Rh5DG064300

Squamosa promoter-binding-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0011706
Physical Location & Seq
Forward (+)
5509863 .. 5511163
1301 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG064300.1

Sequence Viewer

Length: 471 bp
ATGGAACCAAACAAAGCTCAAGGAAAGAGGAGCTTGAACTTCAAGACTGAGGAGGAGGAAGAGGAAGAGGAAGAGGATGAGGACGAAGAGCATGCGAGTACGGTACTACTGCATGGAGAAGATGACAGGAGAAAAAGAGTGATGGTGATGAATAGTACTACTAGCTCTGCTAGTCCAAGCAAGAAAGGATCCGGTGCAGGGGGGTCTACGACGACAAGGCCGTCTTGCCAAGCGCAGAGTTGCAATGCAGACCTGAGTGATGCAAAGCAATACTACCGCCGCCACAAGGTCTGCGATTTTCATTCCAAGGCTCCGGCGGTGATCGTCGGTGGTCTCCAACAGCGGTTTTGCCAGCAATGTAGCAGGTTTCATAACCTGTCAGAGTTCGATGAAAACAAAAGGAGTTGTCGCAGACGTTTAGCTGGGCACAACGAACGGCGCCGGAAAAGCTCCGCCGATTATTCCAGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
SBP

Protein Analysis

156

Amino Acids

17.68

Weight (kDa)

7.65

Isoelectric Point (pI)

100.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SBP PF03110 76 - 149 2.3e-33 SBP 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: OG0011706)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G33810
fragaria_vesca FvH4_3g08880
malus_domestica MD05G1312300.v1.1 MD10G1291800.v1.1
prunus_persica Prupe.4G050400_v2.0.a1 Prupe.4G050400_v2.0.a1
pyrus_communis pycom05g28830 pycom10g24400
rosa_chinensis RchiOBHm_Chr5g0008871
rosa_laevigata RLG00000031612
rosa_multiflora Rmu_sc0004677.1_g000008
rosa_roxburghii Rroxscaffold_1G00067130 Rroxscaffold_1G00067750
rosa_rugosa Rorug04G0439900
rosa_samantha Rh5AG068500 Rh5BG065200 Rh5CG076400 Rh5DG064300
rosa_wichuraiana Rw5G006410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 220
Acc36I ACCTGC 1 cut(s) 354
AccB1I GGYRCC 1 cut(s) 438
AccI GTMKAC 1 cut(s) 206
AciI CCGC 5 cut(s) 277, 280, 317, 343, 453
AclWI GGATC 2 cut(s) 183, 196
AcyI GRCGYC 1 cut(s) 439
AfaI GTAC 3 cut(s) 100, 105, 157
AfiI CCNNNNNNNGG 2 cut(s) 198, 286
AgsI TTSAA 2 cut(s) 37, 43
AluBI AGCT 6 cut(s) 17, 33, 165, 422, 450, 468
AluI AGCT 6 cut(s) 17, 33, 165, 422, 450, 468
Alw26I GTCTC 1 cut(s) 338
AlwI GGATC 2 cut(s) 183, 196
AoxI GGCC 1 cut(s) 218
AspLEI GCGC 2 cut(s) 235, 441
AsuHPI GGTGA 2 cut(s) 157, 331
BaeGI GKGCMC 1 cut(s) 429
BamHI GGATCC 1 cut(s) 188
BanI GGYRCC 1 cut(s) 438
BccI CCATC 1 cut(s) 136
BceAI ACGGC 2 cut(s) 205, 452
BcgI CGANNNNNNTGC 2 cut(s) 74, 108
BcoDI GTCTC 1 cut(s) 338
BfaI CTAG 2 cut(s) 162, 171
BfoI RGCGCY 1 cut(s) 442
BfuAI ACCTGC 1 cut(s) 354
BisI GCNGC 1 cut(s) 280
BlsI GCNGC 1 cut(s) 281
BmcAI AGTACT 1 cut(s) 157
BmiI GGNNCC 4 cut(s) 6, 190, 312, 440
BmsI GCATC 1 cut(s) 250
BsaHI GRCGYC 1 cut(s) 439
BsaI GGTCTC 1 cut(s) 338
BsaJI CCNNGG 1 cut(s) 306
BsaWI WCCGGW 1 cut(s) 191
Bsc4I CCNNNNNNNGG 2 cut(s) 198, 286
Bse3DI GCAATG 2 cut(s) 250, 362
BseDI CCNNGG 1 cut(s) 306
BseGI GGATG 1 cut(s) 82
BseLI CCNNNNNNNGG 2 cut(s) 198, 286
BseMI GCAATG 2 cut(s) 250, 362
BseMII CTCAG 2 cut(s) 39, 245
BseRI GAGGAG 3 cut(s) 43, 65, 68
BseSI GKGCMC 1 cut(s) 429
BseYI CCCAGC 1 cut(s) 422
BsgI GTGCAG 1 cut(s) 216
BshFI GGCC 1 cut(s) 220
BshNI GGYRCC 1 cut(s) 438
BsiSI CCGG 3 cut(s) 192, 314, 442
BslI CCNNNNNNNGG 2 cut(s) 198, 286
BsmAI GTCTC 1 cut(s) 338
BsnI GGCC 1 cut(s) 220
Bso31I GGTCTC 1 cut(s) 338
Bsp1286I GDGCHC 1 cut(s) 429
Bsp143I GATC 2 cut(s) 188, 321
BspACI CCGC 5 cut(s) 277, 280, 317, 343, 453
BspANI GGCC 1 cut(s) 220
BspCNI CTCAG 2 cut(s) 40, 246
BspLI GGNNCC 4 cut(s) 6, 190, 312, 440
BspMI ACCTGC 1 cut(s) 354
BspPI GGATC 2 cut(s) 183, 196
BspQI GCTCTTC 1 cut(s) 81
BspT107I GGYRCC 1 cut(s) 438
BspTNI GGTCTC 1 cut(s) 338
BsrDI GCAATG 2 cut(s) 250, 362
BssECI CCNNGG 1 cut(s) 306
BssMI GATC 2 cut(s) 188, 321
BssNI GRCGYC 1 cut(s) 439
BssT1I CCWWGG 1 cut(s) 306
Bst4CI ACNGT 1 cut(s) 103
Bst6I CTCTTC 4 cut(s) 54, 60, 66, 81
BstACI GRCGYC 1 cut(s) 439
BstC8I GCNNGC 2 cut(s) 93, 353
BstDEI CTNAG 2 cut(s) 48, 254
BstF5I GGATG 1 cut(s) 82
BstH2I RGCGCY 1 cut(s) 442
BstHHI GCGC 2 cut(s) 235, 441
BstKTI GATC 2 cut(s) 191, 324
BstMAI GTCTC 1 cut(s) 338
BstMBI GATC 2 cut(s) 188, 321
BstMWI GCNNNNNNNGC 1 cut(s) 447
BstNSI RCATGY 1 cut(s) 95
BstSLI GKGCMC 1 cut(s) 429
BstX2I RGATCY 1 cut(s) 188
BstYI RGATCY 1 cut(s) 188
BsuRI GGCC 1 cut(s) 220
BtsCI GGATG 1 cut(s) 82
BveI ACCTGC 1 cut(s) 354
Cac8I GCNNGC 2 cut(s) 93, 353
CfoI GCGC 2 cut(s) 235, 441
Csp6I GTAC 3 cut(s) 99, 104, 156
CviAII CATG 2 cut(s) 92, 113
CviJI RGCY 8 cut(s) 17, 33, 165, 220, 311, 422, 450, 468
CviKI_1 RGCY 8 cut(s) 17, 33, 165, 220, 311, 422, 450, 468
CviQI GTAC 3 cut(s) 99, 104, 156
DdeI CTNAG 2 cut(s) 48, 254
DinI GGCGCC 1 cut(s) 440
DpnI GATC 2 cut(s) 190, 323
DpnII GATC 2 cut(s) 188, 321
DrdI GACNNNNNNGTC 1 cut(s) 220
DseDI GACNNNNNNGTC 1 cut(s) 220
Eam1104I CTCTTC 4 cut(s) 54, 60, 66, 81
EarI CTCTTC 4 cut(s) 54, 60, 66, 81
EciI GGCGGA 1 cut(s) 442
Eco130I CCWWGG 1 cut(s) 306
Eco31I GGTCTC 1 cut(s) 338
EcoT14I CCWWGG 1 cut(s) 306
EgeI GGCGCC 1 cut(s) 440
EheI GGCGCC 1 cut(s) 440
ErhI CCWWGG 1 cut(s) 306
FaeI CATG 2 cut(s) 95, 116
FaiI YATR 3 cut(s) 93, 114, 372
FalI AAGNNNNNCTT 4 cut(s) 17, 49, 208, 240
FatI CATG 2 cut(s) 91, 112
FblI GTMKAC 1 cut(s) 206
Fnu4HI GCNGC 1 cut(s) 280
FokI GGATG 1 cut(s) 89
Fsp4HI GCNGC 1 cut(s) 280
FspBI CTAG 2 cut(s) 162, 171
GlaI GCGC 2 cut(s) 234, 440
GluI GCNGC 1 cut(s) 280
GsaI CCCAGC 1 cut(s) 426
HaeII RGCGCY 1 cut(s) 442
HaeIII GGCC 1 cut(s) 220
HapII CCGG 3 cut(s) 192, 314, 442
HhaI GCGC 2 cut(s) 235, 441
Hin1I GRCGYC 1 cut(s) 439
Hin1II CATG 2 cut(s) 95, 116
Hin6I GCGC 2 cut(s) 233, 439
HinP1I GCGC 2 cut(s) 233, 439
HpaII CCGG 3 cut(s) 192, 314, 442
HphI GGTGA 2 cut(s) 157, 331
Hpy166II GTNNAC 1 cut(s) 207
Hpy188I TCNGA 1 cut(s) 382
Hpy188III TCNNGA 1 cut(s) 43
Hpy8I GTNNAC 1 cut(s) 207
Hpy99I CGWCG 2 cut(s) 214, 329
HpyCH4III ACNGT 1 cut(s) 103
HpyCH4IV ACGT 1 cut(s) 415
HpyCH4V TGCA 5 cut(s) 112, 197, 243, 248, 263
HpyF10VI GCNNNNNNNGC 1 cut(s) 447
HpyF3I CTNAG 2 cut(s) 48, 254
HpySE526I ACGT 1 cut(s) 415
Hsp92I GRCGYC 1 cut(s) 439
Hsp92II CATG 2 cut(s) 95, 116
HspAI GCGC 2 cut(s) 233, 439
KasI GGCGCC 1 cut(s) 438
Kzo9I GATC 2 cut(s) 188, 321
LguI GCTCTTC 1 cut(s) 81
LmnI GCTCC 3 cut(s) 30, 316, 455
LweI GCATC 1 cut(s) 250
MaeI CTAG 2 cut(s) 162, 171
MaeII ACGT 1 cut(s) 415
MalI GATC 2 cut(s) 190, 323
MboI GATC 2 cut(s) 188, 321
MboII GAAGA 5 cut(s) 71, 77, 83, 98, 131
MflI RGATCY 1 cut(s) 188
MhlI GDGCHC 1 cut(s) 429
Mly113I GGCGCC 1 cut(s) 439
MmeI TCCRAC 1 cut(s) 361
MnlI CCTC 8 cut(s) 21, 43, 46, 49, 55, 61, 67, 73
MspA1I CMGCKG 2 cut(s) 343, 468
MspI CCGG 3 cut(s) 192, 314, 442
MwoI GCNNNNNNNGC 1 cut(s) 447
NarI GGCGCC 1 cut(s) 439
NdeII GATC 2 cut(s) 188, 321
NlaIII CATG 2 cut(s) 95, 116
NlaIV GGNNCC 4 cut(s) 6, 190, 312, 440
NspI RCATGY 1 cut(s) 95
PaeI GCATGC 1 cut(s) 95
PciSI GCTCTTC 1 cut(s) 81
PcsI WCGNNNNNNNCGW 1 cut(s) 218
PkrI GCNGC 1 cut(s) 281
PluTI GGCGCC 1 cut(s) 442
PspFI CCCAGC 1 cut(s) 422
PspN4I GGNNCC 4 cut(s) 6, 190, 312, 440
PsuI RGATCY 1 cut(s) 188
PvuII CAGCTG 1 cut(s) 468
RsaI GTAC 3 cut(s) 100, 105, 157
RsaNI GTAC 3 cut(s) 99, 104, 156
SapI GCTCTTC 1 cut(s) 81
SatI GCNGC 1 cut(s) 280
Sau3AI GATC 2 cut(s) 188, 321
ScaI AGTACT 1 cut(s) 157
SduI GDGCHC 1 cut(s) 429
SfaNI GCATC 1 cut(s) 250
SfoI GGCGCC 1 cut(s) 440
SmlI CTYRAG 1 cut(s) 18
SmoI CTYRAG 1 cut(s) 18
SphI GCATGC 1 cut(s) 95
SsiI CCGC 5 cut(s) 277, 280, 317, 343, 453
SspDI GGCGCC 1 cut(s) 438
SspMI CTAG 2 cut(s) 162, 171
StyI CCWWGG 1 cut(s) 306
TaaI ACNGT 1 cut(s) 103
TaiI ACGT 1 cut(s) 418
TaqI TCGA 1 cut(s) 387
TatI WGTACW 1 cut(s) 155
TauI GCSGC 1 cut(s) 282
TspDTI ATGAA 4 cut(s) 164, 290, 359, 405
XceI RCATGY 1 cut(s) 95
XmiI GTMKAC 1 cut(s) 206
XspI CTAG 2 cut(s) 162, 171
ZrmI AGTACT 1 cut(s) 157
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.