RLG00000003404
MADS Family

MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0000389
Physical Location & Seq
Reverse (-)
48087123 .. 48100600
13478 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000003404

Sequence Viewer

Length: 690 bp
ATGAATAAGATAAAGATTGAGAAGATAGAAAACTTGCCGGCGAGGCAGGTGACGTTTTCAAAGAGGAGACAAGGGCTTTTCAAGAAAGCCGGAGAGTTATCAGTTCTCTGCGACGCTGAGGTTGCTGTCATTGTCTTTTCTTCTACTGGCAAGCTCTATGACTCCTCCAGCTCCAGTATGAAGGATGTCATTGCAAGGTACAAATTGCACACTGAAGATGTGGAAAGGGGGGACCAGCAGCCACCTCCTGAGCTCCAGCTGGAGATTAATGAGTGCATGAGGTTGAATCAGGAACTTGCGGACAAGATCCTCGAGCTAAGGCGGATGGAGGGGCAGGATCTAAAAGAGCTGAATATAGATGAATTGCAGAGATTGGAGAATAGGATTGAAGGAGGACTCAGCCGTGTGCTTCAAACTAAGGATAAAAGCATTATGAGTCAGATTCTGGCACTTGAAAAAAAGGGAGCAGAGTTGACAGAAGCAAACAACCAATTAAGGCAGAGGTTAGGGATGCTATCCAATGGAGATGGAAATAGAGCTGGTTGTGTTGCTTTGAAGTCGGAGATCTCAACTGATGAAGAAGAAGGTATGGCATCGGAATTTGTGGTCGGCTGCTACAGTACTCGTTCTTCGACTTCTTCCCTTGATGATGACTCCGCTGACAACCCCTTATCTCTCAAACTTGGGTGA
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

230

Amino Acids

25.51

Weight (kDa)

5.06

Isoelectric Point (pI)

58.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 8 - 53 2e-25 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 89 - 169 1.1e-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)
AarI CACCTGC 1 cut(s) 37
Acc36I ACCTGC 1 cut(s) 37
AciI CCGC 3 cut(s) 299, 322, 657
AclWI GGATC 2 cut(s) 301, 345
AcsI RAATTY 1 cut(s) 599
AcuI CTGAAG 1 cut(s) 234
AfaI GTAC 2 cut(s) 200, 622
AgsI TTSAA 7 cut(s) 60, 82, 286, 389, 413, 455, 556
AluBI AGCT 7 cut(s) 154, 171, 253, 259, 316, 349, 539
AluI AGCT 7 cut(s) 154, 171, 253, 259, 316, 349, 539
Alw21I GWGCWC 1 cut(s) 255
Alw26I GTCTC 1 cut(s) 61
AlwI GGATC 2 cut(s) 301, 345
AlwNI CAGNNNCTG 1 cut(s) 445
Ama87I CYCGRG 1 cut(s) 311
ApeKI GCWGC 2 cut(s) 238, 612
ApoI RAATTY 1 cut(s) 599
AseI ATTAAT 1 cut(s) 267
AspS9I GGNCC 1 cut(s) 232
AsuHPI GGTGA 1 cut(s) 61
AvaI CYCGRG 1 cut(s) 311
AvaII GGWCC 1 cut(s) 232
BanII GRGCYC 1 cut(s) 255
BarI GAAGNNNNNNTAC 2 cut(s) 613, 645
Bbv12I GWGCWC 1 cut(s) 255
BbvCI CCTCAGC 1 cut(s) 117
BbvI GCAGC 2 cut(s) 250, 599
BccI CCATC 2 cut(s) 319, 521
BceAI ACGGC 1 cut(s) 387
BcoDI GTCTC 1 cut(s) 61
BfmI CTRYAG 1 cut(s) 616
BfuAI ACCTGC 1 cut(s) 37
BglI GCCNNNNNGGC 1 cut(s) 43
BglII AGATCT 1 cut(s) 564
BisI GCNGC 2 cut(s) 239, 613
BlsI GCNGC 2 cut(s) 240, 614
BmcAI AGTACT 1 cut(s) 622
Bme18I GGWCC 1 cut(s) 232
BmeT110I CYCGRG 1 cut(s) 311
BmgT120I GGNCC 1 cut(s) 232
BmiI GGNNCC 1 cut(s) 233
BmsI GCATC 2 cut(s) 501, 602
BpmI CTGGAG 4 cut(s) 151, 157, 239, 281
Bpu10I CCTNAGC 3 cut(s) 117, 249, 317
Bse118I RCCGGY 1 cut(s) 37
Bse1I ACTGG 2 cut(s) 151, 174
Bse3DI GCAATG 1 cut(s) 189
BseGI GGATG 3 cut(s) 190, 330, 516
BseMI GCAATG 1 cut(s) 189
BseMII CTCAG 3 cut(s) 108, 240, 412
BseNI ACTGG 2 cut(s) 151, 174
BseRI GAGGAG 2 cut(s) 79, 154
BseXI GCAGC 2 cut(s) 250, 599
BsiHKAI GWGCWC 1 cut(s) 255
BsiHKCI CYCGRG 1 cut(s) 311
BsiSI CCGG 2 cut(s) 38, 90
BslFI GGGAC 1 cut(s) 245
BsmAI GTCTC 1 cut(s) 61
BsmFI GGGAC 1 cut(s) 245
BsoBI CYCGRG 1 cut(s) 311
Bsp1286I GDGCHC 1 cut(s) 255
Bsp143I GATC 3 cut(s) 306, 337, 564
BspACI CCGC 3 cut(s) 299, 322, 657
BspCNI CTCAG 3 cut(s) 109, 241, 411
BspLI GGNNCC 1 cut(s) 233
BspMI ACCTGC 1 cut(s) 37
BspPI GGATC 2 cut(s) 301, 345
BsrDI GCAATG 1 cut(s) 189
BsrFI RCCGGY 1 cut(s) 37
BsrI ACTGG 2 cut(s) 151, 174
BssAI RCCGGY 1 cut(s) 37
BssMI GATC 3 cut(s) 306, 337, 564
Bst4CI ACNGT 1 cut(s) 620
BstC8I GCNNGC 2 cut(s) 39, 152
BstDEI CTNAG 5 cut(s) 117, 249, 317, 398, 417
BstF5I GGATG 3 cut(s) 190, 330, 516
BstKTI GATC 3 cut(s) 309, 340, 567
BstMAI GTCTC 1 cut(s) 61
BstMBI GATC 3 cut(s) 306, 337, 564
BstMWI GCNNNNNNNGC 2 cut(s) 43, 122
BstSFI CTRYAG 1 cut(s) 616
BstV1I GCAGC 2 cut(s) 250, 599
BstX2I RGATCY 3 cut(s) 306, 337, 564
BstYI RGATCY 3 cut(s) 306, 337, 564
BtsCI GGATG 3 cut(s) 190, 330, 516
BtsIMutI CAGTG 1 cut(s) 210
BveI ACCTGC 1 cut(s) 37
Cac8I GCNNGC 2 cut(s) 39, 152
CaiI CAGNNNCTG 1 cut(s) 445
Cfr10I RCCGGY 1 cut(s) 37
Cfr13I GGNCC 1 cut(s) 232
CseI GACGC 1 cut(s) 122
Csp6I GTAC 2 cut(s) 199, 621
CviAII CATG 1 cut(s) 277
CviQI GTAC 2 cut(s) 199, 621
DdeI CTNAG 5 cut(s) 117, 249, 317, 398, 417
DpnI GATC 3 cut(s) 308, 339, 566
DpnII GATC 3 cut(s) 306, 337, 564
EciI GGCGGA 1 cut(s) 337
Ecl136II GAGCTC 1 cut(s) 253
Eco24I GRGCYC 1 cut(s) 255
Eco47I GGWCC 1 cut(s) 232
Eco53kI GAGCTC 1 cut(s) 253
Eco57I CTGAAG 1 cut(s) 234
Eco88I CYCGRG 1 cut(s) 311
EcoICRI GAGCTC 1 cut(s) 253
EcoT38I GRGCYC 1 cut(s) 255
FaeI CATG 1 cut(s) 280
FaiI YATR 6 cut(s) 159, 179, 278, 356, 434, 590
FaqI GGGAC 1 cut(s) 245
FatI CATG 1 cut(s) 276
Fnu4HI GCNGC 2 cut(s) 239, 613
FokI GGATG 3 cut(s) 197, 337, 523
FriOI GRGCYC 1 cut(s) 255
Fsp4HI GCNGC 2 cut(s) 239, 613
GluI GCNGC 2 cut(s) 239, 613
GsuI CTGGAG 4 cut(s) 151, 157, 239, 281
HapII CCGG 2 cut(s) 38, 90
HgaI GACGC 1 cut(s) 122
Hin1II CATG 1 cut(s) 280
HincII GTYRAC 1 cut(s) 474
HindII GTYRAC 1 cut(s) 474
HinfI GANTC 6 cut(s) 161, 286, 396, 436, 442, 653
HpaII CCGG 2 cut(s) 38, 90
HphI GGTGA 1 cut(s) 61
Hpy166II GTNNAC 1 cut(s) 474
Hpy188I TCNGA 3 cut(s) 441, 562, 598
Hpy188III TCNNGA 3 cut(s) 82, 248, 290
Hpy8I GTNNAC 1 cut(s) 474
Hpy99I CGWCG 1 cut(s) 116
HpyAV CCTTC 3 cut(s) 175, 383, 578
HpyCH4III ACNGT 1 cut(s) 620
HpyCH4IV ACGT 1 cut(s) 53
HpyCH4V TGCA 4 cut(s) 194, 208, 276, 367
HpyF10VI GCNNNNNNNGC 2 cut(s) 43, 122
HpyF3I CTNAG 5 cut(s) 117, 249, 317, 398, 417
HpySE526I ACGT 1 cut(s) 53
Hsp92II CATG 1 cut(s) 280
KroI GCCGGC 1 cut(s) 37
KroNI GCCGGC 1 cut(s) 39
Kzo9I GATC 3 cut(s) 306, 337, 564
LmnI GCTCC 3 cut(s) 176, 258, 464
Lsp1109I GCAGC 2 cut(s) 250, 599
LweI GCATC 2 cut(s) 501, 602
MaeII ACGT 1 cut(s) 53
MaeIII GTNAC 1 cut(s) 49
MalI GATC 3 cut(s) 308, 339, 566
MboI GATC 3 cut(s) 306, 337, 564
MboII GAAGA 7 cut(s) 34, 132, 227, 590, 593, 621, 630
MflI RGATCY 3 cut(s) 306, 337, 564
MhlI GDGCHC 1 cut(s) 255
MluCI AATT 4 cut(s) 203, 362, 491, 599
MlyI GAGTC 4 cut(s) 155, 390, 445, 647
MmeI TCCRAC 1 cut(s) 540
MroNI GCCGGC 1 cut(s) 37
MseI TTAA 2 cut(s) 267, 494
MspA1I CMGCKG 2 cut(s) 259, 659
MspI CCGG 2 cut(s) 38, 90
MwoI GCNNNNNNNGC 2 cut(s) 43, 122
NaeI GCCGGC 1 cut(s) 39
NdeII GATC 3 cut(s) 306, 337, 564
NgoMIV GCCGGC 1 cut(s) 37
NlaIII CATG 1 cut(s) 280
NlaIV GGNNCC 1 cut(s) 233
NmuCI GTSAC 1 cut(s) 49
PaeR7I CTCGAG 1 cut(s) 311
PaqCI CACCTGC 1 cut(s) 37
PdiI GCCGGC 1 cut(s) 39
PfeI GAWTC 2 cut(s) 286, 442
PkrI GCNGC 2 cut(s) 240, 614
PleI GAGTC 4 cut(s) 155, 390, 444, 647
PpsI GAGTC 4 cut(s) 155, 390, 444, 647
PshBI ATTAAT 1 cut(s) 267
Psp124BI GAGCTC 1 cut(s) 255
PspN4I GGNNCC 1 cut(s) 233
PspPI GGNCC 1 cut(s) 232
PspXI VCTCGAGB 1 cut(s) 311
PstNI CAGNNNCTG 1 cut(s) 445
PsuI RGATCY 3 cut(s) 306, 337, 564
PvuII CAGCTG 1 cut(s) 259
RsaI GTAC 2 cut(s) 200, 622
RsaNI GTAC 2 cut(s) 199, 621
SacI GAGCTC 1 cut(s) 255
SaqAI TTAA 2 cut(s) 267, 494
SatI GCNGC 2 cut(s) 239, 613
Sau3AI GATC 3 cut(s) 306, 337, 564
Sau96I GGNCC 1 cut(s) 232
ScaI AGTACT 1 cut(s) 622
SchI GAGTC 4 cut(s) 155, 390, 445, 647
SduI GDGCHC 1 cut(s) 255
SfaNI GCATC 2 cut(s) 501, 602
SfcI CTRYAG 1 cut(s) 616
Sfr274I CTCGAG 1 cut(s) 311
SinI GGWCC 1 cut(s) 232
SlaI CTCGAG 1 cut(s) 311
SmlI CTYRAG 1 cut(s) 311
SmoI CTYRAG 1 cut(s) 311
Sse9I AATT 4 cut(s) 203, 362, 491, 599
SsiI CCGC 3 cut(s) 299, 322, 657
SstI GAGCTC 1 cut(s) 255
TaaI ACNGT 1 cut(s) 620
TaiI ACGT 1 cut(s) 56
TaqI TCGA 2 cut(s) 312, 632
TasI AATT 4 cut(s) 203, 362, 491, 599
TatI WGTACW 1 cut(s) 620
TfiI GAWTC 2 cut(s) 286, 442
Tru1I TTAA 2 cut(s) 267, 494
Tru9I TTAA 2 cut(s) 267, 494
TscAI CASTG 1 cut(s) 217
TseFI GTSAC 1 cut(s) 49
TseI GCWGC 2 cut(s) 238, 612
Tsp45I GTSAC 1 cut(s) 49
TspDTI ATGAA 4 cut(s) 17, 194, 375, 591
TspRI CASTG 1 cut(s) 217
VpaK11BI GGWCC 1 cut(s) 232
VspI ATTAAT 1 cut(s) 267
XapI RAATTY 1 cut(s) 599
XhoI CTCGAG 1 cut(s) 311
ZrmI AGTACT 1 cut(s) 622
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.