Rroxscaffold_2G00108890

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000525
Physical Location & Seq
Forward (+)
32969605 .. 32971640
2036 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00108890.1

Sequence Viewer

Length: 279 bp
ATGGTGGAGGATATCTACCGCACGCAACTGATTGACCACGAGGGAGGATTCAATGCCGTCGGGCTGGATCGATTCGTCAAGAAAGCGAAGGTGATCAATTGTGGTCTCTCGTACGCTTTCGTCGCCATTATGGGATCTCAGAATAGTGGAGGCAATAAATTCAGACGCCGGAATCCGGTCACCGGTTCGGTAGCCGGATTCCTGTCACCGGAGTTGGGTCACCGGTCGTCGAGTCCGCCACTGGAGTCAAGCAAGGTCTCCAATGACTTCTTTCTCTAA
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

92

Amino Acids

10.02

Weight (kDa)

9.36

Isoelectric Point (pI)

53.71

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
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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)
AciI CCGC 2 cut(s) 19, 236
AclWI GGATC 2 cut(s) 75, 142
AcsI RAATTY 1 cut(s) 158
AcyI GRCGYC 1 cut(s) 166
AfaI GTAC 1 cut(s) 113
AfiI CCNNNNNNNGG 4 cut(s) 175, 182, 208, 215
AgeI ACCGGT 2 cut(s) 182, 222
AgsI TTSAA 1 cut(s) 52
Alw26I GTCTC 2 cut(s) 110, 262
AlwI GGATC 2 cut(s) 75, 142
ApoI RAATTY 1 cut(s) 158
AsiGI ACCGGT 2 cut(s) 182, 222
AsuHPI GGTGA 4 cut(s) 103, 172, 198, 212
BauI CACGAG 1 cut(s) 38
BceAI ACGGC 1 cut(s) 41
BclI TGATCA 1 cut(s) 93
BcoDI GTCTC 2 cut(s) 110, 262
BpmI CTGGAG 1 cut(s) 263
Bsa29I ATCGAT 1 cut(s) 70
BsaHI GRCGYC 1 cut(s) 166
BsaI GGTCTC 2 cut(s) 110, 262
BsaWI WCCGGW 4 cut(s) 175, 182, 208, 222
Bsc4I CCNNNNNNNGG 4 cut(s) 175, 182, 208, 215
Bse118I RCCGGY 2 cut(s) 182, 222
Bse1I ACTGG 1 cut(s) 246
BseCI ATCGAT 1 cut(s) 70
BseLI CCNNNNNNNGG 4 cut(s) 175, 182, 208, 215
BseMII CTCAG 1 cut(s) 152
BseNI ACTGG 1 cut(s) 246
Bsh1285I CGRYCG 1 cut(s) 227
BshTI ACCGGT 2 cut(s) 182, 222
BshVI ATCGAT 1 cut(s) 70
BsiEI CGRYCG 1 cut(s) 227
BsiSI CCGG 6 cut(s) 169, 176, 183, 195, 209, 223
BsiWI CGTACG 1 cut(s) 111
BslI CCNNNNNNNGG 4 cut(s) 175, 182, 208, 215
BsmAI GTCTC 2 cut(s) 110, 262
Bso31I GGTCTC 2 cut(s) 110, 262
Bsp143I GATC 3 cut(s) 67, 93, 134
BspACI CCGC 2 cut(s) 19, 236
BspCNI CTCAG 1 cut(s) 151
BspDI ATCGAT 1 cut(s) 70
BspPI GGATC 2 cut(s) 75, 142
BspTNI GGTCTC 2 cut(s) 110, 262
BsrFI RCCGGY 2 cut(s) 182, 222
BsrI ACTGG 1 cut(s) 246
BssAI RCCGGY 2 cut(s) 182, 222
BssMI GATC 3 cut(s) 67, 93, 134
BssNI GRCGYC 1 cut(s) 166
BssSI CACGAG 1 cut(s) 38
Bst2BI CACGAG 1 cut(s) 38
BstACI GRCGYC 1 cut(s) 166
BstC8I GCNNGC 1 cut(s) 23
BstDEI CTNAG 1 cut(s) 138
BstEII GGTNACC 2 cut(s) 178, 218
BstKTI GATC 3 cut(s) 70, 96, 137
BstMAI GTCTC 2 cut(s) 110, 262
BstMBI GATC 3 cut(s) 67, 93, 134
BstMCI CGRYCG 1 cut(s) 227
BstMWI GCNNNNNNNGC 1 cut(s) 122
BstPI GGTNACC 2 cut(s) 178, 218
BstX2I RGATCY 1 cut(s) 134
BstYI RGATCY 1 cut(s) 134
Bsu15I ATCGAT 1 cut(s) 70
BsuTUI ATCGAT 1 cut(s) 70
BtsIMutI CAGTG 1 cut(s) 239
Cac8I GCNNGC 1 cut(s) 23
Cfr10I RCCGGY 2 cut(s) 182, 222
ClaI ATCGAT 1 cut(s) 70
CseI GACGC 1 cut(s) 174
Csp6I GTAC 1 cut(s) 112
CspAI ACCGGT 2 cut(s) 182, 222
CviJI RGCY 2 cut(s) 64, 194
CviKI_1 RGCY 2 cut(s) 64, 194
CviQI GTAC 1 cut(s) 112
DdeI CTNAG 1 cut(s) 138
DpnI GATC 3 cut(s) 69, 95, 136
DpnII GATC 3 cut(s) 67, 93, 134
EciI GGCGGA 1 cut(s) 225
Eco31I GGTCTC 2 cut(s) 110, 262
Eco32I GATATC 1 cut(s) 13
Eco91I GGTNACC 2 cut(s) 178, 218
EcoO65I GGTNACC 2 cut(s) 178, 218
EcoRV GATATC 1 cut(s) 13
FaiI YATR 1 cut(s) 131
FbaI TGATCA 1 cut(s) 93
GsuI CTGGAG 1 cut(s) 263
HapII CCGG 6 cut(s) 169, 176, 183, 195, 209, 223
HgaI GACGC 1 cut(s) 174
Hin1I GRCGYC 1 cut(s) 166
HinfI GANTC 6 cut(s) 48, 72, 172, 198, 232, 245
HpaII CCGG 6 cut(s) 169, 176, 183, 195, 209, 223
HphI GGTGA 4 cut(s) 103, 172, 198, 212
Hpy188I TCNGA 2 cut(s) 141, 164
Hpy188III TCNNGA 1 cut(s) 79
Hpy99I CGWCG 3 cut(s) 62, 125, 232
HpyAV CCTTC 1 cut(s) 82
HpyF10VI GCNNNNNNNGC 1 cut(s) 122
HpyF3I CTNAG 1 cut(s) 138
Hsp92I GRCGYC 1 cut(s) 166
Ksp22I TGATCA 1 cut(s) 93
Kzo9I GATC 3 cut(s) 67, 93, 134
LpnPI CCDG 9 cut(s) 50, 182, 189, 196, 208, 215, 222, 227, 236
MaeIII GTNAC 3 cut(s) 178, 204, 218
MalI GATC 3 cut(s) 69, 95, 136
MboI GATC 3 cut(s) 67, 93, 134
MfeI CAATTG 1 cut(s) 97
MflI RGATCY 1 cut(s) 134
MluCI AATT 2 cut(s) 97, 158
MlyI GAGTC 2 cut(s) 241, 254
MnlI CCTC 3 cut(s) 34, 38, 143
MspI CCGG 6 cut(s) 169, 176, 183, 195, 209, 223
MunI CAATTG 1 cut(s) 97
MwoI GCNNNNNNNGC 1 cut(s) 122
NdeII GATC 3 cut(s) 67, 93, 134
NmuCI GTSAC 3 cut(s) 178, 204, 218
PfeI GAWTC 4 cut(s) 48, 72, 172, 198
Pfl23II CGTACG 1 cut(s) 111
PinAI ACCGGT 2 cut(s) 182, 222
PleI GAGTC 2 cut(s) 240, 253
PpsI GAGTC 2 cut(s) 240, 253
PspEI GGTNACC 2 cut(s) 178, 218
PspLI CGTACG 1 cut(s) 111
PsuI RGATCY 1 cut(s) 134
RsaI GTAC 1 cut(s) 113
RsaNI GTAC 1 cut(s) 112
Sau3AI GATC 3 cut(s) 67, 93, 134
SchI GAGTC 2 cut(s) 241, 254
SetI ASST 2 cut(s) 93, 258
Sse9I AATT 2 cut(s) 97, 158
SsiI CCGC 2 cut(s) 19, 236
TaqI TCGA 2 cut(s) 70, 230
TasI AATT 2 cut(s) 97, 158
TfiI GAWTC 4 cut(s) 48, 72, 172, 198
TscAI CASTG 1 cut(s) 246
TseFI GTSAC 3 cut(s) 178, 204, 218
Tsp45I GTSAC 3 cut(s) 178, 204, 218
TspRI CASTG 1 cut(s) 246
XapI RAATTY 1 cut(s) 158
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.