Rorug01G0220300
MADS Family

MADS-box transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0009106
Physical Location & Seq
Reverse (-)
31528125 .. 31541191
13067 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0220300.1

Sequence Viewer

Length: 1182 bp
ATGCCTTCTGGAGAGATCTCAAAGAAAGGTGCAAAGAGAGCCAAAATACAAGATAAAGTTGCACATGCAGTTGATGTTTCAGCTAGGCAACAAAGGCATAATCCCATGAGAAATTCTGAAGCAAATTTGAGTTCTCCGTCTCATTTGCCAGCTGATGCAGAACCTATTTCAGCTGAAGGTGAAGCTACAGAAAAGCCAAAAATACCACCTAGAGGTAAAGCAAAATTGTTGGACATTAGCAAGAAAAAGAGAAAACGTCCTATCCTAGTTGAATTCAATGAAAGAGGCCAGCCAATTGGGAAAACTGCAGCTCTATTCTCCTCATTTATTGGATGCACAGCAAGAGAGCTAATACCAATGACTGCACCGACCTGGAAAAATCTTTCAGATTTGTTCAAAACTCAGATTTGGGAACACATAACAACAAGTTTCATTGTTGACGAATGCCATAAGAAACAAGTTATTCGAAGGATGATCAGGCTTTGGCGAGATAATAGATCCAATGTGATGAAAGAAGTGGAGAAGCAAGCCGAACTTGTAGGCCTACAACGTGCTGCTACCCTTCTCAAACCTGATAATGTAGAATCTATGAATCAGTGGCTAGATCTTGTCAAAAACAGAACTAGTCCATCATTTAAGGAAATGTCTAAAAAATTCCAAGCAATGCGCGCAGAAAGAACCTTACTCCACAGAACTAGTAGAAAAAGCTTTGCTCGTGTTGAAGAAGAATTAAGGGAACAAAGTGAAATCCCAGATGCAATAACAAGGTCTGATGTTTGGATTCATGCTTACGAAGCAAAGAAGAAGAAGGATTCAGATGTAGTGGAGGATCCAGAAATAGTGAAACAAGTGAAAATGTACAGGGCTGAGCAAGAACCTTCAGAGAAATGTCCTTTGAAGGATGATGCTGTTGCAAAAGTACTCGGTCCTGATCCACGAGGACGAGTAAGAGGTTTGGGATTTGGAGCAGTCCCTTCAAAGGCAGATTATCAAACCAGTGTTGGAAACAAAGTTGCTAAGTTAGAGAATGCTTTATTTGCTCAATCACAAGATATGCTTGCTCAATCACAAGAGATCGAACGATTGAAAGAGGTGGTTGGAACTATTTTGTCACGAACAGAGAAAGAGGGGAATAACCATGGACTTCCACTTTTTGAGGTTTCTATTAACATGCCCTACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009553 GO:0009555 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0009909 GO:0009911 GO:0010016 GO:0010022 GO:0010073 GO:0010093 GO:0010094 GO:0010154 GO:0010228 GO:0010468 GO:0010556 GO:0010557 GO:0010582 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0035670 GO:0040007 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046983 GO:0048229 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048439 GO:0048440 GO:0048443 GO:0048444 GO:0048445 GO:0048448 GO:0048449 GO:0048455 GO:0048457 GO:0048459 GO:0048461 GO:0048462 GO:0048466 GO:0048467 GO:0048481 GO:0048507 GO:0048509 GO:0048518 GO:0048522 GO:0048532 GO:0048580 GO:0048582 GO:0048589 GO:0048608 GO:0048646 GO:0048731 GO:0048827 GO:0048831 GO:0048832 GO:0048833 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051094 GO:0051171 GO:0051173 GO:0051239 GO:0051240 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0080060 GO:0080090 GO:0080112 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0090701 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:1905393 GO:2000026 GO:2000112 GO:2000241 GO:2000243 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
K-box SRF-TF

Protein Analysis

393

Amino Acids

44.46

Weight (kDa)

9.55

Isoelectric Point (pI)

48.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 198 - 322 7.1e-18 Plant transposase (Ptta/En/Spm family)
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 669
AclWI GGATC 4 cut(s) 492, 824, 837, 926
AcsI RAATTY 4 cut(s) 112, 124, 272, 653
AcuI CTGAAG 3 cut(s) 138, 195, 864
AfaI GTAC 2 cut(s) 860, 921
AfiI CCNNNNNNNGG 2 cut(s) 212, 979
AgsI TTSAA 7 cut(s) 272, 277, 397, 722, 898, 978, 1087
AhlI ACTAGT 2 cut(s) 623, 695
AjnI CCWGG 1 cut(s) 371
AluBI AGCT 7 cut(s) 83, 152, 173, 185, 311, 349, 708
AluI AGCT 7 cut(s) 83, 152, 173, 185, 311, 349, 708
Alw26I GTCTC 1 cut(s) 144
AlwI GGATC 4 cut(s) 492, 824, 837, 926
AoxI GGCC 2 cut(s) 286, 541
ApeKI GCWGC 2 cut(s) 308, 554
ApoI RAATTY 4 cut(s) 112, 124, 272, 653
AspLEI GCGC 2 cut(s) 669, 671
AspS9I GGNCC 1 cut(s) 926
AsuHPI GGTGA 1 cut(s) 191
AsuII TTCGAA 1 cut(s) 466
AvaII GGWCC 1 cut(s) 926
BamHI GGATCC 1 cut(s) 829
BauI CACGAG 2 cut(s) 714, 936
BbvI GCAGC 2 cut(s) 320, 541
BccI CCATC 1 cut(s) 637
BciT130I CCWGG 1 cut(s) 373
BclI TGATCA 1 cut(s) 474
BcoDI GTCTC 1 cut(s) 144
BcuI ACTAGT 2 cut(s) 623, 695
BfaI CTAG 6 cut(s) 84, 210, 266, 602, 624, 696
BfmI CTRYAG 2 cut(s) 186, 306
BglII AGATCT 2 cut(s) 15, 604
BisI GCNGC 2 cut(s) 309, 555
BlpI GCTNAGC 1 cut(s) 867
BlsI GCNGC 2 cut(s) 310, 556
BmcAI AGTACT 1 cut(s) 921
Bme1390I CCNGG 1 cut(s) 373
Bme18I GGWCC 1 cut(s) 926
BmgT120I GGNCC 1 cut(s) 926
BmiI GGNNCC 1 cut(s) 831
BmrFI CCNGG 1 cut(s) 373
BmsI GCATC 4 cut(s) 145, 323, 745, 895
BpmI CTGGAG 1 cut(s) 30
Bpu1102I GCTNAGC 1 cut(s) 867
Bpu14I TTCGAA 1 cut(s) 466
BsaJI CCNNGG 1 cut(s) 1138
Bsc4I CCNNNNNNNGG 2 cut(s) 212, 979
Bse1I ACTGG 1 cut(s) 996
Bse3DI GCAATG 1 cut(s) 669
BseBI CCWGG 1 cut(s) 373
BseDI CCNNGG 1 cut(s) 1138
BseGI GGATG 3 cut(s) 338, 477, 907
BseLI CCNNNNNNNGG 2 cut(s) 212, 979
BseMI GCAATG 1 cut(s) 669
BseMII CTCAG 2 cut(s) 416, 858
BseNI ACTGG 1 cut(s) 996
BsePI GCGCGC 1 cut(s) 667
BseRI GAGGAG 1 cut(s) 310
BseXI GCAGC 2 cut(s) 320, 541
BsgI GTGCAG 1 cut(s) 348
Bsh1236I CGCG 1 cut(s) 669
BshFI GGCC 2 cut(s) 288, 543
BslFI GGGAC 1 cut(s) 956
BslI CCNNNNNNNGG 2 cut(s) 212, 979
BsmAI GTCTC 1 cut(s) 144
BsmBI CGTCTC 1 cut(s) 144
BsmFI GGGAC 1 cut(s) 956
BsmI GAATGC 2 cut(s) 449, 1033
BsnI GGCC 2 cut(s) 288, 543
Bsp119I TTCGAA 1 cut(s) 466
Bsp1407I TGTACA 1 cut(s) 858
Bsp143I GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
Bsp1720I GCTNAGC 1 cut(s) 867
Bsp19I CCATGG 1 cut(s) 1138
BspANI GGCC 2 cut(s) 288, 543
BspCNI CTCAG 2 cut(s) 415, 859
BspFNI CGCG 1 cut(s) 669
BspLI GGNNCC 1 cut(s) 831
BspMAI CTGCAG 1 cut(s) 310
BspPI GGATC 4 cut(s) 492, 824, 837, 926
BspT104I TTCGAA 1 cut(s) 466
BsrDI GCAATG 1 cut(s) 669
BsrGI TGTACA 1 cut(s) 858
BsrI ACTGG 1 cut(s) 996
BssECI CCNNGG 1 cut(s) 1138
BssHII GCGCGC 1 cut(s) 667
BssMI GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
BssSI CACGAG 2 cut(s) 714, 936
BssT1I CCWWGG 1 cut(s) 1138
Bst2BI CACGAG 2 cut(s) 714, 936
Bst2UI CCWGG 1 cut(s) 373
BstAUI TGTACA 1 cut(s) 858
BstBI TTCGAA 1 cut(s) 466
BstC8I GCNNGC 5 cut(s) 150, 290, 528, 669, 1059
BstDEI CTNAG 3 cut(s) 402, 867, 1017
BstDSI CCRYGG 1 cut(s) 1138
BstF5I GGATG 3 cut(s) 338, 477, 907
BstFNI CGCG 1 cut(s) 669
BstHHI GCGC 2 cut(s) 669, 671
BstKTI GATC 7 cut(s) 18, 477, 500, 607, 832, 934, 1077
BstMAI GTCTC 1 cut(s) 144
BstMBI GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
BstMWI GCNNNNNNNGC 5 cut(s) 38, 94, 668, 794, 1037
BstNI CCWGG 1 cut(s) 373
BstNSI RCATGY 2 cut(s) 68, 1174
BstSCI CCNGG 1 cut(s) 371
BstSFI CTRYAG 2 cut(s) 186, 306
BstUI CGCG 1 cut(s) 669
BstV1I GCAGC 2 cut(s) 320, 541
BstX2I RGATCY 4 cut(s) 15, 497, 604, 829
BstXI CCANNNNNNTGG 1 cut(s) 296
BstYI RGATCY 4 cut(s) 15, 497, 604, 829
BsuRI GGCC 2 cut(s) 288, 543
BtgI CCRYGG 1 cut(s) 1138
BtsCI GGATG 3 cut(s) 338, 477, 907
BtsIMutI CAGTG 2 cut(s) 602, 1003
Cac8I GCNNGC 5 cut(s) 150, 290, 528, 669, 1059
CfoI GCGC 2 cut(s) 669, 671
Cfr13I GGNCC 1 cut(s) 926
Csp6I GTAC 2 cut(s) 859, 920
CviAII CATG 5 cut(s) 65, 106, 785, 1139, 1171
CviQI GTAC 2 cut(s) 859, 920
DdeI CTNAG 3 cut(s) 402, 867, 1017
DpnI GATC 7 cut(s) 17, 476, 499, 606, 831, 933, 1076
DpnII GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
Eco130I CCWWGG 1 cut(s) 1138
Eco147I AGGCCT 1 cut(s) 543
Eco47I GGWCC 1 cut(s) 926
Eco57I CTGAAG 3 cut(s) 138, 195, 864
EcoRI GAATTC 1 cut(s) 272
EcoRII CCWGG 1 cut(s) 371
EcoT14I CCWWGG 1 cut(s) 1138
ErhI CCWWGG 1 cut(s) 1138
Esp3I CGTCTC 1 cut(s) 144
FaeI CATG 5 cut(s) 68, 109, 788, 1142, 1174
FalI AAGNNNNNCTT 4 cut(s) 519, 551, 1041, 1073
FaqI GGGAC 1 cut(s) 956
FatI CATG 5 cut(s) 64, 105, 784, 1138, 1170
FbaI TGATCA 1 cut(s) 474
Fnu4HI GCNGC 2 cut(s) 309, 555
FokI GGATG 3 cut(s) 345, 484, 914
Fsp4HI GCNGC 2 cut(s) 309, 555
FspBI CTAG 6 cut(s) 84, 210, 266, 602, 624, 696
GlaI GCGC 2 cut(s) 668, 670
GluI GCNGC 2 cut(s) 309, 555
GsuI CTGGAG 1 cut(s) 30
HaeIII GGCC 2 cut(s) 288, 543
HhaI GCGC 2 cut(s) 669, 671
Hin1II CATG 5 cut(s) 68, 109, 788, 1142, 1174
Hin6I GCGC 2 cut(s) 667, 669
HinP1I GCGC 2 cut(s) 667, 669
HincII GTYRAC 1 cut(s) 439
HindII GTYRAC 1 cut(s) 439
HindIII AAGCTT 1 cut(s) 706
HinfI GANTC 4 cut(s) 584, 592, 781, 812
HphI GGTGA 1 cut(s) 191
Hpy166II GTNNAC 1 cut(s) 439
Hpy188I TCNGA 6 cut(s) 118, 388, 405, 772, 817, 883
Hpy188III TCNNGA 4 cut(s) 9, 833, 929, 1113
Hpy8I GTNNAC 1 cut(s) 439
HpyAV CCTTC 8 cut(s) 15, 170, 462, 572, 802, 888, 892, 984
HpyCH4IV ACGT 2 cut(s) 256, 550
HpyCH4V TGCA 9 cut(s) 32, 62, 68, 158, 308, 336, 365, 758, 914
HpyF10VI GCNNNNNNNGC 5 cut(s) 38, 94, 668, 794, 1037
HpyF3I CTNAG 3 cut(s) 402, 867, 1017
HpySE526I ACGT 2 cut(s) 256, 550
Hsp92II CATG 5 cut(s) 68, 109, 788, 1142, 1174
HspAI GCGC 2 cut(s) 667, 669
Ksp22I TGATCA 1 cut(s) 474
Kzo9I GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
LmnI GCTCC 1 cut(s) 965
Lsp1109I GCAGC 2 cut(s) 320, 541
LweI GCATC 4 cut(s) 145, 323, 745, 895
MaeI CTAG 6 cut(s) 84, 210, 266, 602, 624, 696
MaeII ACGT 2 cut(s) 256, 550
MaeIII GTNAC 1 cut(s) 1110
MalI GATC 7 cut(s) 17, 476, 499, 606, 831, 933, 1076
MboI GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
MboII GAAGA 4 cut(s) 734, 737, 814, 817
MfeI CAATTG 1 cut(s) 294
MflI RGATCY 4 cut(s) 15, 497, 604, 829
MluCI AATT 7 cut(s) 112, 124, 224, 272, 294, 653, 728
MmeI TCCRAC 3 cut(s) 210, 982, 1078
MnlI CCTC 9 cut(s) 206, 278, 331, 820, 932, 944, 1084, 1120, 1150
MseI TTAA 3 cut(s) 636, 731, 1167
MspA1I CMGCKG 2 cut(s) 152, 173
MspR9I CCNGG 1 cut(s) 373
MunI CAATTG 1 cut(s) 294
Mva1269I GAATGC 2 cut(s) 449, 1033
MvaI CCWGG 1 cut(s) 373
MvnI CGCG 1 cut(s) 669
MwoI GCNNNNNNNGC 5 cut(s) 38, 94, 668, 794, 1037
NcoI CCATGG 1 cut(s) 1138
NdeII GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
NlaIII CATG 5 cut(s) 68, 109, 788, 1142, 1174
NlaIV GGNNCC 1 cut(s) 831
NmuCI GTSAC 1 cut(s) 1110
NspI RCATGY 2 cut(s) 68, 1174
NspV TTCGAA 1 cut(s) 466
PauI GCGCGC 1 cut(s) 667
PceI AGGCCT 1 cut(s) 543
PctI GAATGC 2 cut(s) 449, 1033
PfeI GAWTC 4 cut(s) 584, 592, 781, 812
PkrI GCNGC 2 cut(s) 310, 556
Psp6I CCWGG 1 cut(s) 371
PspGI CCWGG 1 cut(s) 371
PspN4I GGNNCC 1 cut(s) 831
PspPI GGNCC 1 cut(s) 926
PstI CTGCAG 1 cut(s) 310
PsuI RGATCY 4 cut(s) 15, 497, 604, 829
PteI GCGCGC 1 cut(s) 667
PvuII CAGCTG 2 cut(s) 152, 173
RsaI GTAC 2 cut(s) 860, 921
RsaNI GTAC 2 cut(s) 859, 920
SaqAI TTAA 3 cut(s) 636, 731, 1167
SatI GCNGC 2 cut(s) 309, 555
Sau3AI GATC 7 cut(s) 15, 474, 497, 604, 829, 931, 1074
Sau96I GGNCC 1 cut(s) 926
ScaI AGTACT 1 cut(s) 921
ScrFI CCNGG 1 cut(s) 373
SfaNI GCATC 4 cut(s) 145, 323, 745, 895
SfcI CTRYAG 2 cut(s) 186, 306
SfuI TTCGAA 1 cut(s) 466
SinI GGWCC 1 cut(s) 926
SpeI ACTAGT 2 cut(s) 623, 695
Sse9I AATT 7 cut(s) 112, 124, 224, 272, 294, 653, 728
SseBI AGGCCT 1 cut(s) 543
SspMI CTAG 6 cut(s) 84, 210, 266, 602, 624, 696
StuI AGGCCT 1 cut(s) 543
StyD4I CCNGG 1 cut(s) 371
StyI CCWWGG 1 cut(s) 1138
TaiI ACGT 2 cut(s) 259, 553
TaqI TCGA 2 cut(s) 466, 1077
TaqII GACCGA 1 cut(s) 914
TasI AATT 7 cut(s) 112, 124, 224, 272, 294, 653, 728
TatI WGTACW 2 cut(s) 858, 919
TfiI GAWTC 4 cut(s) 584, 592, 781, 812
Tru1I TTAA 3 cut(s) 636, 731, 1167
Tru9I TTAA 3 cut(s) 636, 731, 1167
TscAI CASTG 2 cut(s) 602, 1003
TseFI GTSAC 1 cut(s) 1110
TseI GCWGC 2 cut(s) 308, 554
Tsp45I GTSAC 1 cut(s) 1110
TspDTI ATGAA 5 cut(s) 294, 421, 524, 605, 773
TspGWI ACGGA 1 cut(s) 126
TspRI CASTG 2 cut(s) 602, 1003
VpaK11BI GGWCC 1 cut(s) 926
XapI RAATTY 4 cut(s) 112, 124, 272, 653
XceI RCATGY 2 cut(s) 68, 1174
XspI CTAG 6 cut(s) 84, 210, 266, 602, 624, 696
ZrmI AGTACT 1 cut(s) 921
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.