RchiOBHm_Chr6g0269991
MADS Family

MADS-box transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0011645
Physical Location & Seq
Reverse (-)
27591965 .. 27594097
2133 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ24220

Sequence Viewer

Length: 435 bp
ATGTTCATCTTTCTGGAGGCGGCAAGCTTGAGACAACAATTGCAGTACTTGCAAGAATGCCACAGGCAATTGATGGGTGAAGAACTATCTGGTTTGAGCACCAAAGATCTACAGAACCTGGAAAGCAAACTGGAGATGAGTTTGAAAGGTGTCCGGTTGAAAAAGGGAAATCTCATACATCAAGAGAACATAGAACTGTATAAGAAGCTAGACGTCATAGGTAAAGAGAATGTGGAACTCCAAAGAAAGGCCTATGGAGCAAGGAATGTGAATGAAGAAAACGAAAGCTCCGAACCTTCGTTTACCATTACTAATGGATATCAATTGCATGCACCCATCCATCTGCAGCTAAGCCAGCCACAGAATCAAACTGAGCCTCAGCCTCAGAACAATATACCAGCAAATGCAATCAAACTAGGATTGCATCTGCACTAG
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
K-box SRF-TF

Protein Analysis

144

Amino Acids

16.47

Weight (kDa)

6.3

Isoelectric Point (pI)

63.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
K-box PF01486 6 - 83 2e-20 K-box region
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 216
AciI CCGC 1 cut(s) 20
AcyI GRCGYC 1 cut(s) 213
AfaI GTAC 1 cut(s) 47
AfiI CCNNNNNNNGG 1 cut(s) 247
AgsI TTSAA 2 cut(s) 145, 160
AjnI CCWGG 1 cut(s) 117
AluBI AGCT 4 cut(s) 27, 208, 288, 349
AluI AGCT 4 cut(s) 27, 208, 288, 349
Alw21I GWGCWC 1 cut(s) 101
Alw26I GTCTC 1 cut(s) 25
AlwNI CAGNNNCTG 1 cut(s) 118
AoxI GGCC 1 cut(s) 249
ApeKI GCWGC 1 cut(s) 346
AsuHPI GGTGA 1 cut(s) 89
Bbv12I GWGCWC 1 cut(s) 101
BbvCI CCTCAGC 1 cut(s) 378
BbvI GCAGC 1 cut(s) 358
BccI CCATC 3 cut(s) 67, 344, 348
BciT130I CCWGG 1 cut(s) 119
BcoDI GTCTC 1 cut(s) 25
BfaI CTAG 3 cut(s) 209, 416, 433
BfmI CTRYAG 2 cut(s) 110, 344
BglII AGATCT 1 cut(s) 106
BisI GCNGC 2 cut(s) 21, 347
BlpI GCTNAGC 1 cut(s) 350
BlsI GCNGC 2 cut(s) 22, 348
BmcAI AGTACT 1 cut(s) 47
Bme1390I CCNGG 1 cut(s) 119
BmrFI CCNGG 1 cut(s) 119
BpmI CTGGAG 2 cut(s) 35, 152
Bpu10I CCTNAGC 1 cut(s) 378
Bpu1102I GCTNAGC 1 cut(s) 350
BpuEI CTTGAG 1 cut(s) 49
BsaHI GRCGYC 1 cut(s) 213
BsaWI WCCGGW 1 cut(s) 153
BsaXI ACNNNNNCTCC 2 cut(s) 272, 302
Bsc4I CCNNNNNNNGG 1 cut(s) 247
Bse1I ACTGG 1 cut(s) 135
BseBI CCWGG 1 cut(s) 119
BseGI GGATG 1 cut(s) 336
BseLI CCNNNNNNNGG 1 cut(s) 247
BseMII CTCAG 3 cut(s) 363, 392, 398
BseNI ACTGG 1 cut(s) 135
BseXI GCAGC 1 cut(s) 358
BsgI GTGCAG 1 cut(s) 413
BshFI GGCC 1 cut(s) 251
BsiHKAI GWGCWC 1 cut(s) 101
BsiSI CCGG 1 cut(s) 154
BslI CCNNNNNNNGG 1 cut(s) 247
BsmAI GTCTC 1 cut(s) 25
BsmI GAATGC 1 cut(s) 62
BsnI GGCC 1 cut(s) 251
Bsp1286I GDGCHC 1 cut(s) 101
Bsp143I GATC 1 cut(s) 106
Bsp1720I GCTNAGC 1 cut(s) 350
BspACI CCGC 1 cut(s) 20
BspANI GGCC 1 cut(s) 251
BspCNI CTCAG 3 cut(s) 364, 391, 397
BspMAI CTGCAG 1 cut(s) 348
BsrI ACTGG 1 cut(s) 135
BssMI GATC 1 cut(s) 106
BssNI GRCGYC 1 cut(s) 213
Bst2UI CCWGG 1 cut(s) 119
Bst4CI ACNGT 1 cut(s) 198
BstACI GRCGYC 1 cut(s) 213
BstAPI GCANNNNNTGC 1 cut(s) 49
BstC8I GCNNGC 3 cut(s) 25, 330, 356
BstDEI CTNAG 4 cut(s) 350, 372, 378, 384
BstF5I GGATG 1 cut(s) 336
BstKTI GATC 1 cut(s) 109
BstMAI GTCTC 1 cut(s) 25
BstMBI GATC 1 cut(s) 106
BstMWI GCNNNNNNNGC 3 cut(s) 49, 257, 355
BstNI CCWGG 1 cut(s) 119
BstNSI RCATGY 1 cut(s) 332
BstSCI CCNGG 1 cut(s) 117
BstSFI CTRYAG 2 cut(s) 110, 344
BstV1I GCAGC 1 cut(s) 358
BstX2I RGATCY 1 cut(s) 106
BstYI RGATCY 1 cut(s) 106
BsuRI GGCC 1 cut(s) 251
BtsCI GGATG 1 cut(s) 336
Cac8I GCNNGC 3 cut(s) 25, 330, 356
CaiI CAGNNNCTG 1 cut(s) 118
Csp6I GTAC 1 cut(s) 46
CviAII CATG 1 cut(s) 329
CviJI RGCY 9 cut(s) 27, 208, 251, 288, 349, 354, 358, 376, 382
CviKI_1 RGCY 9 cut(s) 27, 208, 251, 288, 349, 354, 358, 376, 382
CviQI GTAC 1 cut(s) 46
DdeI CTNAG 4 cut(s) 350, 372, 378, 384
DpnI GATC 1 cut(s) 108
DpnII GATC 1 cut(s) 106
Eco147I AGGCCT 1 cut(s) 251
Eco32I GATATC 1 cut(s) 320
EcoRII CCWGG 1 cut(s) 117
EcoRV GATATC 1 cut(s) 320
FaeI CATG 1 cut(s) 332
FaiI YATR 7 cut(s) 176, 191, 201, 218, 255, 330, 395
FatI CATG 1 cut(s) 328
Fnu4HI GCNGC 2 cut(s) 21, 347
FokI GGATG 1 cut(s) 323
Fsp4HI GCNGC 2 cut(s) 21, 347
FspBI CTAG 3 cut(s) 209, 416, 433
GluI GCNGC 2 cut(s) 21, 347
GsuI CTGGAG 2 cut(s) 35, 152
HaeIII GGCC 1 cut(s) 251
HapII CCGG 1 cut(s) 154
Hin1I GRCGYC 1 cut(s) 213
Hin1II CATG 1 cut(s) 332
HindIII AAGCTT 1 cut(s) 25
HinfI GANTC 1 cut(s) 364
HpaII CCGG 1 cut(s) 154
HphI GGTGA 1 cut(s) 89
Hpy166II GTNNAC 1 cut(s) 303
Hpy188I TCNGA 2 cut(s) 292, 387
Hpy188III TCNNGA 2 cut(s) 14, 182
Hpy8I GTNNAC 1 cut(s) 303
HpyAV CCTTC 1 cut(s) 306
HpyCH4III ACNGT 1 cut(s) 198
HpyCH4IV ACGT 1 cut(s) 213
HpyCH4V TGCA 8 cut(s) 43, 52, 328, 332, 346, 407, 424, 430
HpyF10VI GCNNNNNNNGC 3 cut(s) 49, 257, 355
HpyF3I CTNAG 4 cut(s) 350, 372, 378, 384
HpySE526I ACGT 1 cut(s) 213
Hsp92I GRCGYC 1 cut(s) 213
Hsp92II CATG 1 cut(s) 332
Kzo9I GATC 1 cut(s) 106
LmnI GCTCC 2 cut(s) 257, 293
LpnPI CCDG 8 cut(s) 49, 75, 104, 116, 131, 167, 368, 411
Lsp1109I GCAGC 1 cut(s) 358
MaeI CTAG 3 cut(s) 209, 416, 433
MaeII ACGT 1 cut(s) 213
MalI GATC 1 cut(s) 108
MboI GATC 1 cut(s) 106
MboII GAAGA 2 cut(s) 92, 287
MfeI CAATTG 3 cut(s) 38, 68, 323
MflI RGATCY 1 cut(s) 106
MhlI GDGCHC 1 cut(s) 101
MluCI AATT 3 cut(s) 38, 68, 323
MnlI CCTC 3 cut(s) 10, 387, 393
MspI CCGG 1 cut(s) 154
MspR9I CCNGG 1 cut(s) 119
MunI CAATTG 3 cut(s) 38, 68, 323
Mva1269I GAATGC 1 cut(s) 62
MvaI CCWGG 1 cut(s) 119
MwoI GCNNNNNNNGC 3 cut(s) 49, 257, 355
NdeII GATC 1 cut(s) 106
NlaIII CATG 1 cut(s) 332
NspI RCATGY 1 cut(s) 332
PaeI GCATGC 1 cut(s) 332
PceI AGGCCT 1 cut(s) 251
PcsI WCGNNNNNNNCGW 1 cut(s) 288
PctI GAATGC 1 cut(s) 62
PfeI GAWTC 1 cut(s) 364
PkrI GCNGC 2 cut(s) 22, 348
Psp6I CCWGG 1 cut(s) 117
PspGI CCWGG 1 cut(s) 117
PstI CTGCAG 1 cut(s) 348
PstNI CAGNNNCTG 1 cut(s) 118
PsuI RGATCY 1 cut(s) 106
RsaI GTAC 1 cut(s) 47
RsaNI GTAC 1 cut(s) 46
SatI GCNGC 2 cut(s) 21, 347
Sau3AI GATC 1 cut(s) 106
ScaI AGTACT 1 cut(s) 47
ScrFI CCNGG 1 cut(s) 119
SduI GDGCHC 1 cut(s) 101
SetI ASST 9 cut(s) 29, 120, 151, 210, 216, 223, 290, 298, 351
SfcI CTRYAG 2 cut(s) 110, 344
SmlI CTYRAG 1 cut(s) 28
SmoI CTYRAG 1 cut(s) 28
SphI GCATGC 1 cut(s) 332
Sse9I AATT 3 cut(s) 38, 68, 323
SseBI AGGCCT 1 cut(s) 251
SsiI CCGC 1 cut(s) 20
SspMI CTAG 3 cut(s) 209, 416, 433
StuI AGGCCT 1 cut(s) 251
StyD4I CCNGG 1 cut(s) 117
TaaI ACNGT 1 cut(s) 198
TaiI ACGT 1 cut(s) 216
TasI AATT 3 cut(s) 38, 68, 323
TatI WGTACW 1 cut(s) 45
TauI GCSGC 1 cut(s) 23
TfiI GAWTC 1 cut(s) 364
TseI GCWGC 1 cut(s) 346
TspDTI ATGAA 1 cut(s) 288
XceI RCATGY 1 cut(s) 332
XspI CTAG 3 cut(s) 209, 416, 433
ZraI GACGTC 1 cut(s) 214
ZrmI AGTACT 1 cut(s) 47
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.