Rh1AG074300

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0017410
Physical Location & Seq
Reverse (-)
12319920 .. 12320651
732 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG074300.1

Sequence Viewer

Length: 732 bp
ATGCCAAAGACTGCAAACCCGGGGAGGAGACATGCCACCTTGCTCAAGAAGGCCAATGAGTTATCTATTCTATGTGATGCAGAGGTCGCCATCATCGCTTTTTCACCTGATGGAGAACTCCATGAATACTCGAGCACAAGCATGGAACACACTCTTGAAAGATACAAGAACAGGACTGGCCTCGTCCTCCCAAGCAGAGTCGAGTCTCCGGGGCCAGAAGAGCACCGCCATGAACTTGCAAAGCAGGAGCTGCAGGAAAGACATAAAGCGCTACGCTTGGAGAAATTGCAGAGAATGGGAAAGGAGTTGGATGGCCTGAGTTCGGACGCGCTGGCTACGCTTTTGGAACAACAAACTAAAGGGTTATTAGCTGTTCACAGCAAGAAAGTGGAACTGCTTGAGGAGAAGTTGCAGAGATGTAGGTCGAGAGAAGAGCAGGCTATGCATGAGAATGGGCTGCTTGAGGAGAAGTTGCTGAGATCTAGGTCAAGAGAAGAGCAGACTATGCACGAGAATAAGAGTCTGCGCAGAAGGATCGGGGGGTTCATGATGAGGCAAAACTACAAGCGACATATCCTTCCATGCCATCCAGCCAATTATTTCGATAGAAATTTTGGAAATAGGATGGGTTTCTGCACAAGCTCAAGAGCTGCTGTTTCTGTTTCCAACTATCCATCGGAGGGAACCGATGACCATTTAGACATGACCACCTTGCGGTTGTGGCCGTCATAG
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

27.98

Weight (kDa)

8.86

Isoelectric Point (pI)

74.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 9 - 43 8.3e-15 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 82 - 158 3.3e-06 K-box region
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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
AccII CGCG 1 cut(s) 329
AciI CCGC 2 cut(s) 226, 715
AclWI GGATC 1 cut(s) 542
AcoI YGGCCR 1 cut(s) 722
AcsI RAATTY 1 cut(s) 610
AfeI AGCGCT 1 cut(s) 270
AfiI CCNNNNNNNGG 3 cut(s) 322, 680, 714
AgsI TTSAA 1 cut(s) 158
AluBI AGCT 4 cut(s) 250, 371, 642, 650
AluI AGCT 4 cut(s) 250, 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 1 cut(s) 250
Ama87I CYCGRG 2 cut(s) 19, 130
Aor51HI AGCGCT 1 cut(s) 270
AoxI GGCC 5 cut(s) 51, 178, 212, 313, 722
ApeKI GCWGC 3 cut(s) 250, 457, 650
ApoI RAATTY 1 cut(s) 610
AspLEI GCGC 3 cut(s) 271, 331, 528
AspS9I GGNCC 1 cut(s) 212
AsuC2I CCSGG 3 cut(s) 20, 21, 210
AsuHPI GGTGA 1 cut(s) 96
AvaI CYCGRG 2 cut(s) 19, 130
BauI CACGAG 1 cut(s) 509
Bbv12I GWGCWC 2 cut(s) 137, 225
BbvI GCAGC 3 cut(s) 237, 444, 637
BccI CCATC 6 cut(s) 98, 104, 305, 594, 619, 682
BceAI ACGGC 1 cut(s) 709
BcgI CGANNNNNNTGC 2 cut(s) 517, 551
BcnI CCSGG 3 cut(s) 20, 21, 210
BcoDI GTCTC 2 cut(s) 22, 210
BfaI CTAG 1 cut(s) 483
BfmI CTRYAG 1 cut(s) 251
BfoI RGCGCY 1 cut(s) 272
BglII AGATCT 1 cut(s) 479
BisI GCNGC 3 cut(s) 251, 458, 651
BlsI GCNGC 3 cut(s) 252, 459, 652
Bme1390I CCNGG 3 cut(s) 20, 21, 210
BmeT110I CYCGRG 2 cut(s) 19, 130
BmgT120I GGNCC 1 cut(s) 212
BmiI GGNNCC 2 cut(s) 213, 685
BmrFI CCNGG 3 cut(s) 20, 21, 210
BmsI GCATC 1 cut(s) 67
BpuEI CTTGAG 4 cut(s) 29, 419, 482, 628
BpuMI CCSGG 3 cut(s) 20, 21, 210
BsaJI CCNNGG 3 cut(s) 19, 20, 209
Bsc4I CCNNNNNNNGG 3 cut(s) 322, 680, 714
Bse1I ACTGG 1 cut(s) 181
BseDI CCNNGG 3 cut(s) 19, 20, 209
BseGI GGATG 3 cut(s) 316, 586, 630
BseLI CCNNNNNNNGG 3 cut(s) 322, 680, 714
BseMII CTCAG 2 cut(s) 308, 467
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 3 cut(s) 40, 416, 479
BseXI GCAGC 3 cut(s) 237, 444, 637
BsgI GTGCAG 1 cut(s) 619
Bsh1236I CGCG 1 cut(s) 329
BshFI GGCC 5 cut(s) 53, 180, 214, 315, 724
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) 322, 680, 714
BsmAI GTCTC 2 cut(s) 22, 210
BsnI GGCC 5 cut(s) 53, 180, 214, 315, 724
BsoBI CYCGRG 2 cut(s) 19, 130
Bsp1286I GDGCHC 2 cut(s) 137, 225
Bsp143I GATC 2 cut(s) 479, 534
BspACI CCGC 2 cut(s) 226, 715
BspANI GGCC 5 cut(s) 53, 180, 214, 315, 724
BspCNI CTCAG 2 cut(s) 309, 468
BspFNI CGCG 1 cut(s) 329
BspHI TCATGA 1 cut(s) 546
BspLI GGNNCC 2 cut(s) 213, 685
BspMAI CTGCAG 1 cut(s) 255
BspPI GGATC 1 cut(s) 542
BspQI GCTCTTC 3 cut(s) 213, 426, 489
BsrI ACTGG 1 cut(s) 181
BssECI CCNNGG 3 cut(s) 19, 20, 209
BssMI GATC 2 cut(s) 479, 534
BssSI CACGAG 1 cut(s) 509
Bst2BI CACGAG 1 cut(s) 509
Bst6I CTCTTC 3 cut(s) 213, 426, 489
BstAPI GCANNNNNTGC 3 cut(s) 250, 442, 505
BstC8I GCNNGC 2 cut(s) 333, 438
BstDEI CTNAG 2 cut(s) 317, 476
BstF5I GGATG 3 cut(s) 316, 586, 630
BstFNI CGCG 1 cut(s) 329
BstH2I RGCGCY 1 cut(s) 272
BstHHI GCGC 3 cut(s) 271, 331, 528
BstKTI GATC 2 cut(s) 482, 537
BstMAI GTCTC 2 cut(s) 22, 210
BstMBI GATC 2 cut(s) 479, 534
BstMWI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
BstNSI RCATGY 1 cut(s) 35
BstSCI CCNGG 3 cut(s) 18, 19, 208
BstSFI CTRYAG 1 cut(s) 251
BstUI CGCG 1 cut(s) 329
BstV1I GCAGC 3 cut(s) 237, 444, 637
BstX2I RGATCY 1 cut(s) 479
BstYI RGATCY 1 cut(s) 479
BsuRI GGCC 5 cut(s) 53, 180, 214, 315, 724
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 3 cut(s) 316, 586, 630
Cac8I GCNNGC 2 cut(s) 333, 438
CaiI CAGNNNCTG 1 cut(s) 250
CciI TCATGA 1 cut(s) 546
CfoI GCGC 3 cut(s) 271, 331, 528
Cfr13I GGNCC 1 cut(s) 212
Cfr9I CCCGGG 1 cut(s) 19
CseI GACGC 1 cut(s) 335
CviAII CATG 8 cut(s) 32, 122, 142, 230, 446, 547, 582, 703
DdeI CTNAG 2 cut(s) 317, 476
DpnI GATC 2 cut(s) 481, 536
DpnII GATC 2 cut(s) 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) 270
Eco88I CYCGRG 2 cut(s) 19, 130
EcoT22I ATGCAT 1 cut(s) 447
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
Fnu4HI GCNGC 3 cut(s) 251, 458, 651
FokI GGATG 3 cut(s) 323, 573, 637
Fsp4HI GCNGC 3 cut(s) 251, 458, 651
FspBI CTAG 1 cut(s) 483
FspI TGCGCA 1 cut(s) 527
GlaI GCGC 3 cut(s) 270, 330, 527
GluI GCNGC 3 cut(s) 251, 458, 651
HaeII RGCGCY 1 cut(s) 272
HaeIII GGCC 5 cut(s) 53, 180, 214, 315, 724
HapII CCGG 2 cut(s) 20, 209
HgaI GACGC 1 cut(s) 335
HhaI GCGC 3 cut(s) 271, 331, 528
Hin1II CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
Hin6I GCGC 3 cut(s) 269, 329, 526
HinP1I GCGC 3 cut(s) 269, 329, 526
HinfI GANTC 3 cut(s) 198, 203, 520
HpaII CCGG 2 cut(s) 20, 209
HphI GGTGA 1 cut(s) 96
Hpy166II GTNNAC 1 cut(s) 376
Hpy188I TCNGA 2 cut(s) 325, 679
Hpy188III TCNNGA 6 cut(s) 46, 155, 426, 489, 547, 645
Hpy8I GTNNAC 1 cut(s) 376
HpyAV CCTTC 3 cut(s) 43, 525, 587
HpyCH4V TGCA 9 cut(s) 14, 80, 239, 253, 289, 412, 445, 508, 636
HpyF10VI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
HpyF3I CTNAG 2 cut(s) 317, 476
Hsp92II CATG 8 cut(s) 35, 125, 145, 233, 449, 550, 585, 706
HspAI GCGC 3 cut(s) 269, 329, 526
Kzo9I GATC 2 cut(s) 479, 534
LguI GCTCTTC 3 cut(s) 213, 426, 489
LmnI GCTCC 1 cut(s) 247
Lsp1109I GCAGC 3 cut(s) 237, 444, 637
LweI GCATC 1 cut(s) 67
MaeI CTAG 1 cut(s) 483
MalI GATC 2 cut(s) 481, 536
MboI GATC 2 cut(s) 479, 534
MboII GAAGA 3 cut(s) 230, 443, 506
MflI RGATCY 1 cut(s) 479
MhlI GDGCHC 2 cut(s) 137, 225
MluCI AATT 3 cut(s) 284, 595, 610
MlyI GAGTC 3 cut(s) 207, 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 3 cut(s) 140, 228, 450
MspI CCGG 2 cut(s) 20, 209
MspR9I CCNGG 3 cut(s) 20, 21, 210
MvnI CGCG 1 cut(s) 329
MwoI GCNNNNNNNGC 8 cut(s) 86, 95, 220, 250, 337, 442, 505, 721
NciI CCSGG 3 cut(s) 20, 21, 210
NdeII GATC 2 cut(s) 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 3 cut(s) 252, 459, 652
PleI GAGTC 3 cut(s) 206, 211, 528
PpsI GAGTC 3 cut(s) 206, 211, 528
PspN4I GGNNCC 2 cut(s) 213, 685
PspPI GGNCC 1 cut(s) 212
PspXI VCTCGAGB 1 cut(s) 130
PstI CTGCAG 1 cut(s) 255
PstNI CAGNNNCTG 1 cut(s) 250
PsuI RGATCY 1 cut(s) 479
RseI CAYNNNNRTG 3 cut(s) 140, 228, 450
SapI GCTCTTC 3 cut(s) 213, 426, 489
SatI GCNGC 3 cut(s) 251, 458, 651
Sau3AI GATC 2 cut(s) 479, 534
Sau96I GGNCC 1 cut(s) 212
SchI GAGTC 3 cut(s) 207, 212, 529
ScrFI CCNGG 3 cut(s) 20, 21, 210
SduI GDGCHC 2 cut(s) 137, 225
SfaNI GCATC 1 cut(s) 67
SfcI CTRYAG 1 cut(s) 251
Sfr274I CTCGAG 1 cut(s) 130
SlaI CTCGAG 1 cut(s) 130
SmaI CCCGGG 1 cut(s) 21
SmiMI CAYNNNNRTG 3 cut(s) 140, 228, 450
SmlI CTYRAG 5 cut(s) 44, 130, 398, 461, 643
SmoI CTYRAG 5 cut(s) 44, 130, 398, 461, 643
Sse9I AATT 3 cut(s) 284, 595, 610
SsiI CCGC 2 cut(s) 226, 715
SspMI CTAG 1 cut(s) 483
StyD4I CCNGG 3 cut(s) 18, 19, 208
TaqI TCGA 4 cut(s) 131, 201, 425, 603
TasI AATT 3 cut(s) 284, 595, 610
TseI GCWGC 3 cut(s) 250, 457, 650
TspDTI ATGAA 3 cut(s) 138, 246, 535
TspMI CCCGGG 1 cut(s) 19
XapI RAATTY 1 cut(s) 610
XceI RCATGY 1 cut(s) 35
XhoI CTCGAG 1 cut(s) 130
XmaI CCCGGG 1 cut(s) 19
XspI CTAG 1 cut(s) 483
Zsp2I ATGCAT 1 cut(s) 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.