Rh1DG078300

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0017410
Physical Location & Seq
Reverse (-)
14391456 .. 14392187
732 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG078300.1

Sequence Viewer

Length: 732 bp
ATGCCAAAGACTGCAAACCCGGGGAGGAGACATGCCACCTTGCTCAAGAAGGCCAATGAGTTATCTATTCTATGTGATGCAGAGGTCGCCTTCATCGCTTTTTCACCTGATGGAGAACTCCATGAATACTCGAGCACAAGCATGGAACACACTCTTGAAAGATACAAGAACAGGACTGGCCTCGTCCTCCCAAGCAGGGTCGAGTCTCCGGCGCCAGAAGAGCACCGCCATGAACCTGCAAAGCAGGAACTGCAGGAAAGACATAAGGCGCTACGCTTGGAGAAATTGTGGAGAATGGGAAAGGAGTTGGATGGCCTGAGTTCAGAAGCGCTGTCTACGCTTTTGGAACAACAAACTAAAGGGTTATTAGCTGTTCAGAGCAAGAAAGTGGAACTGCTTGAGGAGAAGTTGCAGAGATCTAGGTCGAGAGAAGAGCAGGCTATGCATGAGAATGAACTGCTTGAGGAGAAGTTGCTGAGATCTAGGTCAAGAGAAGAGCAGACTATGCACGAGAATGAGAGTCTGCGCAGAAGGATCGGGGGGTTCATGATGAGGCAAAACTACAAGCGACATATCCTTCCATGCCATCCAGCCAATTATTTGGATAGAAATTATGGAAATAGGATGGGTTTCTGCACAAGCTCAGGAGCTGCTGTTTCTGTTTCCAACTATCCATCGGAGGGAACCGATGACCATTTAGACATGACCACTTTGCGGTTGTGGCCGTCATAG
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

243

Amino Acids

28.03

Weight (kDa)

7.2

Isoelectric Point (pI)

81.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 9 - 43 1.8e-14 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) 527
Acc36I ACCTGC 1 cut(s) 244
AccB1I GGYRCC 1 cut(s) 211
AccI GTMKAC 1 cut(s) 335
AciI CCGC 2 cut(s) 226, 715
AclWI GGATC 1 cut(s) 542
AcoI YGGCCR 1 cut(s) 722
AcyI GRCGYC 1 cut(s) 212
AfeI AGCGCT 1 cut(s) 330
AfiI CCNNNNNNNGG 3 cut(s) 196, 680, 714
AgsI TTSAA 1 cut(s) 158
AluBI AGCT 3 cut(s) 371, 642, 650
AluI AGCT 3 cut(s) 371, 642, 650
Alw21I GWGCWC 2 cut(s) 137, 225
Alw26I GTCTC 2 cut(s) 22, 210
AlwI GGATC 1 cut(s) 542
AlwNI CAGNNNCTG 2 cut(s) 250, 650
Ama87I CYCGRG 2 cut(s) 19, 130
Aor51HI AGCGCT 1 cut(s) 330
AoxI GGCC 4 cut(s) 51, 178, 313, 722
ApeKI GCWGC 1 cut(s) 650
AspLEI GCGC 4 cut(s) 214, 271, 331, 528
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) 509
Bbv12I GWGCWC 2 cut(s) 137, 225
BbvI GCAGC 1 cut(s) 637
BccI CCATC 5 cut(s) 104, 305, 594, 619, 682
BceAI ACGGC 1 cut(s) 709
BcgI CGANNNNNNTGC 2 cut(s) 517, 551
BcnI CCSGG 2 cut(s) 20, 21
BcoDI GTCTC 2 cut(s) 22, 210
BfaI CTAG 2 cut(s) 420, 483
BfmI CTRYAG 1 cut(s) 251
BfoI RGCGCY 3 cut(s) 215, 272, 332
BfuAI ACCTGC 1 cut(s) 244
BglII AGATCT 2 cut(s) 416, 479
BisI GCNGC 1 cut(s) 651
BlsI GCNGC 1 cut(s) 652
Bme1390I CCNGG 2 cut(s) 20, 21
BmeT110I CYCGRG 2 cut(s) 19, 130
BmiI GGNNCC 2 cut(s) 213, 685
BmrFI CCNGG 2 cut(s) 20, 21
BmsI GCATC 1 cut(s) 67
Bpu10I CCTNAGC 1 cut(s) 643
BpuEI CTTGAG 3 cut(s) 29, 419, 482
BpuMI CCSGG 2 cut(s) 20, 21
BsaHI GRCGYC 1 cut(s) 212
BsaJI CCNNGG 2 cut(s) 19, 20
BsaXI ACNNNNNCTCC 4 cut(s) 272, 302, 639, 669
Bsc4I CCNNNNNNNGG 3 cut(s) 196, 680, 714
Bse1I ACTGG 1 cut(s) 181
BseDI CCNNGG 2 cut(s) 19, 20
BseGI GGATG 3 cut(s) 316, 586, 630
BseLI CCNNNNNNNGG 3 cut(s) 196, 680, 714
BseMII CTCAG 3 cut(s) 308, 467, 657
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 3 cut(s) 40, 416, 479
BseXI GCAGC 1 cut(s) 637
BsgI GTGCAG 1 cut(s) 619
BshFI GGCC 4 cut(s) 53, 180, 315, 724
BshNI GGYRCC 1 cut(s) 211
BsiHKAI GWGCWC 2 cut(s) 137, 225
BsiHKCI CYCGRG 2 cut(s) 19, 130
BsiSI CCGG 2 cut(s) 20, 209
BslI CCNNNNNNNGG 3 cut(s) 196, 680, 714
BsmAI GTCTC 2 cut(s) 22, 210
BsnI GGCC 4 cut(s) 53, 180, 315, 724
BsoBI CYCGRG 2 cut(s) 19, 130
Bsp1286I GDGCHC 2 cut(s) 137, 225
Bsp143I GATC 3 cut(s) 416, 479, 534
BspACI CCGC 2 cut(s) 226, 715
BspANI GGCC 4 cut(s) 53, 180, 315, 724
BspCNI CTCAG 3 cut(s) 309, 468, 656
BspHI TCATGA 1 cut(s) 546
BspLI GGNNCC 2 cut(s) 213, 685
BspMAI CTGCAG 1 cut(s) 255
BspMI ACCTGC 1 cut(s) 244
BspPI GGATC 1 cut(s) 542
BspQI GCTCTTC 3 cut(s) 213, 426, 489
BspT107I GGYRCC 1 cut(s) 211
BsrI ACTGG 1 cut(s) 181
BssECI CCNNGG 2 cut(s) 19, 20
BssMI GATC 3 cut(s) 416, 479, 534
BssNI GRCGYC 1 cut(s) 212
BssSI CACGAG 1 cut(s) 509
Bst2BI CACGAG 1 cut(s) 509
Bst6I CTCTTC 3 cut(s) 213, 426, 489
BstACI GRCGYC 1 cut(s) 212
BstAPI GCANNNNNTGC 3 cut(s) 250, 442, 505
BstC8I GCNNGC 1 cut(s) 438
BstDEI CTNAG 3 cut(s) 317, 476, 643
BstF5I GGATG 3 cut(s) 316, 586, 630
BstH2I RGCGCY 3 cut(s) 215, 272, 332
BstHHI GCGC 4 cut(s) 214, 271, 331, 528
BstKTI GATC 3 cut(s) 419, 482, 537
BstMAI GTCTC 2 cut(s) 22, 210
BstMBI GATC 3 cut(s) 416, 479, 534
BstMWI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
BstNSI RCATGY 1 cut(s) 35
BstSCI CCNGG 2 cut(s) 18, 19
BstSFI CTRYAG 1 cut(s) 251
BstV1I GCAGC 1 cut(s) 637
BstX2I RGATCY 2 cut(s) 416, 479
BstXI CCANNNNNNTGG 1 cut(s) 601
BstYI RGATCY 2 cut(s) 416, 479
BsuRI GGCC 4 cut(s) 53, 180, 315, 724
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 3 cut(s) 316, 586, 630
BveI ACCTGC 1 cut(s) 244
Cac8I GCNNGC 1 cut(s) 438
CaiI CAGNNNCTG 2 cut(s) 250, 650
CciI TCATGA 1 cut(s) 546
CfoI GCGC 4 cut(s) 214, 271, 331, 528
Cfr9I CCCGGG 1 cut(s) 19
CviAII CATG 8 cut(s) 32, 122, 142, 230, 446, 547, 582, 703
CviJI RGCY 9 cut(s) 53, 180, 315, 371, 440, 593, 642, 650, 724
CviKI_1 RGCY 9 cut(s) 53, 180, 315, 371, 440, 593, 642, 650, 724
DdeI CTNAG 3 cut(s) 317, 476, 643
DinI GGCGCC 1 cut(s) 213
DpnI GATC 3 cut(s) 418, 481, 536
DpnII GATC 3 cut(s) 416, 479, 534
EaeI YGGCCR 1 cut(s) 722
Eam1104I CTCTTC 3 cut(s) 213, 426, 489
EarI CTCTTC 3 cut(s) 213, 426, 489
Eco47III AGCGCT 1 cut(s) 330
Eco88I CYCGRG 2 cut(s) 19, 130
EcoT22I ATGCAT 1 cut(s) 447
EgeI GGCGCC 1 cut(s) 213
EheI GGCGCC 1 cut(s) 213
FaeI CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
FatI CATG 8 cut(s) 31, 121, 141, 229, 445, 546, 581, 702
FblI GTMKAC 1 cut(s) 335
Fnu4HI GCNGC 1 cut(s) 651
FokI GGATG 3 cut(s) 323, 573, 637
Fsp4HI GCNGC 1 cut(s) 651
FspBI CTAG 2 cut(s) 420, 483
FspI TGCGCA 1 cut(s) 527
GlaI GCGC 4 cut(s) 213, 270, 330, 527
GluI GCNGC 1 cut(s) 651
HaeII RGCGCY 3 cut(s) 215, 272, 332
HaeIII GGCC 4 cut(s) 53, 180, 315, 724
HapII CCGG 2 cut(s) 20, 209
HhaI GCGC 4 cut(s) 214, 271, 331, 528
Hin1I GRCGYC 1 cut(s) 212
Hin1II CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
Hin6I GCGC 4 cut(s) 212, 269, 329, 526
HinP1I GCGC 4 cut(s) 212, 269, 329, 526
HinfI GANTC 2 cut(s) 203, 520
HpaII CCGG 2 cut(s) 20, 209
HphI GGTGA 1 cut(s) 96
Hpy166II GTNNAC 1 cut(s) 336
Hpy188I TCNGA 3 cut(s) 325, 378, 679
Hpy188III TCNNGA 6 cut(s) 46, 155, 426, 489, 547, 645
Hpy8I GTNNAC 1 cut(s) 336
HpyAV CCTTC 4 cut(s) 43, 100, 525, 587
HpyCH4V TGCA 8 cut(s) 14, 80, 239, 253, 412, 445, 508, 636
HpyF10VI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
HpyF3I CTNAG 3 cut(s) 317, 476, 643
Hsp92I GRCGYC 1 cut(s) 212
Hsp92II CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
HspAI GCGC 4 cut(s) 212, 269, 329, 526
KasI GGCGCC 1 cut(s) 211
Kzo9I GATC 3 cut(s) 416, 479, 534
LguI GCTCTTC 3 cut(s) 213, 426, 489
LmnI GCTCC 1 cut(s) 647
Lsp1109I GCAGC 1 cut(s) 637
LweI GCATC 1 cut(s) 67
MaeI CTAG 2 cut(s) 420, 483
MalI GATC 3 cut(s) 418, 481, 536
MboI GATC 3 cut(s) 416, 479, 534
MboII GAAGA 3 cut(s) 230, 443, 506
MflI RGATCY 2 cut(s) 416, 479
MhlI GDGCHC 2 cut(s) 137, 225
MluCI AATT 3 cut(s) 284, 595, 610
Mly113I GGCGCC 1 cut(s) 212
MlyI GAGTC 2 cut(s) 212, 529
MmeI TCCRAC 2 cut(s) 288, 690
MnlI CCTC 8 cut(s) 18, 76, 191, 197, 394, 457, 546, 673
Mph1103I ATGCAT 1 cut(s) 447
MslI CAYNNNNRTG 4 cut(s) 140, 228, 450, 513
MspI CCGG 2 cut(s) 20, 209
MspR9I CCNGG 2 cut(s) 20, 21
MwoI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
NarI GGCGCC 1 cut(s) 212
NciI CCSGG 2 cut(s) 20, 21
NdeII GATC 3 cut(s) 416, 479, 534
NlaIII CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
NlaIV GGNNCC 2 cut(s) 213, 685
NsbI TGCGCA 1 cut(s) 527
NsiI ATGCAT 1 cut(s) 447
NspI RCATGY 1 cut(s) 35
PaeR7I CTCGAG 1 cut(s) 130
PagI TCATGA 1 cut(s) 546
PciSI GCTCTTC 3 cut(s) 213, 426, 489
PkrI GCNGC 1 cut(s) 652
PleI GAGTC 2 cut(s) 211, 528
PluTI GGCGCC 1 cut(s) 215
PpsI GAGTC 2 cut(s) 211, 528
PspN4I GGNNCC 2 cut(s) 213, 685
PspXI VCTCGAGB 1 cut(s) 130
PstI CTGCAG 1 cut(s) 255
PstNI CAGNNNCTG 2 cut(s) 250, 650
PsuI RGATCY 2 cut(s) 416, 479
RseI CAYNNNNRTG 4 cut(s) 140, 228, 450, 513
SapI GCTCTTC 3 cut(s) 213, 426, 489
SatI GCNGC 1 cut(s) 651
Sau3AI GATC 3 cut(s) 416, 479, 534
SchI GAGTC 2 cut(s) 212, 529
ScrFI CCNGG 2 cut(s) 20, 21
SduI GDGCHC 2 cut(s) 137, 225
SetI ASST 9 cut(s) 41, 87, 109, 238, 373, 425, 488, 644, 652
SfaNI GCATC 1 cut(s) 67
SfcI CTRYAG 1 cut(s) 251
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 4 cut(s) 140, 228, 450, 513
SmlI CTYRAG 4 cut(s) 44, 130, 398, 461
SmoI CTYRAG 4 cut(s) 44, 130, 398, 461
Sse9I AATT 3 cut(s) 284, 595, 610
SsiI CCGC 2 cut(s) 226, 715
SspDI GGCGCC 1 cut(s) 211
SspMI CTAG 2 cut(s) 420, 483
StyD4I CCNGG 2 cut(s) 18, 19
TaqI TCGA 3 cut(s) 131, 201, 425
TasI AATT 3 cut(s) 284, 595, 610
TseI GCWGC 1 cut(s) 650
TspDTI ATGAA 5 cut(s) 82, 138, 246, 468, 535
TspMI CCCGGG 1 cut(s) 19
XceI RCATGY 1 cut(s) 35
XhoI CTCGAG 1 cut(s) 130
XmaI CCCGGG 1 cut(s) 19
XmiI GTMKAC 1 cut(s) 335
XspI CTAG 2 cut(s) 420, 483
Zsp2I ATGCAT 1 cut(s) 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.