Rh4DG338500
MADS Family

MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000389
Physical Location & Seq
Reverse (-)
56110403 .. 56111689
1287 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG338500.1

Sequence Viewer

Length: 441 bp
ATGTGGGAAAGTTGGACCGGCCATCTCTTGAGCTCGAGGTTGAGTAAGGAACTTGCGAACAAGAGCCGCAACCTAAGGCAGATGAATGGAGAGGATCTAGAAGAGCTGAACATAGATGAGTTGCAGAGATTGGAGAAAGAGATTGAAGGATGTCTTAACCGTGTGAATCAAACTAAGGAAGAAAAGATTAGCAGTGAAGTTCTGGCACTTGAGGCAAAGGGAGCTGAGTTGATGGAAGCGAGTAACCAATTAAGGCAGGATATAGGGATGTTATCCAATGGAAGTGTCACCTTTGAGTCGGATATCTCGACTGCTGAAGAAGGTTGGTTATCGGAGTCTGCCACAAATGCCAGCAGCTGCCTTTCTACTGATTCTTCCCTAGATGATCACTCTGGCACCGACACTTTATCTCTCAAACTTGGGCTTCCTTACGGTGGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000060 GO:0000900 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0006417 GO:0006606 GO:0006810 GO:0006886 GO:0006913 GO:0007275 GO:0008104 GO:0008150 GO:0009266 GO:0009628 GO:0009719 GO:0009725 GO:0009739 GO:0009791 GO:0009888 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009908 GO:0009909 GO:0009910 GO:0010033 GO:0010073 GO:0010074 GO:0010077 GO:0010219 GO:0010220 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0015031 GO:0015833 GO:0017038 GO:0017148 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0030371 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0033036 GO:0033365 GO:0033993 GO:0034248 GO:0034249 GO:0034504 GO:0034613 GO:0040034 GO:0042221 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045182 GO:0045184 GO:0045892 GO:0045893 GO:0045934 GO:0045935 GO:0046907 GO:0046982 GO:0046983 GO:0048367 GO:0048438 GO:0048506 GO:0048507 GO:0048509 GO:0048510 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048580 GO:0048581 GO:0048583 GO:0048584 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051169 GO:0051170 GO:0051171 GO:0051172 GO:0051173 GO:0051179 GO:0051234 GO:0051239 GO:0051241 GO:0051246 GO:0051248 GO:0051252 GO:0051253 GO:0051254 GO:0051641 GO:0051649 GO:0060255 GO:0061458 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0072594 GO:0080090 GO:0080134 GO:0090079 GO:0090567 GO:0097159 GO:0098727 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1902680 GO:1903506 GO:1903507 GO:1903508 GO:2000026 GO:2000112 GO:2000113 GO:2000241 GO:2000242 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko04013 ko04022 ko04371 ko05418 map04013 map04022 map04371 map05418
Pfam Domains
Protein Families
K-box SRF-TF

Protein Analysis

146

Amino Acids

16.05

Weight (kDa)

4.44

Isoelectric Point (pI)

50.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
K-box PF01486 12 - 88 5e-14 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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Publication-ready
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Orthologous Genes (Group: OG0000389)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g03630 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27110 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_4g27440 FvH4_5g35400 FvH4_5g35400 FvH4_5g35400 FvH4_5g35400 FvH4_5g35401 FvH4_5g35401
malus_domestica MD08G1196900.v1.1 MD08G1197000.v1.1 MD08G1197200.v1.1 MD08G1197300.v1.1 MD15G1384500.v1.1 MD15G1384600.v1.1
prunus_persica Prupe.1G531100_v2.0.a1 Prupe.1G531100_v2.0.a1 Prupe.1G531400_v2.0.a1 Prupe.1G531600_v2.0.a1 Prupe.1G531700_v2.0.a1
pyrus_communis pycom08g16910 pycom08g16940 pycom08g16960 pycom15g34480 pycom15g34490
rosa_chinensis RchiOBHm_Chr4g0434911 RchiOBHm_Chr7g0205051 RchiOBHm_Chr7g0205061 RchiOBHm_Chr7g0205071 RchiOBHm_Chr7g0236801 RchiOBHm_Chr7g0236811
rosa_laevigata RLG00000001060 RLG00000003404 RLG00000003405 RLG00000006636
rosa_multiflora Rmu_sc0008447.1_g000001 Rmu_sc0008851.1_g000011 Rmu_sc0008851.1_g000015
rosa_roxburghii Rroxscaffold_3G00224810 Rroxscaffold_3G00224820 Rroxscaffold_3G00252600 Rroxscaffold_5G00376120
rosa_rugosa Rorug04G0280500 Rorug04G0280600 Rorug04G0280700 Rorug04G0280800 Rorug04G0280900 Rorug04G0281000 Rorug04G0281100 Rorug07G0087100 Rorug07G0087200 Rorug07G0087200 Rorug07G0087300 Rorug07G0299300 Rorug07G0299400 Rorug07G0299500
rosa_samantha Rh4AG336000 Rh4BG344500 Rh4CG358900 Rh4DG338500 Rh7AG218200 Rh7AG218300 Rh7AG454500 Rh7AG454700 Rh7BG214900 Rh7BG224100 Rh7BG425700 Rh7BG425800 Rh7BG425900 Rh7CG231500 Rh7CG473200 Rh7CG473300 Rh7DG225600 Rh7DG225800 Rh7DG442500 Rh7DG442600
rosa_wichuraiana Rw4G029320 Rw7G018890 Rw7G018930 Rw7G037730 Rw7G037740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 395
AciI CCGC 1 cut(s) 67
AclWI GGATC 1 cut(s) 102
AcoI YGGCCR 1 cut(s) 19
AcuI CTGAAG 1 cut(s) 336
AfiI CCNNNNNNNGG 1 cut(s) 434
AgsI TTSAA 1 cut(s) 146
AluBI AGCT 4 cut(s) 33, 106, 224, 357
AluI AGCT 4 cut(s) 33, 106, 224, 357
Alw21I GWGCWC 1 cut(s) 35
AlwI GGATC 1 cut(s) 102
AlwNI CAGNNNCTG 1 cut(s) 357
Ama87I CYCGRG 1 cut(s) 34
AoxI GGCC 1 cut(s) 19
ApeKI GCWGC 2 cut(s) 354, 357
AspS9I GGNCC 1 cut(s) 15
AsuHPI GGTGA 1 cut(s) 280
AvaI CYCGRG 1 cut(s) 34
AvaII GGWCC 1 cut(s) 15
AxyI CCTNAGG 1 cut(s) 74
BanI GGYRCC 1 cut(s) 395
BanII GRGCYC 1 cut(s) 35
Bbv12I GWGCWC 1 cut(s) 35
BbvI GCAGC 2 cut(s) 344, 366
BccI CCATC 2 cut(s) 30, 226
BclI TGATCA 1 cut(s) 385
BfaI CTAG 2 cut(s) 98, 380
BisI GCNGC 3 cut(s) 67, 355, 358
BlsI GCNGC 3 cut(s) 68, 356, 359
Bme18I GGWCC 1 cut(s) 15
BmeT110I CYCGRG 1 cut(s) 34
BmgT120I GGNCC 1 cut(s) 15
BmiI GGNNCC 1 cut(s) 397
BpuEI CTTGAG 2 cut(s) 49, 230
Bsc4I CCNNNNNNNGG 1 cut(s) 434
Bse118I RCCGGY 1 cut(s) 17
Bse21I CCTNAGG 1 cut(s) 74
BseGI GGATG 2 cut(s) 155, 273
BseLI CCNNNNNNNGG 1 cut(s) 434
BseMII CTCAG 1 cut(s) 216
BseXI GCAGC 2 cut(s) 344, 366
BshFI GGCC 1 cut(s) 21
BshNI GGYRCC 1 cut(s) 395
BsiHKAI GWGCWC 1 cut(s) 35
BsiHKCI CYCGRG 1 cut(s) 34
BsiSI CCGG 1 cut(s) 18
BslI CCNNNNNNNGG 1 cut(s) 434
BsnI GGCC 1 cut(s) 21
BsoBI CYCGRG 1 cut(s) 34
Bsp1286I GDGCHC 1 cut(s) 35
Bsp143I GATC 2 cut(s) 94, 385
BspACI CCGC 1 cut(s) 67
BspANI GGCC 1 cut(s) 21
BspCNI CTCAG 1 cut(s) 217
BspLI GGNNCC 1 cut(s) 397
BspPI GGATC 1 cut(s) 102
BspQI GCTCTTC 1 cut(s) 96
BspT107I GGYRCC 1 cut(s) 395
BsrFI RCCGGY 1 cut(s) 17
BssAI RCCGGY 1 cut(s) 17
BssMI GATC 2 cut(s) 94, 385
Bst4CI ACNGT 2 cut(s) 161, 434
Bst6I CTCTTC 1 cut(s) 96
BstC8I GCNNGC 1 cut(s) 352
BstDEI CTNAG 3 cut(s) 74, 174, 225
BstF5I GGATG 2 cut(s) 155, 273
BstKTI GATC 2 cut(s) 97, 388
BstMBI GATC 2 cut(s) 94, 385
BstMWI GCNNNNNNNGC 3 cut(s) 212, 221, 347
BstV1I GCAGC 2 cut(s) 344, 366
BstX2I RGATCY 1 cut(s) 94
BstYI RGATCY 1 cut(s) 94
Bsu36I CCTNAGG 1 cut(s) 74
BsuRI GGCC 1 cut(s) 21
BtsCI GGATG 2 cut(s) 155, 273
BtsI GCAGTG 1 cut(s) 199
BtsIMutI CAGTG 1 cut(s) 199
Cac8I GCNNGC 1 cut(s) 352
CaiI CAGNNNCTG 1 cut(s) 357
Cfr10I RCCGGY 1 cut(s) 17
Cfr13I GGNCC 1 cut(s) 15
CviJI RGCY 8 cut(s) 21, 33, 66, 106, 224, 357, 424, 438
CviKI_1 RGCY 8 cut(s) 21, 33, 66, 106, 224, 357, 424, 438
DdeI CTNAG 3 cut(s) 74, 174, 225
DpnI GATC 2 cut(s) 96, 387
DpnII GATC 2 cut(s) 94, 385
EaeI YGGCCR 1 cut(s) 19
Eam1104I CTCTTC 1 cut(s) 96
EarI CTCTTC 1 cut(s) 96
Ecl136II GAGCTC 1 cut(s) 33
Eco24I GRGCYC 1 cut(s) 35
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 1 cut(s) 15
Eco53kI GAGCTC 1 cut(s) 33
Eco57I CTGAAG 1 cut(s) 336
Eco81I CCTNAGG 1 cut(s) 74
Eco88I CYCGRG 1 cut(s) 34
EcoICRI GAGCTC 1 cut(s) 33
EcoRV GATATC 1 cut(s) 304
EcoT38I GRGCYC 1 cut(s) 35
FaiI YATR 2 cut(s) 113, 263
FalI AAGNNNNNCTT 2 cut(s) 138, 170
FbaI TGATCA 1 cut(s) 385
Fnu4HI GCNGC 3 cut(s) 67, 355, 358
FokI GGATG 2 cut(s) 162, 280
FriOI GRGCYC 1 cut(s) 35
Fsp4HI GCNGC 3 cut(s) 67, 355, 358
FspBI CTAG 2 cut(s) 98, 380
GluI GCNGC 3 cut(s) 67, 355, 358
HaeIII GGCC 1 cut(s) 21
HapII CCGG 1 cut(s) 18
HinfI GANTC 4 cut(s) 166, 296, 335, 371
HpaII CCGG 1 cut(s) 18
HphI GGTGA 1 cut(s) 280
Hpy188I TCNGA 2 cut(s) 301, 334
Hpy188III TCNNGA 3 cut(s) 28, 98, 307
HpyAV CCTTC 2 cut(s) 140, 314
HpyCH4III ACNGT 2 cut(s) 161, 434
HpyCH4V TGCA 1 cut(s) 124
HpyF10VI GCNNNNNNNGC 3 cut(s) 212, 221, 347
HpyF3I CTNAG 3 cut(s) 74, 174, 225
Ksp22I TGATCA 1 cut(s) 385
Kzo9I GATC 2 cut(s) 94, 385
LguI GCTCTTC 1 cut(s) 96
LmnI GCTCC 1 cut(s) 221
LpnPI CCDG 5 cut(s) 31, 188, 242, 364, 378
Lsp1109I GCAGC 2 cut(s) 344, 366
MaeI CTAG 2 cut(s) 98, 380
MaeIII GTNAC 2 cut(s) 242, 286
MalI GATC 2 cut(s) 96, 387
MboI GATC 2 cut(s) 94, 385
MboII GAAGA 4 cut(s) 113, 191, 329, 366
MflI RGATCY 1 cut(s) 94
MhlI GDGCHC 1 cut(s) 35
MluCI AATT 1 cut(s) 248
MlyI GAGTC 2 cut(s) 305, 344
MmeI TCCRAC 1 cut(s) 279
MnlI CCTC 3 cut(s) 30, 85, 205
MseI TTAA 2 cut(s) 156, 251
MspA1I CMGCKG 1 cut(s) 357
MspI CCGG 1 cut(s) 18
MwoI GCNNNNNNNGC 3 cut(s) 212, 221, 347
NdeII GATC 2 cut(s) 94, 385
NlaIV GGNNCC 1 cut(s) 397
NmuCI GTSAC 1 cut(s) 286
PaeR7I CTCGAG 1 cut(s) 34
PciSI GCTCTTC 1 cut(s) 96
PcsI WCGNNNNNNNCGW 1 cut(s) 305
PfeI GAWTC 2 cut(s) 166, 371
PkrI GCNGC 3 cut(s) 68, 356, 359
PleI GAGTC 2 cut(s) 304, 343
PpsI GAGTC 2 cut(s) 304, 343
Psp124BI GAGCTC 1 cut(s) 35
PspN4I GGNNCC 1 cut(s) 397
PspPI GGNCC 1 cut(s) 15
PspXI VCTCGAGB 1 cut(s) 34
PstNI CAGNNNCTG 1 cut(s) 357
PsuI RGATCY 1 cut(s) 94
PvuII CAGCTG 1 cut(s) 357
SacI GAGCTC 1 cut(s) 35
SapI GCTCTTC 1 cut(s) 96
SaqAI TTAA 2 cut(s) 156, 251
SatI GCNGC 3 cut(s) 67, 355, 358
Sau3AI GATC 2 cut(s) 94, 385
Sau96I GGNCC 1 cut(s) 15
SchI GAGTC 2 cut(s) 305, 344
SduI GDGCHC 1 cut(s) 35
SetI ASST 8 cut(s) 35, 41, 75, 108, 226, 293, 325, 359
Sfr274I CTCGAG 1 cut(s) 34
SinI GGWCC 1 cut(s) 15
SlaI CTCGAG 1 cut(s) 34
SmlI CTYRAG 3 cut(s) 28, 34, 209
SmoI CTYRAG 3 cut(s) 28, 34, 209
Sse9I AATT 1 cut(s) 248
SsiI CCGC 1 cut(s) 67
SspMI CTAG 2 cut(s) 98, 380
SstI GAGCTC 1 cut(s) 35
TaaI ACNGT 2 cut(s) 161, 434
TaqI TCGA 2 cut(s) 35, 308
TasI AATT 1 cut(s) 248
TauI GCSGC 1 cut(s) 69
TfiI GAWTC 2 cut(s) 166, 371
Tru1I TTAA 2 cut(s) 156, 251
Tru9I TTAA 2 cut(s) 156, 251
TscAI CASTG 1 cut(s) 199
TseFI GTSAC 1 cut(s) 286
TseI GCWGC 2 cut(s) 354, 357
Tsp45I GTSAC 1 cut(s) 286
TspDTI ATGAA 1 cut(s) 98
TspRI CASTG 1 cut(s) 199
VpaK11BI GGWCC 1 cut(s) 15
XbaI TCTAGA 1 cut(s) 97
XhoI CTCGAG 1 cut(s) 34
XspI CTAG 2 cut(s) 98, 380
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.