Rroxscaffold_4G00324030

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0017410
Physical Location & Seq
Forward (+)
55320343 .. 55320894
552 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00324030.1

Sequence Viewer

Length: 552 bp
ATGCCAAAGACTGCAAACCCGGGGAGGAGACATGCCACCTTGCTCAAGAAGGCCAATGAGTTATCTATTCTATGTGATGCAGAGGTCGCCATCATCGCTTTTTCACCTGATGGAGAACTCCATGAATACTCGAGCACAAGCATGGAACACACGCTTGAAAGATACCAGAACAGGACTGGCCTCGTCCTCCCAAGCAGAGTCGAGTCTCCGGCGCCAGAAGATCAGCACCGCCATGAACCTGCAAAGCAGGAACTGCAGGAAAGACATAAAGCGCTACGCTTGGAGAAATTGCAGAGAATGGGAAAGGAGTTGGATGGCCTGAGTTCGGACGCGCTGTCTACGCTTTTGGAACAACAAACTAAAGGGTTATTAGCTGTTCAGAGCAAGAAAGTGGAACTGCTTGAGGAGAAGTTGCAGAGATCTAGGTCGAGAGAAGAGCAGGCTATGCATGAGAATGTGCTGCTTGAGGAGAAGTTGCTGAGATCTAGGTCAAGAGAAGAGCAGACTATGCACGAGAATAAGAGTCTGCGCAGAAGGATCGGGGGTTCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
SRF-TF

Protein Analysis

183

Amino Acids

20.99

Weight (kDa)

7.93

Isoelectric Point (pI)

87.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 9 - 43 5.3e-15 SRF-type transcription factor (DNA-binding and dimerisation 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: OG0017410)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0326161
rosa_laevigata RLG00000030089
rosa_multiflora Rmu_co8253881.1_g000001 Rmu_sc0000028.1_g000010
rosa_roxburghii Rroxscaffold_4G00324030
rosa_rugosa Rorug01G0057400
rosa_samantha Rh1AG074300 Rh1BG059800 Rh1DG078300 Rh1DG079500
rosa_wichuraiana Rw0G003150 Rw0G020750 Rw1G005960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 530
Acc36I ACCTGC 1 cut(s) 247
AccB1I GGYRCC 1 cut(s) 211
AccI GTMKAC 1 cut(s) 338
AccII CGCG 1 cut(s) 332
AciI CCGC 1 cut(s) 229
AclWI GGATC 1 cut(s) 545
AcyI GRCGYC 1 cut(s) 212
AfeI AGCGCT 1 cut(s) 273
AfiI CCNNNNNNNGG 1 cut(s) 325
AgsI TTSAA 1 cut(s) 158
AhdI GACNNNNNGTC 1 cut(s) 334
AloI GAACNNNNNNTCC 1 cut(s) 529
AluBI AGCT 1 cut(s) 374
AluI AGCT 1 cut(s) 374
Alw21I GWGCWC 1 cut(s) 137
Alw26I GTCTC 2 cut(s) 22, 210
AlwI GGATC 1 cut(s) 545
AlwNI CAGNNNCTG 1 cut(s) 253
Ama87I CYCGRG 2 cut(s) 19, 130
Aor51HI AGCGCT 1 cut(s) 273
AoxI GGCC 3 cut(s) 51, 178, 316
ApeKI GCWGC 1 cut(s) 460
AspLEI GCGC 4 cut(s) 214, 274, 334, 531
AsuC2I CCSGG 2 cut(s) 20, 21
AsuHPI GGTGA 1 cut(s) 96
AvaI CYCGRG 2 cut(s) 19, 130
BanI GGYRCC 1 cut(s) 211
BauI CACGAG 1 cut(s) 512
Bbv12I GWGCWC 1 cut(s) 137
BbvI GCAGC 1 cut(s) 447
BccI CCATC 3 cut(s) 98, 104, 308
BcgI CGANNNNNNTGC 1 cut(s) 520
BcnI CCSGG 2 cut(s) 20, 21
BcoDI GTCTC 2 cut(s) 22, 210
BfaI CTAG 2 cut(s) 423, 486
BfmI CTRYAG 1 cut(s) 254
BfoI RGCGCY 2 cut(s) 215, 275
BfuAI ACCTGC 1 cut(s) 247
BglII AGATCT 2 cut(s) 419, 482
BisI GCNGC 1 cut(s) 461
BlsI GCNGC 1 cut(s) 462
Bme1390I CCNGG 2 cut(s) 20, 21
BmeRI GACNNNNNGTC 1 cut(s) 334
BmeT110I CYCGRG 2 cut(s) 19, 130
BmiI GGNNCC 1 cut(s) 213
BmrFI CCNGG 2 cut(s) 20, 21
BmsI GCATC 1 cut(s) 67
BpuEI CTTGAG 3 cut(s) 29, 422, 485
BpuMI CCSGG 2 cut(s) 20, 21
BsaHI GRCGYC 1 cut(s) 212
BsaJI CCNNGG 2 cut(s) 19, 20
Bsc4I CCNNNNNNNGG 1 cut(s) 325
Bse1I ACTGG 1 cut(s) 181
BseDI CCNNGG 2 cut(s) 19, 20
BseGI GGATG 1 cut(s) 319
BseLI CCNNNNNNNGG 1 cut(s) 325
BseMII CTCAG 2 cut(s) 311, 470
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 3 cut(s) 40, 419, 482
BseXI GCAGC 1 cut(s) 447
Bsh1236I CGCG 1 cut(s) 332
BshFI GGCC 3 cut(s) 53, 180, 318
BshNI GGYRCC 1 cut(s) 211
BsiHKAI GWGCWC 1 cut(s) 137
BsiHKCI CYCGRG 2 cut(s) 19, 130
BsiSI CCGG 2 cut(s) 20, 209
BslI CCNNNNNNNGG 1 cut(s) 325
BsmAI GTCTC 2 cut(s) 22, 210
BsnI GGCC 3 cut(s) 53, 180, 318
BsoBI CYCGRG 2 cut(s) 19, 130
Bsp1286I GDGCHC 1 cut(s) 137
Bsp143I GATC 4 cut(s) 220, 419, 482, 537
BspACI CCGC 1 cut(s) 229
BspANI GGCC 3 cut(s) 53, 180, 318
BspCNI CTCAG 2 cut(s) 312, 471
BspFNI CGCG 1 cut(s) 332
BspLI GGNNCC 1 cut(s) 213
BspMAI CTGCAG 1 cut(s) 258
BspMI ACCTGC 1 cut(s) 247
BspPI GGATC 1 cut(s) 545
BspQI GCTCTTC 2 cut(s) 429, 492
BspT107I GGYRCC 1 cut(s) 211
BsrI ACTGG 1 cut(s) 181
BssECI CCNNGG 2 cut(s) 19, 20
BssMI GATC 4 cut(s) 220, 419, 482, 537
BssNI GRCGYC 1 cut(s) 212
BssSI CACGAG 1 cut(s) 512
Bst2BI CACGAG 1 cut(s) 512
Bst6I CTCTTC 2 cut(s) 429, 492
BstACI GRCGYC 1 cut(s) 212
BstAPI GCANNNNNTGC 3 cut(s) 253, 445, 508
BstC8I GCNNGC 1 cut(s) 441
BstDEI CTNAG 2 cut(s) 320, 479
BstF5I GGATG 1 cut(s) 319
BstFNI CGCG 1 cut(s) 332
BstH2I RGCGCY 2 cut(s) 215, 275
BstHHI GCGC 4 cut(s) 214, 274, 334, 531
BstKTI GATC 4 cut(s) 223, 422, 485, 540
BstMAI GTCTC 2 cut(s) 22, 210
BstMBI GATC 4 cut(s) 220, 419, 482, 537
BstMWI GCNNNNNNNGC 6 cut(s) 86, 95, 253, 340, 445, 508
BstNSI RCATGY 1 cut(s) 35
BstSCI CCNGG 2 cut(s) 18, 19
BstSFI CTRYAG 1 cut(s) 254
BstUI CGCG 1 cut(s) 332
BstV1I GCAGC 1 cut(s) 447
BstX2I RGATCY 2 cut(s) 419, 482
BstYI RGATCY 2 cut(s) 419, 482
BsuRI GGCC 3 cut(s) 53, 180, 318
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 1 cut(s) 319
BveI ACCTGC 1 cut(s) 247
Cac8I GCNNGC 1 cut(s) 441
CaiI CAGNNNCTG 1 cut(s) 253
CfoI GCGC 4 cut(s) 214, 274, 334, 531
Cfr9I CCCGGG 1 cut(s) 19
CseI GACGC 1 cut(s) 338
CviAII CATG 5 cut(s) 32, 122, 142, 233, 449
CviJI RGCY 5 cut(s) 53, 180, 318, 374, 443
CviKI_1 RGCY 5 cut(s) 53, 180, 318, 374, 443
DdeI CTNAG 2 cut(s) 320, 479
DinI GGCGCC 1 cut(s) 213
DpnI GATC 4 cut(s) 222, 421, 484, 539
DpnII GATC 4 cut(s) 220, 419, 482, 537
DriI GACNNNNNGTC 1 cut(s) 334
Eam1104I CTCTTC 2 cut(s) 429, 492
Eam1105I GACNNNNNGTC 1 cut(s) 334
EarI CTCTTC 2 cut(s) 429, 492
Eco47III AGCGCT 1 cut(s) 273
Eco88I CYCGRG 2 cut(s) 19, 130
EcoT22I ATGCAT 1 cut(s) 450
EgeI GGCGCC 1 cut(s) 213
EheI GGCGCC 1 cut(s) 213
FaeI CATG 5 cut(s) 35, 125, 145, 236, 452
FatI CATG 5 cut(s) 31, 121, 141, 232, 448
FblI GTMKAC 1 cut(s) 338
Fnu4HI GCNGC 1 cut(s) 461
FokI GGATG 1 cut(s) 326
Fsp4HI GCNGC 1 cut(s) 461
FspBI CTAG 2 cut(s) 423, 486
FspI TGCGCA 1 cut(s) 530
GlaI GCGC 4 cut(s) 213, 273, 333, 530
GluI GCNGC 1 cut(s) 461
HaeII RGCGCY 2 cut(s) 215, 275
HaeIII GGCC 3 cut(s) 53, 180, 318
HapII CCGG 2 cut(s) 20, 209
HgaI GACGC 1 cut(s) 338
HhaI GCGC 4 cut(s) 214, 274, 334, 531
Hin1I GRCGYC 1 cut(s) 212
Hin1II CATG 5 cut(s) 35, 125, 145, 236, 452
Hin6I GCGC 4 cut(s) 212, 272, 332, 529
HinP1I GCGC 4 cut(s) 212, 272, 332, 529
HinfI GANTC 3 cut(s) 198, 203, 523
HpaII CCGG 2 cut(s) 20, 209
HphI GGTGA 1 cut(s) 96
Hpy166II GTNNAC 1 cut(s) 339
Hpy188I TCNGA 2 cut(s) 328, 381
Hpy188III TCNNGA 3 cut(s) 46, 429, 492
Hpy8I GTNNAC 1 cut(s) 339
HpyAV CCTTC 2 cut(s) 43, 528
HpyCH4V TGCA 8 cut(s) 14, 80, 242, 256, 292, 415, 448, 511
HpyF10VI GCNNNNNNNGC 6 cut(s) 86, 95, 253, 340, 445, 508
HpyF3I CTNAG 2 cut(s) 320, 479
Hsp92I GRCGYC 1 cut(s) 212
Hsp92II CATG 5 cut(s) 35, 125, 145, 236, 452
HspAI GCGC 4 cut(s) 212, 272, 332, 529
KasI GGCGCC 1 cut(s) 211
Kzo9I GATC 4 cut(s) 220, 419, 482, 537
LguI GCTCTTC 2 cut(s) 429, 492
Lsp1109I GCAGC 1 cut(s) 447
LweI GCATC 1 cut(s) 67
MaeI CTAG 2 cut(s) 423, 486
MalI GATC 4 cut(s) 222, 421, 484, 539
MboI GATC 4 cut(s) 220, 419, 482, 537
MboII GAAGA 3 cut(s) 230, 446, 509
MflI RGATCY 2 cut(s) 419, 482
MhlI GDGCHC 1 cut(s) 137
MluCI AATT 1 cut(s) 287
Mly113I GGCGCC 1 cut(s) 212
MlyI GAGTC 3 cut(s) 207, 212, 532
MmeI TCCRAC 1 cut(s) 291
MnlI CCTC 6 cut(s) 18, 76, 191, 197, 397, 460
Mph1103I ATGCAT 1 cut(s) 450
MslI CAYNNNNRTG 3 cut(s) 140, 231, 453
MspI CCGG 2 cut(s) 20, 209
MspR9I CCNGG 2 cut(s) 20, 21
MvnI CGCG 1 cut(s) 332
MwoI GCNNNNNNNGC 6 cut(s) 86, 95, 253, 340, 445, 508
NarI GGCGCC 1 cut(s) 212
NciI CCSGG 2 cut(s) 20, 21
NdeII GATC 4 cut(s) 220, 419, 482, 537
NlaIII CATG 5 cut(s) 35, 125, 145, 236, 452
NlaIV GGNNCC 1 cut(s) 213
NsbI TGCGCA 1 cut(s) 530
NsiI ATGCAT 1 cut(s) 450
NspI RCATGY 1 cut(s) 35
PaeR7I CTCGAG 1 cut(s) 130
PciSI GCTCTTC 2 cut(s) 429, 492
PkrI GCNGC 1 cut(s) 462
PleI GAGTC 3 cut(s) 206, 211, 531
PluTI GGCGCC 1 cut(s) 215
PpsI GAGTC 3 cut(s) 206, 211, 531
PspN4I GGNNCC 1 cut(s) 213
PspXI VCTCGAGB 1 cut(s) 130
PstI CTGCAG 1 cut(s) 258
PstNI CAGNNNCTG 1 cut(s) 253
PsuI RGATCY 2 cut(s) 419, 482
RseI CAYNNNNRTG 3 cut(s) 140, 231, 453
SapI GCTCTTC 2 cut(s) 429, 492
SatI GCNGC 1 cut(s) 461
Sau3AI GATC 4 cut(s) 220, 419, 482, 537
SchI GAGTC 3 cut(s) 207, 212, 532
ScrFI CCNGG 2 cut(s) 20, 21
SduI GDGCHC 1 cut(s) 137
SetI ASST 7 cut(s) 41, 87, 109, 241, 376, 428, 491
SfaNI GCATC 1 cut(s) 67
SfcI CTRYAG 1 cut(s) 254
SfoI GGCGCC 1 cut(s) 213
Sfr274I CTCGAG 1 cut(s) 130
SlaI CTCGAG 1 cut(s) 130
SmaI CCCGGG 1 cut(s) 21
SmiMI CAYNNNNRTG 3 cut(s) 140, 231, 453
SmlI CTYRAG 4 cut(s) 44, 130, 401, 464
SmoI CTYRAG 4 cut(s) 44, 130, 401, 464
Sse9I AATT 1 cut(s) 287
SsiI CCGC 1 cut(s) 229
SspDI GGCGCC 1 cut(s) 211
SspMI CTAG 2 cut(s) 423, 486
StyD4I CCNGG 2 cut(s) 18, 19
TaqI TCGA 3 cut(s) 131, 201, 428
TasI AATT 1 cut(s) 287
TseI GCWGC 1 cut(s) 460
TspDTI ATGAA 3 cut(s) 138, 249, 537
TspMI CCCGGG 1 cut(s) 19
XceI RCATGY 1 cut(s) 35
XcmI CCANNNNNNNNNTGG 1 cut(s) 173
XhoI CTCGAG 1 cut(s) 130
XmaI CCCGGG 1 cut(s) 19
XmiI GTMKAC 1 cut(s) 338
XspI CTAG 2 cut(s) 423, 486
Zsp2I ATGCAT 1 cut(s) 450
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.