000028 Rmu_sc0002759.1_g000037 Rmu_sc0002759.1_g000039 Rmu_sc0005292.1_g000004 Rmu_sc0005292.1_g000050
rosa_roxburghii Rroxscaffold_1G00058650 Rroxscaffold_1G00058670 Rroxscaffold_1G00074270 Rroxscaffold_2G00108890 Rroxscaffold_2G00125570
rosa_rugosa Rorug05G0050100 Rorug05G0050200 Rorug05G0050300 Rorug05G0050500 Rorug05G0050600 Rorug05G0050700
rosa_samantha Rh5AG140700 Rh5AG141000 Rh5AG141300 Rh5AG390000 Rh5BG139700 Rh5BG139800 Rh5BG139900 Rh5BG140000 Rh5CG151000 Rh5CG151500 Rh5CG151600 Rh5DG140200 Rh5DG140400 Rh5DG140600 Rh7AG368100 Rh7AG381400 Rh7AG381700 Rh7CG386400 Rh7CG400900 Rh7CG401200 Rh7DG380400 Rh7DG380500
rosa_wichuraiana Rw5G012510 Rw5G012530 Rw5G012540 Rw7G031980 Rw7G031990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 17
AcoI YGGCCR 1 cut(s) 3
AfiI CCNNNNNNNGG 1 cut(s) 82
AlwI GGATC 1 cut(s) 17
AoxI GGCC 2 cut(s) 3, 73
ApeKI GCWGC 1 cut(s) 251
AspS9I GGNCC 2 cut(s) 271, 334
AsuHPI GGTGA 1 cut(s) 22
AvaII GGWCC 2 cut(s) 271, 334
BalI TGGCCA 1 cut(s) 5
BbvI GCAGC 1 cut(s) 238
BccI CCATC 3 cut(s) 41, 53, 355
BfaI CTAG 1 cut(s) 104
BfmI CTRYAG 1 cut(s) 237
BglII AGATCT 1 cut(s) 78
BisI GCNGC 1 cut(s) 252
BlsI GCNGC 1 cut(s) 253
Bme18I GGWCC 2 cut(s) 271, 334
BmgT120I GGNCC 2 cut(s) 271, 334
BmiI GGNNCC 2 cut(s) 273, 335
BpmI CTGGAG 1 cut(s) 145
BsaJI CCNNGG 2 cut(s) 39, 300
BsaXI ACNNNNNCTCC 2 cut(s) 170, 200
Bsc4I CCNNNNNNNGG 1 cut(s) 82
Bse1I ACTGG 1 cut(s) 162
BseDI CCNNGG 2 cut(s) 39, 300
BseLI CCNNNNNNNGG 1 cut(s) 82
BseNI ACTGG 1 cut(s) 162
BseRI GAGGAG 3 cut(s) 191, 194, 209
BseXI GCAGC 1 cut(s) 238
BshFI GGCC 2 cut(s) 5, 75
BslFI GGGAC 3 cut(s) 98, 257, 347
BslI CCNNNNNNNGG 1 cut(s) 82
BsmFI GGGAC 3 cut(s) 98, 257, 347
BsnI GGCC 2 cut(s) 5, 75
Bsp143I GATC 4 cut(s) 22, 78, 205, 340
Bsp19I CCATGG 1 cut(s) 39
BspANI GGCC 2 cut(s) 5, 75
BspLI GGNNCC 2 cut(s) 273, 335
BspMAI CTGCAG 1 cut(s) 241
BspPI GGATC 1 cut(s) 17
BsrI ACTGG 1 cut(s) 162
BssECI CCNNGG 2 cut(s) 39, 300
BssMI GATC 4 cut(s) 22, 78, 205, 340
BssT1I CCWWGG 1 cut(s) 39
Bst4CI ACNGT 1 cut(s) 219
Bst6I CTCTTC 1 cut(s) 256
BstC8I GCNNGC 1 cut(s) 249
BstDEI CTNAG 1 cut(s) 125
BstDSI CCRYGG 1 cut(s) 39
BstKTI GATC 4 cut(s) 25, 81, 208, 343
BstMBI GATC 4 cut(s) 22, 78, 205, 340
BstSFI CTRYAG 1 cut(s) 237
BstV1I GCAGC 1 cut(s) 238
BstX2I RGATCY 1 cut(s) 78
BstXI CCANNNNNNTGG 2 cut(s) 40, 46
BstYI RGATCY 1 cut(s) 78
BsuRI GGCC 2 cut(s) 5, 75
BtgI CCRYGG 1 cut(s) 39
BtgZI GCGATG 1 cut(s) 19
Cac8I GCNNGC 1 cut(s) 249
Cfr13I GGNCC 2 cut(s) 271, 334
CseI GACGC 1 cut(s) 89
CviAII CATG 2 cut(s) 40, 296
CviJI RGCY 3 cut(s) 5, 75, 247
CviKI_1 RGCY 3 cut(s) 5, 75, 247
DdeI CTNAG 1 cut(s) 125
DpnI GATC 4 cut(s) 24, 80, 207, 342
DpnII GATC 4 cut(s) 22, 78, 205, 340
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 256
EarI CTCTTC 1 cut(s) 256
Eco130I CCWWGG 1 cut(s) 39
Eco47I GGWCC 2 cut(s) 271, 334
EcoO109I RGGNCCY 1 cut(s) 334
EcoT14I CCWWGG 1 cut(s) 39
ErhI CCWWGG 1 cut(s) 39
FaeI CATG 2 cut(s) 43, 299
FaiI YATR 3 cut(s) 41, 111, 297
FaqI GGGAC 3 cut(s) 98, 257, 347
FatI CATG 2 cut(s) 39, 295
Fnu4HI GCNGC 1 cut(s) 252
Fsp4HI GCNGC 1 cut(s) 252
FspBI CTAG 1 cut(s) 104
GluI GCNGC 1 cut(s) 252
GsuI CTGGAG 1 cut(s) 145
HaeIII GGCC 2 cut(s) 5, 75
HgaI GACGC 1 cut(s) 89
Hin1II CATG 2 cut(s) 43, 299
HinfI GANTC 2 cut(s) 306, 318
HphI GGTGA 1 cut(s) 22
Hpy188I TCNGA 2 cut(s) 17, 96
Hpy188III TCNNGA 1 cut(s) 310
HpyCH4III ACNGT 1 cut(s) 219
HpyCH4V TGCA 1 cut(s) 239
HpyF3I CTNAG 1 cut(s) 125
Hsp92II CATG 2 cut(s) 43, 299
Kzo9I GATC 4 cut(s) 22, 78, 205, 340
LpnPI CCDG 7 cut(s) 49, 67, 89, 175, 225, 288, 295
Lsp1109I GCAGC 1 cut(s) 238
MaeI CTAG 1 cut(s) 104
MaeIII GTNAC 1 cut(s) 164
MalI GATC 4 cut(s) 24, 80, 207, 342
MboI GATC 4 cut(s) 22, 78, 205, 340
MboII GAAGA 2 cut(s) 273, 338
MflI RGATCY 1 cut(s) 78
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 3 cut(s) 18, 146, 226
MluNI TGGCCA 1 cut(s) 5
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MseI TTAA 2 cut(s) 189, 364
MslI CAYNNNNRTG 1 cut(s) 38
Msp20I TGGCCA 1 cut(s) 5
NcoI CCATGG 1 cut(s) 39
NdeII GATC 4 cut(s) 22, 78, 205, 340
NlaIII CATG 2 cut(s) 43, 299
NlaIV GGNNCC 2 cut(s) 273, 335
NmeAIII GCCGAG 1 cut(s) 325
PfeI GAWTC 2 cut(s) 306, 318
PkrI GCNGC 1 cut(s) 253
PpuMI RGGWCCY 1 cut(s) 334
Psp5II RGGWCCY 1 cut(s) 334
PspN4I GGNNCC 2 cut(s) 273, 335
PspPI GGNCC 2 cut(s) 271, 334
PspPPI RGGWCCY 1 cut(s) 334
PstI CTGCAG 1 cut(s) 241
PsuI RGATCY 1 cut(s) 78
RseI CAYNNNNRTG 1 cut(s) 38
SaqAI TTAA 2 cut(s) 189, 364
SatI GCNGC 1 cut(s) 252
Sau3AI GATC 4 cut(s) 22, 78, 205, 340
Sau96I GGNCC 2 cut(s) 271, 334
SetI ASST 4 cut(s) 126, 201, 339, 360
SfcI CTRYAG 1 cut(s) 237
SinI GGWCC 2 cut(s) 271, 334
SmiMI CAYNNNNRTG 1 cut(s) 38
Sse9I AATT 3 cut(s) 18, 146, 226
SspMI CTAG 1 cut(s) 104
StyI CCWWGG 1 cut(s) 39
TaaI ACNGT 1 cut(s) 219
TaqI TCGA 2 cut(s) 281, 339
TasI AATT 3 cut(s) 18, 146, 226
TfiI GAWTC 2 cut(s) 306, 318
Tru1I TTAA 2 cut(s) 189, 364
Tru9I TTAA 2 cut(s) 189, 364
TseI GCWGC 1 cut(s) 251
TspGWI ACGGA 1 cut(s) 226
VpaK11BI GGWCC 2 cut(s) 271, 334
XspI CTAG 1 cut(s) 104
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.