Rh3AG188800

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0018054
Physical Location & Seq
Reverse (-)
18112767 .. 18113615
849 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG188800.1

Sequence Viewer

Length: 615 bp
ATGCCAACCACTGAAAACATAGGGATCAGGAGGCAGGCCACTCTGTTCAAGAAGGCTCATCAATTGTCAGTTTTATGTGATGCGGAGGTAGCGATCATCGCTTTCACAAGCGATGGAAAGCTTCATGAATTCTCGAGCACCAGCATGGAGCACACTCTTTCAAGATACAAGGGCGAGGTGGAGCAGTCTAGGCCAGAAGAGGGCCGCCGCCACGAACCTGCGAAACTGGAGAAGCCAAAACCATGTGACAATTACATTATTCATGAACTGAAGGGAAAACATGCAGCGCTGAGTTTGGAGATCTCGCGGAGAATGGGAAAAGAGTTGGATGACTTGAGTAGGGAAGAGCTGTGTGCCCTAGAGGAGCAACAACTTTGGGCGTTGTTATCTGTCAATGACAAGAAGAAGGAACTACTTGTGGAGATGTTGCAGAGGTCTATGTCGGGTGATGAACAGCGAGCTGTGCAGGAGAAAGAGAACCTGATCAGAGGGTTTGAGGGGAGGATCAGGGAAAGGCCATATGTCCTTCAAGACCATGGCCTGAATAGGATGGTTTACAGCACAAAATTGAAAGCTGTTTCACTTTACAATCGTCCATCACAGATCCAGCGATGA
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

204

Amino Acids

23.58

Weight (kDa)

8.38

Isoelectric Point (pI)

51.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 10 - 44 4.5e-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: OG0018054)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g19060
rosa_chinensis RchiOBHm_Chr3g0474101
rosa_laevigata RLG00000023950
rosa_multiflora Rmu_sc0004507.1_g000033
rosa_roxburghii Rroxscaffold_6G00407480
rosa_rugosa Rorug03G0138800
rosa_samantha Rh3AG188800 Rh3BG218200 Rh3CG213900 Rh3DG213400
rosa_wichuraiana Rw3G017270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 226
AccII CGCG 1 cut(s) 307
AciI CCGC 4 cut(s) 83, 205, 208, 307
AclWI GGATC 3 cut(s) 32, 512, 598
AcsI RAATTY 1 cut(s) 128
AcuI CTGAAG 1 cut(s) 290
AfeI AGCGCT 1 cut(s) 288
AfiI CCNNNNNNNGG 1 cut(s) 200
AgsI TTSAA 4 cut(s) 49, 162, 530, 571
AluBI AGCT 4 cut(s) 121, 349, 461, 575
AluI AGCT 4 cut(s) 121, 349, 461, 575
Alw21I GWGCWC 2 cut(s) 140, 153
AlwI GGATC 3 cut(s) 32, 512, 598
Ama87I CYCGRG 1 cut(s) 133
Aor51HI AGCGCT 1 cut(s) 288
AoxI GGCC 5 cut(s) 36, 191, 202, 515, 538
ApeKI GCWGC 1 cut(s) 284
ApoI RAATTY 1 cut(s) 128
AspLEI GCGC 1 cut(s) 289
AspS9I GGNCC 1 cut(s) 202
AsuHPI GGTGA 1 cut(s) 458
AvaI CYCGRG 1 cut(s) 133
BaeGI GKGCMC 1 cut(s) 358
Bbv12I GWGCWC 2 cut(s) 140, 153
BbvI GCAGC 1 cut(s) 296
BccI CCATC 3 cut(s) 107, 544, 604
BclI TGATCA 1 cut(s) 483
BfaI CTAG 2 cut(s) 189, 359
BfoI RGCGCY 1 cut(s) 290
BfuAI ACCTGC 1 cut(s) 226
BglII AGATCT 1 cut(s) 300
BisI GCNGC 3 cut(s) 205, 208, 285
BlsI GCNGC 3 cut(s) 206, 209, 286
BmeT110I CYCGRG 1 cut(s) 133
BmgT120I GGNCC 1 cut(s) 202
BmsI GCATC 1 cut(s) 70
BpmI CTGGAG 1 cut(s) 248
BpuEI CTTGAG 1 cut(s) 355
BsaJI CCNNGG 1 cut(s) 535
Bsc4I CCNNNNNNNGG 1 cut(s) 200
Bse1I ACTGG 1 cut(s) 231
BseDI CCNNGG 1 cut(s) 535
BseGI GGATG 2 cut(s) 334, 555
BseLI CCNNNNNNNGG 1 cut(s) 200
BseMII CTCAG 1 cut(s) 281
BseNI ACTGG 1 cut(s) 231
BseRI GAGGAG 1 cut(s) 377
BseSI GKGCMC 1 cut(s) 358
BseXI GCAGC 1 cut(s) 296
BsgI GTGCAG 1 cut(s) 485
Bsh1236I CGCG 1 cut(s) 307
BshFI GGCC 5 cut(s) 38, 193, 204, 517, 540
BsiHKAI GWGCWC 2 cut(s) 140, 153
BsiHKCI CYCGRG 1 cut(s) 133
BslI CCNNNNNNNGG 1 cut(s) 200
BsnI GGCC 5 cut(s) 38, 193, 204, 517, 540
BsoBI CYCGRG 1 cut(s) 133
Bsp1286I GDGCHC 3 cut(s) 140, 153, 358
Bsp143I GATC 6 cut(s) 24, 93, 300, 483, 504, 603
Bsp19I CCATGG 1 cut(s) 535
BspACI CCGC 4 cut(s) 83, 205, 208, 307
BspANI GGCC 5 cut(s) 38, 193, 204, 517, 540
BspCNI CTCAG 1 cut(s) 282
BspFNI CGCG 1 cut(s) 307
BspHI TCATGA 2 cut(s) 124, 262
BspMI ACCTGC 1 cut(s) 226
BspPI GGATC 3 cut(s) 32, 512, 598
BspQI GCTCTTC 1 cut(s) 339
BsrI ACTGG 1 cut(s) 231
BssECI CCNNGG 1 cut(s) 535
BssMI GATC 6 cut(s) 24, 93, 300, 483, 504, 603
BssT1I CCWWGG 1 cut(s) 535
Bst6I CTCTTC 2 cut(s) 192, 339
BstC8I GCNNGC 2 cut(s) 36, 459
BstDEI CTNAG 1 cut(s) 290
BstDSI CCRYGG 1 cut(s) 535
BstF5I GGATG 2 cut(s) 334, 555
BstFNI CGCG 1 cut(s) 307
BstH2I RGCGCY 1 cut(s) 290
BstHHI GCGC 1 cut(s) 289
BstKTI GATC 6 cut(s) 27, 96, 303, 486, 507, 606
BstMBI GATC 6 cut(s) 24, 93, 300, 483, 504, 603
BstMWI GCNNNNNNNGC 4 cut(s) 89, 98, 190, 463
BstNSI RCATGY 1 cut(s) 284
BstSLI GKGCMC 1 cut(s) 358
BstUI CGCG 1 cut(s) 307
BstV1I GCAGC 1 cut(s) 296
BstX2I RGATCY 2 cut(s) 300, 603
BstYI RGATCY 2 cut(s) 300, 603
BsuRI GGCC 5 cut(s) 38, 193, 204, 517, 540
BtgI CCRYGG 1 cut(s) 535
BtgZI GCGATG 2 cut(s) 82, 126
BtsCI GGATG 2 cut(s) 334, 555
BtsIMutI CAGTG 1 cut(s) 9
BveI ACCTGC 1 cut(s) 226
Cac8I GCNNGC 2 cut(s) 36, 459
CciI TCATGA 2 cut(s) 124, 262
CfoI GCGC 1 cut(s) 289
Cfr13I GGNCC 1 cut(s) 202
CviAII CATG 6 cut(s) 125, 145, 243, 263, 281, 536
DdeI CTNAG 1 cut(s) 290
DpnI GATC 6 cut(s) 26, 95, 302, 485, 506, 605
DpnII GATC 6 cut(s) 24, 93, 300, 483, 504, 603
Eam1104I CTCTTC 2 cut(s) 192, 339
EarI CTCTTC 2 cut(s) 192, 339
Eco130I CCWWGG 1 cut(s) 535
Eco47III AGCGCT 1 cut(s) 288
Eco57I CTGAAG 1 cut(s) 290
Eco88I CYCGRG 1 cut(s) 133
EcoRI GAATTC 1 cut(s) 128
EcoT14I CCWWGG 1 cut(s) 535
ErhI CCWWGG 1 cut(s) 535
FaeI CATG 6 cut(s) 128, 148, 246, 266, 284, 539
FatI CATG 6 cut(s) 124, 144, 242, 262, 280, 535
FauNDI CATATG 1 cut(s) 520
FbaI TGATCA 1 cut(s) 483
Fnu4HI GCNGC 3 cut(s) 205, 208, 285
FokI GGATG 2 cut(s) 341, 562
Fsp4HI GCNGC 3 cut(s) 205, 208, 285
FspBI CTAG 2 cut(s) 189, 359
GlaI GCGC 1 cut(s) 288
GluI GCNGC 3 cut(s) 205, 208, 285
GsuI CTGGAG 1 cut(s) 248
HaeII RGCGCY 1 cut(s) 290
HaeIII GGCC 5 cut(s) 38, 193, 204, 517, 540
HhaI GCGC 1 cut(s) 289
Hin1II CATG 6 cut(s) 128, 148, 246, 266, 284, 539
Hin6I GCGC 1 cut(s) 287
HinP1I GCGC 1 cut(s) 287
HindIII AAGCTT 1 cut(s) 119
HphI GGTGA 1 cut(s) 458
Hpy166II GTNNAC 1 cut(s) 556
Hpy188I TCNGA 1 cut(s) 488
Hpy188III TCNNGA 7 cut(s) 28, 49, 125, 133, 162, 263, 530
Hpy8I GTNNAC 1 cut(s) 556
HpyAV CCTTC 4 cut(s) 46, 265, 400, 536
HpyCH4V TGCA 3 cut(s) 284, 430, 466
HpyF10VI GCNNNNNNNGC 4 cut(s) 89, 98, 190, 463
HpyF3I CTNAG 1 cut(s) 290
Hsp92II CATG 6 cut(s) 128, 148, 246, 266, 284, 539
HspAI GCGC 1 cut(s) 287
Ksp22I TGATCA 1 cut(s) 483
Kzo9I GATC 6 cut(s) 24, 93, 300, 483, 504, 603
LguI GCTCTTC 1 cut(s) 339
LmnI GCTCC 3 cut(s) 148, 181, 364
Lsp1109I GCAGC 1 cut(s) 296
LweI GCATC 1 cut(s) 70
MaeI CTAG 2 cut(s) 189, 359
MaeIII GTNAC 1 cut(s) 245
MalI GATC 6 cut(s) 26, 95, 302, 485, 506, 605
MboI GATC 6 cut(s) 24, 93, 300, 483, 504, 603
MboII GAAGA 3 cut(s) 209, 356, 415
MfeI CAATTG 1 cut(s) 62
MflI RGATCY 2 cut(s) 300, 603
MhlI GDGCHC 3 cut(s) 140, 153, 358
MluCI AATT 4 cut(s) 62, 128, 250, 566
MmeI TCCRAC 1 cut(s) 306
MnlI CCTC 9 cut(s) 24, 79, 169, 193, 355, 426, 482, 490, 495
MslI CAYNNNNRTG 1 cut(s) 143
MunI CAATTG 1 cut(s) 62
MvnI CGCG 1 cut(s) 307
MwoI GCNNNNNNNGC 4 cut(s) 89, 98, 190, 463
NcoI CCATGG 1 cut(s) 535
NdeI CATATG 1 cut(s) 520
NdeII GATC 6 cut(s) 24, 93, 300, 483, 504, 603
NlaIII CATG 6 cut(s) 128, 148, 246, 266, 284, 539
NmuCI GTSAC 1 cut(s) 245
NspI RCATGY 1 cut(s) 284
PaeR7I CTCGAG 1 cut(s) 133
PagI TCATGA 2 cut(s) 124, 262
PciSI GCTCTTC 1 cut(s) 339
PkrI GCNGC 3 cut(s) 206, 209, 286
PspPI GGNCC 1 cut(s) 202
PsuI RGATCY 2 cut(s) 300, 603
RseI CAYNNNNRTG 1 cut(s) 143
SapI GCTCTTC 1 cut(s) 339
SatI GCNGC 3 cut(s) 205, 208, 285
Sau3AI GATC 6 cut(s) 24, 93, 300, 483, 504, 603
Sau96I GGNCC 1 cut(s) 202
SduI GDGCHC 3 cut(s) 140, 153, 358
SetI ASST 9 cut(s) 90, 123, 180, 220, 351, 437, 463, 483, 577
SfaNI GCATC 1 cut(s) 70
Sfr274I CTCGAG 1 cut(s) 133
SlaI CTCGAG 1 cut(s) 133
SmiMI CAYNNNNRTG 1 cut(s) 143
SmlI CTYRAG 2 cut(s) 133, 334
SmoI CTYRAG 2 cut(s) 133, 334
Sse9I AATT 4 cut(s) 62, 128, 250, 566
SsiI CCGC 4 cut(s) 83, 205, 208, 307
SspMI CTAG 2 cut(s) 189, 359
StyI CCWWGG 1 cut(s) 535
TaqI TCGA 1 cut(s) 134
TasI AATT 4 cut(s) 62, 128, 250, 566
TauI GCSGC 2 cut(s) 207, 210
TscAI CASTG 1 cut(s) 16
TseFI GTSAC 1 cut(s) 245
TseI GCWGC 1 cut(s) 284
Tsp45I GTSAC 1 cut(s) 245
TspDTI ATGAA 5 cut(s) 113, 141, 251, 279, 465
TspRI CASTG 1 cut(s) 16
XapI RAATTY 1 cut(s) 128
XceI RCATGY 1 cut(s) 284
XhoI CTCGAG 1 cut(s) 133
XspI CTAG 2 cut(s) 189, 359
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.