Rh5BG139800

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000525
Physical Location & Seq
Reverse (-)
14418172 .. 14418628
457 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG139800.1

Sequence Viewer

Length: 269 bp
ATGAGAAAAAGCTCTTCAGTTTCTTTAACTGAACCTGTGGGGGCTCTACTTGAAGCCCGAGAAGAAGACACCTGGGCTTCAATAAGGAAACTTCTTAATCGTGAGACTGAATCTGTAGTATCAGAGTTCTCAAAAGCAGTTGTTGGTTTTGAGTTGGACAAAGTAACAATTGCGAAAATGGTGCAAAATTTAAGGGATTATGCAAGAAATGTGGTGGAGATAAAAGCAAGAGAAGAGGCTAGCAAAGTTCTGATCCACATGAAGGATCG
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

89

Amino Acids

10.08

Weight (kDa)

6.6

Isoelectric Point (pI)

35.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 5 - 89 1.2e-17 Sey1 three-helix bundle 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: 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) 247
AcsI RAATTY 1 cut(s) 187
AfiI CCNNNNNNNGG 1 cut(s) 262
AgsI TTSAA 2 cut(s) 53, 81
AjnI CCWGG 1 cut(s) 71
AluBI AGCT 1 cut(s) 12
AluI AGCT 1 cut(s) 12
Alw26I GTCTC 1 cut(s) 98
AlwI GGATC 1 cut(s) 247
Ama87I CYCGRG 1 cut(s) 57
ApoI RAATTY 1 cut(s) 187
AsuNHI GCTAGC 1 cut(s) 239
AvaI CYCGRG 1 cut(s) 57
BanII GRGCYC 1 cut(s) 46
BbsI GAAGAC 1 cut(s) 72
BcgI CGANNNNNNTGC 2 cut(s) 163, 197
BciT130I CCWGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 98
BfaI CTAG 1 cut(s) 240
BfmI CTRYAG 1 cut(s) 114
Bme1390I CCNGG 1 cut(s) 73
BmeT110I CYCGRG 1 cut(s) 57
BmrFI CCNGG 1 cut(s) 73
BmtI GCTAGC 1 cut(s) 243
BpiI GAAGAC 1 cut(s) 72
BsaJI CCNNGG 1 cut(s) 72
Bsc4I CCNNNNNNNGG 1 cut(s) 262
BseBI CCWGG 1 cut(s) 73
BseDI CCNNGG 1 cut(s) 72
BseLI CCNNNNNNNGG 1 cut(s) 262
BsiHKCI CYCGRG 1 cut(s) 57
BslI CCNNNNNNNGG 1 cut(s) 262
BsmAI GTCTC 1 cut(s) 98
BsoBI CYCGRG 1 cut(s) 57
Bsp1286I GDGCHC 1 cut(s) 46
Bsp143I GATC 2 cut(s) 252, 265
BspOI GCTAGC 1 cut(s) 243
BspPI GGATC 1 cut(s) 247
BspQI GCTCTTC 1 cut(s) 19
BssECI CCNNGG 1 cut(s) 72
BssMI GATC 2 cut(s) 252, 265
Bst2UI CCWGG 1 cut(s) 73
Bst6I CTCTTC 2 cut(s) 19, 228
BstC8I GCNNGC 1 cut(s) 241
BstKTI GATC 2 cut(s) 255, 268
BstMAI GTCTC 1 cut(s) 98
BstMBI GATC 2 cut(s) 252, 265
BstNI CCWGG 1 cut(s) 73
BstSCI CCNGG 1 cut(s) 71
BstSFI CTRYAG 1 cut(s) 114
BstV2I GAAGAC 1 cut(s) 72
Cac8I GCNNGC 1 cut(s) 241
CspCI CAANNNNNGTGG 2 cut(s) 192, 227
CviAII CATG 1 cut(s) 259
CviJI RGCY 5 cut(s) 12, 44, 56, 77, 239
CviKI_1 RGCY 5 cut(s) 12, 44, 56, 77, 239
DpnI GATC 2 cut(s) 254, 267
DpnII GATC 2 cut(s) 252, 265
Eam1104I CTCTTC 2 cut(s) 19, 228
EarI CTCTTC 2 cut(s) 19, 228
Eco24I GRGCYC 1 cut(s) 46
Eco88I CYCGRG 1 cut(s) 57
EcoRII CCWGG 1 cut(s) 71
EcoT38I GRGCYC 1 cut(s) 46
FaeI CATG 1 cut(s) 262
FaiI YATR 2 cut(s) 201, 260
FatI CATG 1 cut(s) 258
FriOI GRGCYC 1 cut(s) 46
FspBI CTAG 1 cut(s) 240
Hin1II CATG 1 cut(s) 262
HinfI GANTC 1 cut(s) 110
Hpy188I TCNGA 2 cut(s) 124, 252
Hpy188III TCNNGA 1 cut(s) 101
HpyAV CCTTC 1 cut(s) 256
HpyCH4V TGCA 2 cut(s) 184, 203
Hsp92II CATG 1 cut(s) 262
Kzo9I GATC 2 cut(s) 252, 265
LguI GCTCTTC 1 cut(s) 19
LpnPI CCDG 3 cut(s) 48, 58, 85
MaeI CTAG 1 cut(s) 240
MaeIII GTNAC 1 cut(s) 163
MalI GATC 2 cut(s) 254, 267
MboI GATC 2 cut(s) 252, 265
MboII GAAGA 4 cut(s) 6, 74, 77, 245
MfeI CAATTG 1 cut(s) 168
MhlI GDGCHC 1 cut(s) 46
MluCI AATT 2 cut(s) 168, 187
MmeI TCCRAC 1 cut(s) 135
MnlI CCTC 1 cut(s) 229
MseI TTAA 3 cut(s) 26, 96, 191
MspR9I CCNGG 1 cut(s) 73
MunI CAATTG 1 cut(s) 168
MvaI CCWGG 1 cut(s) 73
NdeII GATC 2 cut(s) 252, 265
NheI GCTAGC 1 cut(s) 239
NlaIII CATG 1 cut(s) 262
PciSI GCTCTTC 1 cut(s) 19
PfeI GAWTC 1 cut(s) 110
Psp6I CCWGG 1 cut(s) 71
PspGI CCWGG 1 cut(s) 71
SapI GCTCTTC 1 cut(s) 19
SaqAI TTAA 3 cut(s) 26, 96, 191
Sau3AI GATC 2 cut(s) 252, 265
ScrFI CCNGG 1 cut(s) 73
SduI GDGCHC 1 cut(s) 46
SetI ASST 3 cut(s) 14, 37, 74
SfcI CTRYAG 1 cut(s) 114
Sse9I AATT 2 cut(s) 168, 187
SspMI CTAG 1 cut(s) 240
StyD4I CCNGG 1 cut(s) 71
TasI AATT 2 cut(s) 168, 187
TfiI GAWTC 1 cut(s) 110
Tru1I TTAA 3 cut(s) 26, 96, 191
Tru9I TTAA 3 cut(s) 26, 96, 191
XapI RAATTY 1 cut(s) 187
XspI CTAG 1 cut(s) 240
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.