AT5G23260
MADS Family

MADS-box transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0010156
Physical Location & Seq
Forward (+)
7835965 .. 7838555
2591 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G23260.4

Sequence Viewer

Length: 792 bp
ATGAATATTGAGGAAGAGGGAGCCACTCATAAGAGGAAGAAGAGAGAGATGGGTAGAGGGAAGATAGAGATAAAGAAGATAGAGAATCAGACGGCGAGGCAAGTGACCTTCTCCAAGAGAAGAACTGGTCTTATAAAGAAGACTCGTGAGCTCTCTATTCTCTGTGACGCTCACATCGGTCTCATCGTCTTCTCAGCCACCGGAAAGCTTTCCGAGTTCTGCTCCGAACAGAACAGGATGCCTCAACTCATTGACCGATACTTGCATACCAACGGATTGCGACTTCCTGATCATCATGACGACCAGGAGCAATTGCACCATGAGATGGAACTACTAAGAAGAGAGACATGTAACCTTGAGCTTCGTCTGCGTCCATTCCATGGACATGACTTAGCCTCCATTCCTCCTAATGAGCTTGACGGACTCGAGAGACAGCTAGAACATTCTGTCCTCAAAGTCCGTGAGCGTAAGCAACAGTTGGAGAATCTAAGCAGAAAGAGGAGGATGCTAGAAGAAGATAACAACAACATGTACCGTTGGCTTCATGAGCATCGTGCAGCGATGGAGTTTCAACAAGCTGGGATAGATACCAAACCAGGGGAGTATCAACAGTTTATAGAGCAGCTTCAGTGCTATAAACCAGGGGAGTATCAGCAGTTTCTAGAGCAGCAGCAACAACAACCAAACAGCGTTCTTCAGCTTGCTACACTTCCTTCTGAGATTGATCCTACTTACAATCTCCAGCTTGCTCAGCCTAATCTTCAAAACGATCCAACGGCCCAGAATGATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000271 GO:0001558 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005975 GO:0005976 GO:0005982 GO:0006073 GO:0006355 GO:0007275 GO:0008150 GO:0008152 GO:0008360 GO:0009058 GO:0009059 GO:0009250 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009908 GO:0009987 GO:0010154 GO:0010468 GO:0010556 GO:0010941 GO:0010942 GO:0016051 GO:0019219 GO:0019222 GO:0019252 GO:0022414 GO:0022603 GO:0022604 GO:0030308 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0033692 GO:0034637 GO:0034645 GO:0035670 GO:0040008 GO:0040034 GO:0043067 GO:0043068 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043455 GO:0043900 GO:0044042 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044262 GO:0044264 GO:0044424 GO:0044464 GO:0045595 GO:0045926 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048506 GO:0048509 GO:0048510 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048530 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051128 GO:0051171 GO:0051252 GO:0051302 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071704 GO:0080060 GO:0080090 GO:0080154 GO:0080155 GO:0090567 GO:0090698 GO:0099402 GO:0140110 GO:1900376 GO:1901576 GO:1903506 GO:2000029 GO:2000112 GO:2000241 GO:2000762 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko00260 ko00630 ko01100 ko01110 ko01130 ko01200 ko04013 ko04022 ko04371 ko05418 map00260 map00630 map01100 map01110 map01130 map01200 map04013 map04022 map04371 map05418
Pfam Domains
Protein Families
K-box SRF-TF

Protein Analysis

263

Amino Acids

31.02

Weight (kDa)

6.47

Isoelectric Point (pI)

62.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 26 - 73 9.5e-24 SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box PF01486 98 - 186 2.7e-20 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: OG0010156)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G23260 AT5G23260 AT5G23260 AT5G23260
fragaria_vesca FvH4_3g12460 FvH4_3g12460 FvH4_3g12460
malus_domestica MD05G1250100.v1.1 MD10G1231100.v1.1
prunus_persica Prupe.4G113500_v2.0.a1
pyrus_communis pycom10g19430
rosa_chinensis RchiOBHm_Chr5g0020391
rosa_laevigata RLG00000032519
rosa_multiflora Rmu_sc0000256.1_g000010
rosa_roxburghii Rroxscaffold_1G00057870
rosa_rugosa Rorug05G0058900 Rorug05G0058900
rosa_samantha Rh5AG149200 Rh5BG148900 Rh5DG147600
rosa_wichuraiana Rw5G013230

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 134
AccB7I CCANNNNNTGG 2 cut(s) 325, 380
AclWI GGATC 2 cut(s) 719, 764
AcuI CTGAAG 2 cut(s) 611, 680
AfaI GTAC 1 cut(s) 533
AfiI CCNNNNNNNGG 3 cut(s) 325, 380, 597
AflIII ACRYGT 2 cut(s) 347, 528
AgsI TTSAA 2 cut(s) 572, 764
AjnI CCWGG 3 cut(s) 303, 595, 640
AloI GAACNNNNNNTCC 2 cut(s) 432, 464
AluBI AGCT 9 cut(s) 151, 208, 361, 415, 436, 578, 625, 700, 745
AluI AGCT 9 cut(s) 151, 208, 361, 415, 436, 578, 625, 700, 745
Alw21I GWGCWC 1 cut(s) 153
Alw26I GTCTC 3 cut(s) 185, 338, 424
AlwI GGATC 2 cut(s) 719, 764
Ama87I CYCGRG 1 cut(s) 425
AoxI GGCC 1 cut(s) 777
ApeKI GCWGC 4 cut(s) 557, 622, 667, 670
Asp700I GAANNNNTTC 1 cut(s) 208
AspS9I GGNCC 1 cut(s) 778
AvaI CYCGRG 1 cut(s) 425
BanII GRGCYC 1 cut(s) 153
BauI CACGAG 1 cut(s) 144
BbsI GAAGAC 2 cut(s) 146, 181
Bbv12I GWGCWC 1 cut(s) 153
BbvI GCAGC 4 cut(s) 569, 634, 679, 682
BccI CCATC 3 cut(s) 43, 319, 556
BceAI ACGGC 1 cut(s) 108
BciT130I CCWGG 3 cut(s) 305, 597, 642
BclI TGATCA 1 cut(s) 289
BcoDI GTCTC 3 cut(s) 185, 338, 424
BfaI CTAG 3 cut(s) 437, 509, 662
BisI GCNGC 4 cut(s) 558, 623, 668, 671
BlpI GCTNAGC 1 cut(s) 750
BlsI GCNGC 4 cut(s) 559, 624, 669, 672
Bme1390I CCNGG 3 cut(s) 305, 597, 642
BmeT110I CYCGRG 1 cut(s) 425
BmgT120I GGNCC 1 cut(s) 778
BmiI GGNNCC 1 cut(s) 22
BmrFI CCNGG 3 cut(s) 305, 597, 642
BmsI GCATC 3 cut(s) 228, 495, 559
BpiI GAAGAC 2 cut(s) 146, 181
BplI GAGNNNNNCTC 2 cut(s) 206, 238
BpmI CTGGAG 1 cut(s) 725
Bpu1102I GCTNAGC 1 cut(s) 750
BpuEI CTTGAG 1 cut(s) 377
BsaI GGTCTC 1 cut(s) 185
BsaJI CCNNGG 3 cut(s) 379, 596, 641
BsaWI WCCGGW 1 cut(s) 200
BsaXI ACNNNNNCTCC 2 cut(s) 380, 410
Bsc4I CCNNNNNNNGG 3 cut(s) 325, 380, 597
Bse1I ACTGG 1 cut(s) 130
BseBI CCWGG 3 cut(s) 305, 597, 642
BseDI CCNNGG 3 cut(s) 379, 596, 641
BseGI GGATG 2 cut(s) 243, 510
BseLI CCNNNNNNNGG 3 cut(s) 325, 380, 597
BseMII CTCAG 3 cut(s) 207, 708, 764
BseNI ACTGG 1 cut(s) 130
BseRI GAGGAG 1 cut(s) 514
BseXI GCAGC 4 cut(s) 569, 634, 679, 682
BseYI CCCAGC 1 cut(s) 578
BsgI GTGCAG 1 cut(s) 576
BshFI GGCC 1 cut(s) 779
BsiHKAI GWGCWC 1 cut(s) 153
BsiHKCI CYCGRG 1 cut(s) 425
BsiSI CCGG 1 cut(s) 201
BslI CCNNNNNNNGG 3 cut(s) 325, 380, 597
BsmAI GTCTC 3 cut(s) 185, 338, 424
BsnI GGCC 1 cut(s) 779
Bso31I GGTCTC 1 cut(s) 185
BsoBI CYCGRG 1 cut(s) 425
Bsp1286I GDGCHC 1 cut(s) 153
Bsp143I GATC 3 cut(s) 289, 724, 769
Bsp1720I GCTNAGC 1 cut(s) 750
Bsp19I CCATGG 1 cut(s) 379
BspANI GGCC 1 cut(s) 779
BspCNI CTCAG 3 cut(s) 206, 709, 763
BspHI TCATGA 2 cut(s) 295, 544
BspLI GGNNCC 1 cut(s) 22
BspPI GGATC 2 cut(s) 719, 764
BspTNI GGTCTC 1 cut(s) 185
BsrI ACTGG 1 cut(s) 130
BssECI CCNNGG 3 cut(s) 379, 596, 641
BssMI GATC 3 cut(s) 289, 724, 769
BssSI CACGAG 1 cut(s) 144
BssT1I CCWWGG 1 cut(s) 379
Bst2BI CACGAG 1 cut(s) 144
Bst2UI CCWGG 3 cut(s) 305, 597, 642
Bst4CI ACNGT 3 cut(s) 477, 536, 612
Bst6I CTCTTC 3 cut(s) 9, 35, 334
BstC8I GCNNGC 2 cut(s) 702, 747
BstDEI CTNAG 6 cut(s) 193, 335, 391, 488, 717, 750
BstDSI CCRYGG 1 cut(s) 379
BstF5I GGATG 2 cut(s) 243, 510
BstKTI GATC 3 cut(s) 292, 727, 772
BstMAI GTCTC 3 cut(s) 185, 338, 424
BstMBI GATC 3 cut(s) 289, 724, 769
BstMWI GCNNNNNNNGC 3 cut(s) 367, 547, 751
BstNI CCWGG 3 cut(s) 305, 597, 642
BstNSI RCATGY 2 cut(s) 351, 532
BstSCI CCNGG 3 cut(s) 303, 595, 640
BstV1I GCAGC 4 cut(s) 569, 634, 679, 682
BstV2I GAAGAC 2 cut(s) 146, 181
BsuRI GGCC 1 cut(s) 779
BtgI CCRYGG 1 cut(s) 379
BtgZI GCGATG 1 cut(s) 575
BtsCI GGATG 2 cut(s) 243, 510
BtsIMutI CAGTG 1 cut(s) 635
Cac8I GCNNGC 2 cut(s) 702, 747
CciI TCATGA 2 cut(s) 295, 544
Cfr13I GGNCC 1 cut(s) 778
CseI GACGC 2 cut(s) 176, 359
Csp6I GTAC 1 cut(s) 532
CviAII CATG 7 cut(s) 296, 320, 348, 380, 386, 529, 545
CviQI GTAC 1 cut(s) 532
DdeI CTNAG 6 cut(s) 193, 335, 391, 488, 717, 750
DpnI GATC 3 cut(s) 291, 726, 771
DpnII GATC 3 cut(s) 289, 724, 769
Eam1104I CTCTTC 3 cut(s) 9, 35, 334
EarI CTCTTC 3 cut(s) 9, 35, 334
Ecl136II GAGCTC 1 cut(s) 151
Eco130I CCWWGG 1 cut(s) 379
Eco24I GRGCYC 1 cut(s) 153
Eco31I GGTCTC 1 cut(s) 185
Eco53kI GAGCTC 1 cut(s) 151
Eco57I CTGAAG 2 cut(s) 611, 680
Eco88I CYCGRG 1 cut(s) 425
EcoICRI GAGCTC 1 cut(s) 151
EcoRII CCWGG 3 cut(s) 303, 595, 640
EcoT14I CCWWGG 1 cut(s) 379
EcoT38I GRGCYC 1 cut(s) 153
ErhI CCWWGG 1 cut(s) 379
FaeI CATG 7 cut(s) 299, 323, 351, 383, 389, 532, 548
FatI CATG 7 cut(s) 295, 319, 347, 379, 385, 528, 544
FbaI TGATCA 1 cut(s) 289
Fnu4HI GCNGC 4 cut(s) 558, 623, 668, 671
FokI GGATG 2 cut(s) 250, 517
FriOI GRGCYC 1 cut(s) 153
Fsp4HI GCNGC 4 cut(s) 558, 623, 668, 671
FspBI CTAG 3 cut(s) 437, 509, 662
GluI GCNGC 4 cut(s) 558, 623, 668, 671
GsaI CCCAGC 1 cut(s) 582
GsuI CTGGAG 1 cut(s) 725
HaeIII GGCC 1 cut(s) 779
HapII CCGG 1 cut(s) 201
HgaI GACGC 2 cut(s) 176, 359
Hin1II CATG 7 cut(s) 299, 323, 351, 383, 389, 532, 548
HindIII AAGCTT 1 cut(s) 206
HinfI GANTC 4 cut(s) 85, 142, 423, 484
HpaII CCGG 1 cut(s) 201
Hpy188I TCNGA 4 cut(s) 90, 214, 226, 718
Hpy188III TCNNGA 6 cut(s) 146, 287, 296, 427, 545, 662
HpyAV CCTTC 2 cut(s) 118, 723
HpyCH4III ACNGT 3 cut(s) 477, 536, 612
HpyCH4V TGCA 3 cut(s) 265, 316, 557
HpyF10VI GCNNNNNNNGC 3 cut(s) 367, 547, 751
HpyF3I CTNAG 6 cut(s) 193, 335, 391, 488, 717, 750
Hsp92II CATG 7 cut(s) 299, 323, 351, 383, 389, 532, 548
Ksp22I TGATCA 1 cut(s) 289
Kzo9I GATC 3 cut(s) 289, 724, 769
LmnI GCTCC 3 cut(s) 20, 227, 307
Lsp1109I GCAGC 4 cut(s) 569, 634, 679, 682
LweI GCATC 3 cut(s) 228, 495, 559
MaeI CTAG 3 cut(s) 437, 509, 662
MaeIII GTNAC 3 cut(s) 103, 164, 350
MalI GATC 3 cut(s) 291, 726, 771
MboI GATC 3 cut(s) 289, 724, 769
MfeI CAATTG 1 cut(s) 311
MhlI GDGCHC 1 cut(s) 153
MluCI AATT 1 cut(s) 311
MlyI GAGTC 2 cut(s) 136, 417
MmeI TCCRAC 1 cut(s) 459
MroXI GAANNNNTTC 1 cut(s) 208
MseI TTAA 1 cut(s) 790
MslI CAYNNNNRTG 1 cut(s) 384
MspI CCGG 1 cut(s) 201
MspR9I CCNGG 3 cut(s) 305, 597, 642
MunI CAATTG 1 cut(s) 311
MvaI CCWGG 3 cut(s) 305, 597, 642
MwoI GCNNNNNNNGC 3 cut(s) 367, 547, 751
NcoI CCATGG 1 cut(s) 379
NdeII GATC 3 cut(s) 289, 724, 769
NlaIII CATG 7 cut(s) 299, 323, 351, 383, 389, 532, 548
NlaIV GGNNCC 1 cut(s) 22
NmuCI GTSAC 2 cut(s) 103, 164
NspI RCATGY 2 cut(s) 351, 532
PaeR7I CTCGAG 1 cut(s) 425
PagI TCATGA 2 cut(s) 295, 544
PciI ACATGT 2 cut(s) 347, 528
PcsI WCGNNNNNNNCGW 1 cut(s) 183
PdmI GAANNNNTTC 1 cut(s) 208
PfeI GAWTC 2 cut(s) 85, 484
PflMI CCANNNNNTGG 2 cut(s) 325, 380
PkrI GCNGC 4 cut(s) 559, 624, 669, 672
PleI GAGTC 2 cut(s) 136, 417
PpsI GAGTC 2 cut(s) 136, 417
PscI ACATGT 2 cut(s) 347, 528
PsiI TTATAA 1 cut(s) 134
Psp124BI GAGCTC 1 cut(s) 153
Psp6I CCWGG 3 cut(s) 303, 595, 640
PspFI CCCAGC 1 cut(s) 578
PspGI CCWGG 3 cut(s) 303, 595, 640
PspN4I GGNNCC 1 cut(s) 22
PspPI GGNCC 1 cut(s) 778
RsaI GTAC 1 cut(s) 533
RsaNI GTAC 1 cut(s) 532
RseI CAYNNNNRTG 1 cut(s) 384
SacI GAGCTC 1 cut(s) 153
SaqAI TTAA 1 cut(s) 790
SatI GCNGC 4 cut(s) 558, 623, 668, 671
Sau3AI GATC 3 cut(s) 289, 724, 769
Sau96I GGNCC 1 cut(s) 778
SchI GAGTC 2 cut(s) 136, 417
ScrFI CCNGG 3 cut(s) 305, 597, 642
SduI GDGCHC 1 cut(s) 153
SfaNI GCATC 3 cut(s) 228, 495, 559
Sfr274I CTCGAG 1 cut(s) 425
SlaI CTCGAG 1 cut(s) 425
SmiMI CAYNNNNRTG 1 cut(s) 384
SmlI CTYRAG 2 cut(s) 356, 425
SmoI CTYRAG 2 cut(s) 356, 425
Sse9I AATT 1 cut(s) 311
SspI AATATT 1 cut(s) 7
SspMI CTAG 3 cut(s) 437, 509, 662
SstI GAGCTC 1 cut(s) 153
StyD4I CCNGG 3 cut(s) 303, 595, 640
StyI CCWWGG 1 cut(s) 379
TaaI ACNGT 3 cut(s) 477, 536, 612
TaqI TCGA 1 cut(s) 426
TaqII GACCGA 2 cut(s) 167, 270
TasI AATT 1 cut(s) 311
TfiI GAWTC 2 cut(s) 85, 484
Tru1I TTAA 1 cut(s) 790
Tru9I TTAA 1 cut(s) 790
TscAI CASTG 1 cut(s) 635
TseFI GTSAC 2 cut(s) 103, 164
TseI GCWGC 4 cut(s) 557, 622, 667, 670
Tsp45I GTSAC 2 cut(s) 103, 164
TspDTI ATGAA 2 cut(s) 17, 533
TspGWI ACGGA 3 cut(s) 288, 435, 449
TspRI CASTG 1 cut(s) 635
Van91I CCANNNNNTGG 2 cut(s) 325, 380
XbaI TCTAGA 1 cut(s) 661
XceI RCATGY 2 cut(s) 351, 532
XhoI CTCGAG 1 cut(s) 425
XmnI GAANNNNTTC 1 cut(s) 208
XspI CTAG 3 cut(s) 437, 509, 662
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.