MD09G1008900.v1.1

Squamosa promoter-binding-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0014782
Physical Location & Seq
Forward (+)
635528 .. 637768
2241 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1008900.v1.1.491

Sequence Viewer

Length: 942 bp
ATGGAGTACTGGGACTTCGAGGACAGCGACCTTGCTGCTCTGGTGGGGTCCAGTATCTCACAACCCCAGATGGAGCATCGACCAGCTGAATCACTAGGATTGGAGGACGACCCAGTGAAGCTCTCATCGTCCGGAAGGCTTAGTGGTAGTAACAATGGAGGTGATCAACTGAAATTTCTATGCCTGGTCGACGGTTGCAGGGCAGACCTCAGCCGTTGTCGGGAATATCATCGGCGGCACAGAGTCTGCGAGCTCCACTCCAAGGCCCCTGTTGTCGTCGTCAGGGGCGAACAGAAGCGATTCTGCCAGCAGTGCAGCAGATTCCATTCTCTGGTGGACTTTGATAAGGTGAAGAGAAGCTGCAGAAAACGTCTCAATGGACACAACCAGCGCCGGCGGAAACCTAAACCGGAATCCTTCTACTTCAGTTCCCACTTCTTCTTCTCCACATACCAAGGTCCCAGGATCCTGCAATTTAGTAATCCACGAGTATGTGCAACAACTAATGTGAGATGTATCTGGCCTGTTAAGGACAAAAAAGGAGCAGAACCCATGCGTTCTAACTACCACCACCAGTGGTTGTCCGCAACTGACGAACGAAGTCCTCCCAATTCCTTCAACGGCGGAGGAGATAAACAATTTCTTTTCTTGCAAGCTAATGATCCTAAAGCCGCTGCAGGCAACCGAGCAGCCCCTCAAGCGTTCATGTGCCAGCAGCAGACGTTTCCAACAACCGTTGCTGCTGCCTCACCAAAAAGCACAAAGAGTTGTGCCCTCTATCTTCTGTCATCTCATCCAACACAAAATTCAGTGAGTGGGCCAGACCACTTGGCTCAGTCCACTGTCACCACTACTCATCCATGCTCACATGATGTGGAGGACAGGCCTGTAAATCCAGAAATGATGTTTCCAATGCGCCCTGATTGCTTTTGGGACAACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
SBP

Protein Analysis

314

Amino Acids

35.41

Weight (kDa)

8.96

Isoelectric Point (pI)

48.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SBP PF03110 61 - 134 3.2e-30 SBP domain
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: OG0014782)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g53760
malus_domestica MD09G1008900.v1.1 MD17G1001400.v1.1
prunus_persica Prupe.3G308100_v2.0.a1 Prupe.3G308100_v2.0.a1
pyrus_communis pycom111g00720 pycom17g00760
rosa_chinensis RchiOBHm_Chr2g0175901
rosa_laevigata RLG00000022362
rosa_multiflora Rmu_ssc0000114.1_g000004
rosa_roxburghii Rroxscaffold_2G00076970
rosa_rugosa Rorug02G0588300
rosa_samantha Rh2AG667600 Rh2BG679100 Rh2CG641900 Rh2DG692600
rosa_wichuraiana Rw2G054720

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 331
AccI GTMKAC 1 cut(s) 189
AccIII TCCGGA 1 cut(s) 131
AciI CCGC 5 cut(s) 235, 397, 585, 624, 672
AclWI GGATC 3 cut(s) 460, 473, 656
AcsI RAATTY 2 cut(s) 173, 805
AcuI CTGAAG 1 cut(s) 409
AfaI GTAC 1 cut(s) 8
AfiI CCNNNNNNNGG 3 cut(s) 220, 262, 331
AgsI TTSAA 1 cut(s) 619
AjnI CCWGG 2 cut(s) 183, 461
AjuI GAANNNNNNNTTGG 2 cut(s) 790, 822
AluBI AGCT 5 cut(s) 86, 121, 253, 360, 656
AluI AGCT 5 cut(s) 86, 121, 253, 360, 656
Alw21I GWGCWC 1 cut(s) 255
Alw26I GTCTC 1 cut(s) 377
AlwI GGATC 3 cut(s) 460, 473, 656
AlwNI CAGNNNCTG 1 cut(s) 246
Aor13HI TCCGGA 1 cut(s) 131
AoxI GGCC 4 cut(s) 264, 521, 818, 884
ApeKI GCWGC 8 cut(s) 35, 315, 360, 674, 689, 715, 740, 743
ApoI RAATTY 2 cut(s) 173, 805
Asp700I GAANNNNTTC 1 cut(s) 299
AspLEI GCGC 2 cut(s) 393, 918
AspS9I GGNCC 4 cut(s) 48, 265, 458, 818
AsuHPI GGTGA 4 cut(s) 173, 361, 741, 838
AvaII GGWCC 2 cut(s) 48, 458
BaeGI GKGCMC 1 cut(s) 775
BamHI GGATCC 1 cut(s) 465
BanII GRGCYC 1 cut(s) 255
BarI GAAGNNNNNNTAC 1 cut(s) 31
BauI CACGAG 1 cut(s) 486
Bbv12I GWGCWC 1 cut(s) 255
BbvCI CCTCAGC 1 cut(s) 209
BbvI GCAGC 8 cut(s) 22, 327, 347, 661, 701, 727, 727, 730
BccI CCATC 1 cut(s) 64
BceAI ACGGC 2 cut(s) 198, 637
BcgI CGANNNNNNTGC 2 cut(s) 17, 51
BciT130I CCWGG 2 cut(s) 185, 463
BclI TGATCA 1 cut(s) 163
BcoDI GTCTC 1 cut(s) 377
BfaI CTAG 1 cut(s) 95
BfmI CTRYAG 2 cut(s) 361, 675
BfoI RGCGCY 1 cut(s) 394
BmcAI AGTACT 1 cut(s) 8
Bme1390I CCNGG 2 cut(s) 185, 463
Bme18I GGWCC 2 cut(s) 48, 458
BmgT120I GGNCC 4 cut(s) 48, 265, 458, 818
BmiI GGNNCC 4 cut(s) 49, 267, 460, 467
BmrFI CCNGG 2 cut(s) 185, 463
BmrI ACTGGG 2 cut(s) 19, 107
BmsI GCATC 1 cut(s) 85
BmuI ACTGGG 2 cut(s) 19, 107
BplI GAGNNNNNCTC 2 cut(s) 242, 274
Bpu10I CCTNAGC 1 cut(s) 209
BpuEI CTTGAG 1 cut(s) 681
BsaJI CCNNGG 3 cut(s) 261, 454, 461
BsaWI WCCGGW 2 cut(s) 131, 409
Bsc4I CCNNNNNNNGG 3 cut(s) 220, 262, 331
Bse118I RCCGGY 1 cut(s) 393
Bse1I ACTGG 4 cut(s) 14, 51, 113, 574
BseAI TCCGGA 1 cut(s) 131
BseBI CCWGG 2 cut(s) 185, 463
BseDI CCNNGG 3 cut(s) 261, 454, 461
BseGI GGATG 2 cut(s) 793, 856
BseLI CCNNNNNNNGG 3 cut(s) 220, 262, 331
BseMII CTCAG 2 cut(s) 223, 848
BseNI ACTGG 4 cut(s) 14, 51, 113, 574
BseRI GAGGAG 1 cut(s) 642
BseSI GKGCMC 1 cut(s) 775
BseXI GCAGC 8 cut(s) 22, 327, 347, 661, 701, 727, 727, 730
BsgI GTGCAG 1 cut(s) 334
BshFI GGCC 4 cut(s) 266, 523, 820, 886
BsiHKAI GWGCWC 1 cut(s) 255
BsiSI CCGG 3 cut(s) 132, 394, 410
BslFI GGGAC 2 cut(s) 26, 444
BslI CCNNNNNNNGG 3 cut(s) 220, 262, 331
BsmAI GTCTC 1 cut(s) 377
BsmBI CGTCTC 1 cut(s) 377
BsmFI GGGAC 2 cut(s) 26, 444
BsnI GGCC 4 cut(s) 266, 523, 820, 886
Bsp1286I GDGCHC 2 cut(s) 255, 775
Bsp13I TCCGGA 1 cut(s) 131
Bsp143I GATC 3 cut(s) 163, 465, 661
BspACI CCGC 5 cut(s) 235, 397, 585, 624, 672
BspANI GGCC 4 cut(s) 266, 523, 820, 886
BspCNI CTCAG 2 cut(s) 222, 847
BspEI TCCGGA 1 cut(s) 131
BspLI GGNNCC 4 cut(s) 49, 267, 460, 467
BspMAI CTGCAG 2 cut(s) 365, 679
BspPI GGATC 3 cut(s) 460, 473, 656
BsrFI RCCGGY 1 cut(s) 393
BsrI ACTGG 4 cut(s) 14, 51, 113, 574
BssAI RCCGGY 1 cut(s) 393
BssECI CCNNGG 3 cut(s) 261, 454, 461
BssMI GATC 3 cut(s) 163, 465, 661
BssSI CACGAG 1 cut(s) 486
BssT1I CCWWGG 2 cut(s) 261, 454
Bst2BI CACGAG 1 cut(s) 486
Bst2UI CCWGG 2 cut(s) 185, 463
Bst4CI ACNGT 3 cut(s) 194, 736, 844
Bst6I CTCTTC 1 cut(s) 347
BstC8I GCNNGC 6 cut(s) 251, 308, 395, 654, 679, 713
BstDEI CTNAG 3 cut(s) 140, 209, 834
BstF5I GGATG 2 cut(s) 793, 856
BstH2I RGCGCY 1 cut(s) 394
BstHHI GCGC 2 cut(s) 393, 918
BstKTI GATC 3 cut(s) 166, 468, 664
BstMAI GTCTC 1 cut(s) 377
BstMBI GATC 3 cut(s) 163, 465, 661
BstMWI GCNNNNNNNGC 3 cut(s) 312, 698, 924
BstNI CCWGG 2 cut(s) 185, 463
BstSCI CCNGG 2 cut(s) 183, 461
BstSFI CTRYAG 2 cut(s) 361, 675
BstSLI GKGCMC 1 cut(s) 775
BstV1I GCAGC 8 cut(s) 22, 327, 347, 661, 701, 727, 727, 730
BstX2I RGATCY 1 cut(s) 465
BstYI RGATCY 1 cut(s) 465
BsuRI GGCC 4 cut(s) 266, 523, 820, 886
BtsCI GGATG 2 cut(s) 793, 856
BtsI GCAGTG 1 cut(s) 317
BtsIMutI CAGTG 5 cut(s) 120, 317, 581, 816, 840
Cac8I GCNNGC 6 cut(s) 251, 308, 395, 654, 679, 713
CaiI CAGNNNCTG 1 cut(s) 246
CfoI GCGC 2 cut(s) 393, 918
Cfr10I RCCGGY 1 cut(s) 393
Cfr13I GGNCC 4 cut(s) 48, 265, 458, 818
Csp6I GTAC 1 cut(s) 7
CviAII CATG 4 cut(s) 553, 706, 861, 869
CviQI GTAC 1 cut(s) 7
DdeI CTNAG 3 cut(s) 140, 209, 834
DpnI GATC 3 cut(s) 165, 467, 663
DpnII GATC 3 cut(s) 163, 465, 661
Eam1104I CTCTTC 1 cut(s) 347
EarI CTCTTC 1 cut(s) 347
EciI GGCGGA 2 cut(s) 412, 639
Ecl136II GAGCTC 1 cut(s) 253
Eco130I CCWWGG 2 cut(s) 261, 454
Eco147I AGGCCT 1 cut(s) 886
Eco24I GRGCYC 1 cut(s) 255
Eco47I GGWCC 2 cut(s) 48, 458
Eco53kI GAGCTC 1 cut(s) 253
Eco57I CTGAAG 1 cut(s) 409
EcoICRI GAGCTC 1 cut(s) 253
EcoO109I RGGNCCY 2 cut(s) 265, 458
EcoRII CCWGG 2 cut(s) 183, 461
EcoT14I CCWWGG 2 cut(s) 261, 454
EcoT38I GRGCYC 1 cut(s) 255
ErhI CCWWGG 2 cut(s) 261, 454
Esp3I CGTCTC 1 cut(s) 377
FaeI CATG 4 cut(s) 556, 709, 864, 872
FaiI YATR 7 cut(s) 181, 451, 493, 554, 707, 862, 870
FaqI GGGAC 2 cut(s) 26, 444
FatI CATG 4 cut(s) 552, 705, 860, 868
FbaI TGATCA 1 cut(s) 163
FblI GTMKAC 1 cut(s) 189
FokI GGATG 2 cut(s) 780, 843
FriOI GRGCYC 1 cut(s) 255
FspBI CTAG 1 cut(s) 95
GlaI GCGC 2 cut(s) 392, 917
HaeII RGCGCY 1 cut(s) 394
HaeIII GGCC 4 cut(s) 266, 523, 820, 886
HapII CCGG 3 cut(s) 132, 394, 410
HhaI GCGC 2 cut(s) 393, 918
Hin1II CATG 4 cut(s) 556, 709, 864, 872
Hin6I GCGC 2 cut(s) 391, 916
HinP1I GCGC 2 cut(s) 391, 916
HincII GTYRAC 1 cut(s) 190
HindII GTYRAC 1 cut(s) 190
HinfI GANTC 5 cut(s) 89, 243, 300, 321, 413
HpaII CCGG 3 cut(s) 132, 394, 410
HphI GGTGA 4 cut(s) 173, 361, 741, 838
Hpy166II GTNNAC 3 cut(s) 190, 337, 840
Hpy188III TCNNGA 3 cut(s) 132, 221, 896
Hpy8I GTNNAC 3 cut(s) 190, 337, 840
Hpy99I CGWCG 2 cut(s) 194, 281
HpyAV CCTTC 3 cut(s) 129, 427, 625
HpyCH4III ACNGT 3 cut(s) 194, 736, 844
HpyCH4IV ACGT 2 cut(s) 370, 722
HpyCH4V TGCA 7 cut(s) 198, 315, 363, 472, 497, 652, 677
HpyF10VI GCNNNNNNNGC 3 cut(s) 312, 698, 924
HpyF3I CTNAG 3 cut(s) 140, 209, 834
HpySE526I ACGT 2 cut(s) 370, 722
Hsp92II CATG 4 cut(s) 556, 709, 864, 872
HspAI GCGC 2 cut(s) 391, 916
Kpn2I TCCGGA 1 cut(s) 131
KroI GCCGGC 1 cut(s) 393
KroNI GCCGGC 1 cut(s) 395
Ksp22I TGATCA 1 cut(s) 163
Kzo9I GATC 3 cut(s) 163, 465, 661
LmnI GCTCC 3 cut(s) 73, 258, 542
Lsp1109I GCAGC 8 cut(s) 22, 327, 347, 661, 701, 727, 727, 730
LweI GCATC 1 cut(s) 85
MaeI CTAG 1 cut(s) 95
MaeII ACGT 2 cut(s) 370, 722
MaeIII GTNAC 2 cut(s) 149, 844
MalI GATC 3 cut(s) 165, 467, 663
MboI GATC 3 cut(s) 163, 465, 661
MboII GAAGA 4 cut(s) 364, 430, 433, 773
MflI RGATCY 1 cut(s) 465
MhlI GDGCHC 2 cut(s) 255, 775
MluCI AATT 5 cut(s) 173, 473, 610, 638, 805
MlyI GAGTC 1 cut(s) 252
MmeI TCCRAC 2 cut(s) 752, 821
MreI CGCCGGCG 1 cut(s) 393
MroI TCCGGA 1 cut(s) 131
MroNI GCCGGC 1 cut(s) 393
MroXI GAANNNNTTC 1 cut(s) 299
MseI TTAA 1 cut(s) 528
MslI CAYNNNNRTG 1 cut(s) 490
MspA1I CMGCKG 2 cut(s) 86, 674
MspI CCGG 3 cut(s) 132, 394, 410
MspR9I CCNGG 2 cut(s) 185, 463
MvaI CCWGG 2 cut(s) 185, 463
MwoI GCNNNNNNNGC 3 cut(s) 312, 698, 924
NaeI GCCGGC 1 cut(s) 395
NdeII GATC 3 cut(s) 163, 465, 661
NgoMIV GCCGGC 1 cut(s) 393
NlaIII CATG 4 cut(s) 556, 709, 864, 872
NlaIV GGNNCC 4 cut(s) 49, 267, 460, 467
NmuCI GTSAC 1 cut(s) 844
PceI AGGCCT 1 cut(s) 886
PcsI WCGNNNNNNNCGW 2 cut(s) 24, 285
PdiI GCCGGC 1 cut(s) 395
PdmI GAANNNNTTC 1 cut(s) 299
PfeI GAWTC 4 cut(s) 89, 300, 321, 413
PflMI CCANNNNNTGG 1 cut(s) 331
PleI GAGTC 1 cut(s) 251
PpsI GAGTC 1 cut(s) 251
PpuMI RGGWCCY 1 cut(s) 458
Psp124BI GAGCTC 1 cut(s) 255
Psp5II RGGWCCY 1 cut(s) 458
Psp6I CCWGG 2 cut(s) 183, 461
PspGI CCWGG 2 cut(s) 183, 461
PspN4I GGNNCC 4 cut(s) 49, 267, 460, 467
PspPI GGNCC 4 cut(s) 48, 265, 458, 818
PspPPI RGGWCCY 1 cut(s) 458
PstI CTGCAG 2 cut(s) 365, 679
PstNI CAGNNNCTG 1 cut(s) 246
PsuI RGATCY 1 cut(s) 465
PvuII CAGCTG 1 cut(s) 86
RsaI GTAC 1 cut(s) 8
RsaNI GTAC 1 cut(s) 7
RseI CAYNNNNRTG 1 cut(s) 490
SacI GAGCTC 1 cut(s) 255
SalI GTCGAC 1 cut(s) 188
SaqAI TTAA 1 cut(s) 528
Sau3AI GATC 3 cut(s) 163, 465, 661
Sau96I GGNCC 4 cut(s) 48, 265, 458, 818
ScaI AGTACT 1 cut(s) 8
SchI GAGTC 1 cut(s) 252
ScrFI CCNGG 2 cut(s) 185, 463
SduI GDGCHC 2 cut(s) 255, 775
SfaNI GCATC 1 cut(s) 85
SfcI CTRYAG 2 cut(s) 361, 675
SgrAI CRCCGGYG 1 cut(s) 393
SinI GGWCC 2 cut(s) 48, 458
SmiMI CAYNNNNRTG 1 cut(s) 490
SmlI CTYRAG 1 cut(s) 696
SmoI CTYRAG 1 cut(s) 696
Sse9I AATT 5 cut(s) 173, 473, 610, 638, 805
SseBI AGGCCT 1 cut(s) 886
SsiI CCGC 5 cut(s) 235, 397, 585, 624, 672
SspMI CTAG 1 cut(s) 95
SstI GAGCTC 1 cut(s) 255
StuI AGGCCT 1 cut(s) 886
StyD4I CCNGG 2 cut(s) 183, 461
StyI CCWWGG 2 cut(s) 261, 454
TaaI ACNGT 3 cut(s) 194, 736, 844
TaiI ACGT 2 cut(s) 373, 725
TaqI TCGA 3 cut(s) 18, 79, 189
TasI AATT 5 cut(s) 173, 473, 610, 638, 805
TatI WGTACW 1 cut(s) 6
TauI GCSGC 2 cut(s) 238, 674
TfiI GAWTC 4 cut(s) 89, 300, 321, 413
Tru1I TTAA 1 cut(s) 528
Tru9I TTAA 1 cut(s) 528
TscAI CASTG 5 cut(s) 120, 317, 581, 816, 847
TseFI GTSAC 1 cut(s) 844
TseI GCWGC 8 cut(s) 35, 315, 360, 674, 689, 715, 740, 743
Tsp45I GTSAC 1 cut(s) 844
TspDTI ATGAA 1 cut(s) 694
TspRI CASTG 5 cut(s) 120, 317, 581, 816, 847
Van91I CCANNNNNTGG 1 cut(s) 331
VpaK11BI GGWCC 2 cut(s) 48, 458
XapI RAATTY 2 cut(s) 173, 805
XmiI GTMKAC 1 cut(s) 189
XmnI GAANNNNTTC 1 cut(s) 299
XspI CTAG 1 cut(s) 95
ZrmI AGTACT 1 cut(s) 8
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.