Rroxscaffold_5G00376120
MADS Family

MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000389
Physical Location & Seq
Reverse (-)
56865111 .. 56874391
9281 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00376120.1

Sequence Viewer

Length: 687 bp
ATGATGAAGCCGACGAGCAAGAAGATAAAGATCGAGAAGATTGACAACTTGCCGGCGAGGCAGGTGACGTATTCGAAGAGGAGAAGAGGGCTTTTGAAGAAAGCTGGAGAGCTTTCAGTTCTATGTGATTGTGAGTTTTCTGTCATCATCTTTTCTGCTACTGGCAAGCTCTGTGAGTCCTCCAGCTCCAGTACGAAGGATGTCATTGCGAGGTATGAATCCCACATTGAAAATGTGGGAAAGTTGGACCGGCCATCTCTTGAGCACGAGCATGACTGCATCAGGTTGAGTAAGGAACTAGCGAACAAGAGCCGCAACCTAAGGCAGATGAATGGAGAGGATCTAGAACGGCTGAACATAGATGAGTTGCAGAGATTGGAGAAAGAGATTGAAGGATGTCTTAACCGTGTGAATCAAACTAAGGAAGAAAAGATTAGCAGTGAAGTTCTGGCACTTGAGGCAAAGGGAGCTGAGTTGATGGAAGCGAGTAACCAATTAAGGCAGGATATAGGGATGTTATCCAATGCAAGTGTCACCTTTGAGTCAGATATCTCGACTGCTGAAGAAGGTTGGTTATCGGAGACTGCCACAAATGCCAGCGGCTGCCTTTCTACTGATTCTTCCCTAGATGATCACTCTGGCACCGACACTTTATGTCTCAAACTTGGGCTTCCTTACGGTGGCTAA
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

228

Amino Acids

25.26

Weight (kDa)

5.31

Isoelectric Point (pI)

45.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 13 - 58 3.5e-19 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 91 - 170 1.4e-13 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)
AarI CACCTGC 1 cut(s) 52
Acc36I ACCTGC 1 cut(s) 52
AccB1I GGYRCC 1 cut(s) 641
AciI CCGC 2 cut(s) 313, 600
AclWI GGATC 1 cut(s) 348
AcoI YGGCCR 1 cut(s) 251
AcuI CTGAAG 1 cut(s) 582
AfaI GTAC 1 cut(s) 193
AfiI CCNNNNNNNGG 1 cut(s) 680
AgsI TTSAA 3 cut(s) 97, 230, 392
AluBI AGCT 5 cut(s) 104, 112, 169, 186, 470
AluI AGCT 5 cut(s) 104, 112, 169, 186, 470
Alw21I GWGCWC 1 cut(s) 267
Alw26I GTCTC 2 cut(s) 575, 662
AlwI GGATC 1 cut(s) 348
AlwNI CAGNNNCTG 1 cut(s) 603
AoxI GGCC 1 cut(s) 251
ApeKI GCWGC 1 cut(s) 603
AspS9I GGNCC 1 cut(s) 247
AsuHPI GGTGA 2 cut(s) 76, 526
AsuII TTCGAA 1 cut(s) 74
AvaII GGWCC 1 cut(s) 247
AxyI CCTNAGG 1 cut(s) 320
BanI GGYRCC 1 cut(s) 641
BauI CACGAG 1 cut(s) 266
Bbv12I GWGCWC 1 cut(s) 267
BbvI GCAGC 1 cut(s) 590
BccI CCATC 2 cut(s) 262, 472
BceAI ACGGC 1 cut(s) 365
BclI TGATCA 1 cut(s) 631
BcoDI GTCTC 2 cut(s) 575, 662
BfaI CTAG 3 cut(s) 299, 344, 626
BfuAI ACCTGC 1 cut(s) 52
BglI GCCNNNNNGGC 1 cut(s) 58
BisI GCNGC 3 cut(s) 313, 601, 604
BlsI GCNGC 3 cut(s) 314, 602, 605
Bme18I GGWCC 1 cut(s) 247
BmgT120I GGNCC 1 cut(s) 247
BmiI GGNNCC 1 cut(s) 643
BmsI GCATC 1 cut(s) 288
BpmI CTGGAG 3 cut(s) 126, 166, 172
Bpu14I TTCGAA 1 cut(s) 74
BpuEI CTTGAG 2 cut(s) 281, 476
BsaBI GATNNNNATC 1 cut(s) 29
Bsc4I CCNNNNNNNGG 1 cut(s) 680
Bse118I RCCGGY 2 cut(s) 52, 249
Bse1I ACTGG 2 cut(s) 166, 189
Bse21I CCTNAGG 1 cut(s) 320
Bse3DI GCAATG 1 cut(s) 204
Bse8I GATNNNNATC 1 cut(s) 29
BseGI GGATG 3 cut(s) 205, 401, 519
BseJI GATNNNNATC 1 cut(s) 29
BseLI CCNNNNNNNGG 1 cut(s) 680
BseMI GCAATG 1 cut(s) 204
BseMII CTCAG 1 cut(s) 462
BseNI ACTGG 2 cut(s) 166, 189
BseRI GAGGAG 1 cut(s) 94
BseXI GCAGC 1 cut(s) 590
BshFI GGCC 1 cut(s) 253
BshNI GGYRCC 1 cut(s) 641
BsiHKAI GWGCWC 1 cut(s) 267
BsiSI CCGG 2 cut(s) 53, 250
BslI CCNNNNNNNGG 1 cut(s) 680
BsmAI GTCTC 2 cut(s) 575, 662
BsnI GGCC 1 cut(s) 253
Bsp119I TTCGAA 1 cut(s) 74
Bsp1286I GDGCHC 1 cut(s) 267
Bsp143I GATC 3 cut(s) 30, 340, 631
BspACI CCGC 2 cut(s) 313, 600
BspANI GGCC 1 cut(s) 253
BspCNI CTCAG 1 cut(s) 463
BspLI GGNNCC 1 cut(s) 643
BspMI ACCTGC 1 cut(s) 52
BspPI GGATC 1 cut(s) 348
BspT104I TTCGAA 1 cut(s) 74
BspT107I GGYRCC 1 cut(s) 641
BsrDI GCAATG 1 cut(s) 204
BsrFI RCCGGY 2 cut(s) 52, 249
BsrI ACTGG 2 cut(s) 166, 189
BssAI RCCGGY 2 cut(s) 52, 249
BssMI GATC 3 cut(s) 30, 340, 631
BssSI CACGAG 1 cut(s) 266
Bst2BI CACGAG 1 cut(s) 266
Bst4CI ACNGT 2 cut(s) 407, 680
Bst6I CTCTTC 2 cut(s) 71, 79
BstBI TTCGAA 1 cut(s) 74
BstC8I GCNNGC 3 cut(s) 54, 167, 598
BstDEI CTNAG 3 cut(s) 320, 420, 471
BstF5I GGATG 3 cut(s) 205, 401, 519
BstKTI GATC 3 cut(s) 33, 343, 634
BstMAI GTCTC 2 cut(s) 575, 662
BstMBI GATC 3 cut(s) 30, 340, 631
BstMWI GCNNNNNNNGC 4 cut(s) 58, 458, 467, 593
BstV1I GCAGC 1 cut(s) 590
BstX2I RGATCY 1 cut(s) 340
BstYI RGATCY 1 cut(s) 340
Bsu36I CCTNAGG 1 cut(s) 320
BsuRI GGCC 1 cut(s) 253
BtsCI GGATG 3 cut(s) 205, 401, 519
BtsI GCAGTG 1 cut(s) 445
BtsIMutI CAGTG 1 cut(s) 445
BveI ACCTGC 1 cut(s) 52
Cac8I GCNNGC 3 cut(s) 54, 167, 598
CaiI CAGNNNCTG 1 cut(s) 603
Cfr10I RCCGGY 2 cut(s) 52, 249
Cfr13I GGNCC 1 cut(s) 247
Csp6I GTAC 1 cut(s) 192
CviAII CATG 1 cut(s) 272
CviQI GTAC 1 cut(s) 192
DdeI CTNAG 3 cut(s) 320, 420, 471
DpnI GATC 3 cut(s) 32, 342, 633
DpnII GATC 3 cut(s) 30, 340, 631
EaeI YGGCCR 1 cut(s) 251
Eam1104I CTCTTC 2 cut(s) 71, 79
EarI CTCTTC 2 cut(s) 71, 79
Eco32I GATATC 1 cut(s) 550
Eco47I GGWCC 1 cut(s) 247
Eco57I CTGAAG 1 cut(s) 582
Eco81I CCTNAGG 1 cut(s) 320
EcoRV GATATC 1 cut(s) 550
FaeI CATG 1 cut(s) 275
FaiI YATR 6 cut(s) 124, 216, 273, 359, 509, 655
FalI AAGNNNNNCTT 2 cut(s) 384, 416
FatI CATG 1 cut(s) 271
FbaI TGATCA 1 cut(s) 631
Fnu4HI GCNGC 3 cut(s) 313, 601, 604
FokI GGATG 3 cut(s) 212, 408, 526
Fsp4HI GCNGC 3 cut(s) 313, 601, 604
FspBI CTAG 3 cut(s) 299, 344, 626
GluI GCNGC 3 cut(s) 313, 601, 604
GsuI CTGGAG 3 cut(s) 126, 166, 172
HaeIII GGCC 1 cut(s) 253
HapII CCGG 2 cut(s) 53, 250
Hin1II CATG 1 cut(s) 275
HinfI GANTC 5 cut(s) 176, 218, 412, 542, 617
HpaII CCGG 2 cut(s) 53, 250
HphI GGTGA 2 cut(s) 76, 526
Hpy188I TCNGA 2 cut(s) 547, 580
Hpy188III TCNNGA 4 cut(s) 34, 260, 344, 553
Hpy99I CGWCG 1 cut(s) 16
HpyAV CCTTC 3 cut(s) 190, 386, 560
HpyCH4III ACNGT 2 cut(s) 407, 680
HpyCH4IV ACGT 1 cut(s) 68
HpyCH4V TGCA 3 cut(s) 279, 370, 527
HpyF10VI GCNNNNNNNGC 4 cut(s) 58, 458, 467, 593
HpyF3I CTNAG 3 cut(s) 320, 420, 471
HpySE526I ACGT 1 cut(s) 68
Hsp92II CATG 1 cut(s) 275
KroI GCCGGC 1 cut(s) 52
KroNI GCCGGC 1 cut(s) 54
Ksp22I TGATCA 1 cut(s) 631
Kzo9I GATC 3 cut(s) 30, 340, 631
LmnI GCTCC 2 cut(s) 191, 467
Lsp1109I GCAGC 1 cut(s) 590
LweI GCATC 1 cut(s) 288
MaeI CTAG 3 cut(s) 299, 344, 626
MaeII ACGT 1 cut(s) 68
MaeIII GTNAC 3 cut(s) 64, 488, 532
MalI GATC 3 cut(s) 32, 342, 633
MboI GATC 3 cut(s) 30, 340, 631
MboII GAAGA 8 cut(s) 34, 49, 88, 96, 109, 437, 575, 612
MflI RGATCY 1 cut(s) 340
MhlI GDGCHC 1 cut(s) 267
MluCI AATT 1 cut(s) 494
MlyI GAGTC 2 cut(s) 185, 551
MmeI TCCRAC 1 cut(s) 225
MnlI CCTC 7 cut(s) 51, 72, 80, 190, 204, 331, 451
MroNI GCCGGC 1 cut(s) 52
MseI TTAA 2 cut(s) 402, 497
MslI CAYNNNNRTG 1 cut(s) 270
MspA1I CMGCKG 1 cut(s) 600
MspI CCGG 2 cut(s) 53, 250
MwoI GCNNNNNNNGC 4 cut(s) 58, 458, 467, 593
NaeI GCCGGC 1 cut(s) 54
NdeII GATC 3 cut(s) 30, 340, 631
NgoMIV GCCGGC 1 cut(s) 52
NlaIII CATG 1 cut(s) 275
NlaIV GGNNCC 1 cut(s) 643
NmuCI GTSAC 2 cut(s) 64, 532
NspV TTCGAA 1 cut(s) 74
PaqCI CACCTGC 1 cut(s) 52
PdiI GCCGGC 1 cut(s) 54
PfeI GAWTC 3 cut(s) 218, 412, 617
PkrI GCNGC 3 cut(s) 314, 602, 605
PleI GAGTC 2 cut(s) 184, 550
PpsI GAGTC 2 cut(s) 184, 550
PspN4I GGNNCC 1 cut(s) 643
PspPI GGNCC 1 cut(s) 247
PstNI CAGNNNCTG 1 cut(s) 603
PsuI RGATCY 1 cut(s) 340
RsaI GTAC 1 cut(s) 193
RsaNI GTAC 1 cut(s) 192
RseI CAYNNNNRTG 1 cut(s) 270
SaqAI TTAA 2 cut(s) 402, 497
SatI GCNGC 3 cut(s) 313, 601, 604
Sau3AI GATC 3 cut(s) 30, 340, 631
Sau96I GGNCC 1 cut(s) 247
SchI GAGTC 2 cut(s) 185, 551
SduI GDGCHC 1 cut(s) 267
SfaNI GCATC 1 cut(s) 288
SfuI TTCGAA 1 cut(s) 74
SinI GGWCC 1 cut(s) 247
SmiMI CAYNNNNRTG 1 cut(s) 270
SmlI CTYRAG 2 cut(s) 260, 455
SmoI CTYRAG 2 cut(s) 260, 455
Sse9I AATT 1 cut(s) 494
SsiI CCGC 2 cut(s) 313, 600
SspMI CTAG 3 cut(s) 299, 344, 626
TaaI ACNGT 2 cut(s) 407, 680
TaiI ACGT 1 cut(s) 71
TaqI TCGA 3 cut(s) 33, 74, 554
TasI AATT 1 cut(s) 494
TauI GCSGC 2 cut(s) 315, 603
TfiI GAWTC 3 cut(s) 218, 412, 617
Tru1I TTAA 2 cut(s) 402, 497
Tru9I TTAA 2 cut(s) 402, 497
TscAI CASTG 1 cut(s) 445
TseFI GTSAC 2 cut(s) 64, 532
TseI GCWGC 1 cut(s) 603
Tsp45I GTSAC 2 cut(s) 64, 532
TspDTI ATGAA 3 cut(s) 20, 231, 344
TspRI CASTG 1 cut(s) 445
VpaK11BI GGWCC 1 cut(s) 247
XbaI TCTAGA 1 cut(s) 343
XspI CTAG 3 cut(s) 299, 344, 626
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.