MD17G1001400.v1.1

Squamosa promoter-binding-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr17
OG0014782
Physical Location & Seq
Reverse (-)
83541 .. 86115
2575 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1001400.v1.1.491

Sequence Viewer

Length: 1008 bp
ATGGAGTGGGACTTCAAGGACAGCGACCTTGATGCTCTGGTGGGGTCCAGCATCTCACAACCCCAGATGAAGAATCGACCAGCTGAATCTCTAGGATTGGAATTCAAGAAATTGCAGGAGGATTCAATAAAGCTCTCATCGTCGAGAAGGATTAATGGCAGTAAGAATGGAAGTGATCATCTGAAAGTTCTATGCTTGGTCGACGATTGCAGGGCGGACCTCAGCCGTTGTCGGGAATATCATCGGCGGCACAGAGTCTGCGAGCTCCACTCCAAGACCCCTGTTGTCGTCGTAAAGGGAGAACAGAAACGATTCTGCCAGCAGTGCAGCAGAGTCCATTCTCTGGTGGAGTTTGACGATGGGAAGAAGAGCTGCAGAAAACGTCTCAATGGACACAACCAGCGCCGGCGGAAACCTAAACCGGAATCCTTCTATTTCAGTTCCCACAACTTCTTCCCCACCTACAAGGGTACGAGAATCCTGCAATTTAGTAATCCACAAGTATGTGCAACAACTAATTTGAGATGTATGTGGCCTGTGGAGGATAAAAAAGGAGCAGAATCCATGCATTCCAACCGCCACCACCAGTGGCTGCGTGCTACTGACGAGCCAAAGCCTCCCAATTCCTTCAACGGAGCAGGACACGAACCTTTTATTTTCTTGCAAGCAAGTGACCCTAAAGCCGCTGCAGGCAACCGAGCAGCCCCTCAAGCTTTCACGTGCCAGCAGCAGCCGCTTCCAATAACTGCTGCTGCTGGCTCGCCAAAAAGCACAAGGGGTTGTGCTCTCTATCTTCTGTCATCACATCCAACACAAAATCCAGTTACTGGCCTAAACCACTTGGCTCGGTCCACTGTCACCACTACTCATCCAGGTCAGATCCTCGACCCGATACTTCAGATGAACCGCGGTTTCTCTGAATTCTCATGCTCACATGATGAGGAGGACCGGACTGTAATTCCAGAAATGATGTTTCTTCCGGGGCCTGATGGCTTTTCGAACAACTGA
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

336

Amino Acids

37.76

Weight (kDa)

9.14

Isoelectric Point (pI)

50.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SBP PF03110 65 - 138 1.9e-29 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 2 cut(s) 343, 827
AccI GTMKAC 1 cut(s) 201
AccII CGCG 1 cut(s) 909
AciI CCGC 8 cut(s) 215, 247, 409, 577, 684, 734, 907, 909
AclWI GGATC 1 cut(s) 874
AcsI RAATTY 2 cut(s) 101, 920
AcuI CTGAAG 1 cut(s) 881
AcvI CACGTG 1 cut(s) 720
AfaI GTAC 1 cut(s) 472
AfiI CCNNNNNNNGG 3 cut(s) 232, 343, 827
AgsI TTSAA 4 cut(s) 16, 106, 126, 631
AjnI CCWGG 1 cut(s) 871
AluBI AGCT 5 cut(s) 83, 133, 265, 372, 713
AluI AGCT 5 cut(s) 83, 133, 265, 372, 713
Alw21I GWGCWC 2 cut(s) 267, 787
Alw26I GTCTC 1 cut(s) 389
AlwI GGATC 1 cut(s) 874
AlwNI CAGNNNCTG 3 cut(s) 258, 592, 827
AoxI GGCC 3 cut(s) 533, 829, 983
ApeKI GCWGC 9 cut(s) 327, 372, 592, 686, 701, 727, 730, 749, 752
ApoI RAATTY 2 cut(s) 101, 920
AseI ATTAAT 1 cut(s) 153
Asp700I GAANNNNTTC 1 cut(s) 311
AspLEI GCGC 1 cut(s) 405
AspS9I GGNCC 5 cut(s) 45, 217, 849, 946, 983
AsuC2I CCSGG 1 cut(s) 981
AsuHPI GGTGA 1 cut(s) 850
AsuII TTCGAA 1 cut(s) 998
AvaII GGWCC 4 cut(s) 45, 217, 849, 946
BanII GRGCYC 1 cut(s) 267
BbrPI CACGTG 1 cut(s) 720
Bbv12I GWGCWC 2 cut(s) 267, 787
BbvCI CCTCAGC 1 cut(s) 221
BbvI GCAGC 9 cut(s) 339, 359, 579, 673, 713, 736, 739, 739, 742
BccI CCATC 2 cut(s) 353, 983
BceAI ACGGC 1 cut(s) 210
BcgI CGANNNNNNTGC 4 cut(s) 14, 48, 463, 497
BciT130I CCWGG 1 cut(s) 873
BclI TGATCA 1 cut(s) 175
BcnI CCSGG 1 cut(s) 981
BcoDI GTCTC 1 cut(s) 389
BfaI CTAG 1 cut(s) 92
BfmI CTRYAG 2 cut(s) 373, 687
BfoI RGCGCY 1 cut(s) 406
Bme1390I CCNGG 2 cut(s) 873, 981
Bme18I GGWCC 4 cut(s) 45, 217, 849, 946
BmgT120I GGNCC 5 cut(s) 45, 217, 849, 946, 983
BmiI GGNNCC 2 cut(s) 46, 984
BmrFI CCNGG 2 cut(s) 873, 981
BmsI GCATC 2 cut(s) 22, 60
BplI GAGNNNNNCTC 2 cut(s) 254, 286
Bpu10I CCTNAGC 1 cut(s) 221
Bpu14I TTCGAA 1 cut(s) 998
BpuEI CTTGAG 1 cut(s) 693
BpuMI CCSGG 1 cut(s) 981
BsaAI YACGTR 1 cut(s) 720
BsaJI CCNNGG 2 cut(s) 907, 980
BsaWI WCCGGW 2 cut(s) 421, 948
Bsc4I CCNNNNNNNGG 3 cut(s) 232, 343, 827
Bse118I RCCGGY 1 cut(s) 405
Bse1I ACTGG 3 cut(s) 586, 821, 832
BseBI CCWGG 1 cut(s) 873
BseDI CCNNGG 2 cut(s) 907, 980
BseGI GGATG 2 cut(s) 805, 868
BseLI CCNNNNNNNGG 3 cut(s) 232, 343, 827
BseMII CTCAG 1 cut(s) 235
BseNI ACTGG 3 cut(s) 586, 821, 832
BseRI GAGGAG 1 cut(s) 956
BseXI GCAGC 9 cut(s) 339, 359, 579, 673, 713, 736, 739, 739, 742
BsgI GTGCAG 1 cut(s) 346
Bsh1236I CGCG 1 cut(s) 909
BshFI GGCC 3 cut(s) 535, 831, 985
BsiHKAI GWGCWC 2 cut(s) 267, 787
BsiSI CCGG 4 cut(s) 406, 422, 949, 980
BslFI GGGAC 1 cut(s) 23
BslI CCNNNNNNNGG 3 cut(s) 232, 343, 827
BsmAI GTCTC 1 cut(s) 389
BsmBI CGTCTC 1 cut(s) 389
BsmFI GGGAC 1 cut(s) 23
BsmI GAATGC 1 cut(s) 568
BsnI GGCC 3 cut(s) 535, 831, 985
Bsp119I TTCGAA 1 cut(s) 998
Bsp1286I GDGCHC 2 cut(s) 267, 787
Bsp143I GATC 2 cut(s) 175, 879
BspACI CCGC 8 cut(s) 215, 247, 409, 577, 684, 734, 907, 909
BspANI GGCC 3 cut(s) 535, 831, 985
BspCNI CTCAG 1 cut(s) 234
BspFNI CGCG 1 cut(s) 909
BspLI GGNNCC 2 cut(s) 46, 984
BspMAI CTGCAG 2 cut(s) 377, 691
BspPI GGATC 1 cut(s) 874
BspQI GCTCTTC 1 cut(s) 362
BspT104I TTCGAA 1 cut(s) 998
BsrFI RCCGGY 1 cut(s) 405
BsrI ACTGG 3 cut(s) 586, 821, 832
BssAI RCCGGY 1 cut(s) 405
BssECI CCNNGG 2 cut(s) 907, 980
BssMI GATC 2 cut(s) 175, 879
Bst2UI CCWGG 1 cut(s) 873
Bst4CI ACNGT 2 cut(s) 856, 955
Bst6I CTCTTC 1 cut(s) 362
BstBAI YACGTR 1 cut(s) 720
BstBI TTCGAA 1 cut(s) 998
BstC8I GCNNGC 9 cut(s) 263, 320, 407, 597, 666, 691, 725, 757, 761
BstDEI CTNAG 1 cut(s) 221
BstDSI CCRYGG 1 cut(s) 907
BstF5I GGATG 2 cut(s) 805, 868
BstFNI CGCG 1 cut(s) 909
BstH2I RGCGCY 1 cut(s) 406
BstHHI GCGC 1 cut(s) 405
BstKTI GATC 2 cut(s) 178, 882
BstMAI GTCTC 1 cut(s) 389
BstMBI GATC 2 cut(s) 175, 879
BstMWI GCNNNNNNNGC 3 cut(s) 324, 710, 733
BstNI CCWGG 1 cut(s) 873
BstSCI CCNGG 2 cut(s) 871, 979
BstSFI CTRYAG 2 cut(s) 373, 687
BstUI CGCG 1 cut(s) 909
BstV1I GCAGC 9 cut(s) 339, 359, 579, 673, 713, 736, 739, 739, 742
BstX2I RGATCY 1 cut(s) 879
BstYI RGATCY 1 cut(s) 879
BsuRI GGCC 3 cut(s) 535, 831, 985
BtgI CCRYGG 1 cut(s) 907
BtsCI GGATG 2 cut(s) 805, 868
BtsI GCAGTG 1 cut(s) 329
BtsIMutI CAGTG 3 cut(s) 329, 593, 852
Cac8I GCNNGC 9 cut(s) 263, 320, 407, 597, 666, 691, 725, 757, 761
CaiI CAGNNNCTG 3 cut(s) 258, 592, 827
CfoI GCGC 1 cut(s) 405
Cfr10I RCCGGY 1 cut(s) 405
Cfr13I GGNCC 5 cut(s) 45, 217, 849, 946, 983
Cfr42I CCGCGG 1 cut(s) 910
Csp6I GTAC 1 cut(s) 471
CviAII CATG 3 cut(s) 565, 927, 935
CviQI GTAC 1 cut(s) 471
DdeI CTNAG 1 cut(s) 221
DpnI GATC 2 cut(s) 177, 881
DpnII GATC 2 cut(s) 175, 879
Eam1104I CTCTTC 1 cut(s) 362
EarI CTCTTC 1 cut(s) 362
EciI GGCGGA 2 cut(s) 230, 424
Ecl136II GAGCTC 1 cut(s) 265
Eco24I GRGCYC 1 cut(s) 267
Eco47I GGWCC 4 cut(s) 45, 217, 849, 946
Eco53kI GAGCTC 1 cut(s) 265
Eco57I CTGAAG 1 cut(s) 881
Eco72I CACGTG 1 cut(s) 720
EcoICRI GAGCTC 1 cut(s) 265
EcoO109I RGGNCCY 1 cut(s) 983
EcoRI GAATTC 2 cut(s) 101, 920
EcoRII CCWGG 1 cut(s) 871
EcoT22I ATGCAT 1 cut(s) 570
EcoT38I GRGCYC 1 cut(s) 267
Esp3I CGTCTC 1 cut(s) 389
FaeI CATG 3 cut(s) 568, 930, 938
FaiI YATR 6 cut(s) 193, 505, 530, 566, 928, 936
FaqI GGGAC 1 cut(s) 23
FatI CATG 3 cut(s) 564, 926, 934
FbaI TGATCA 1 cut(s) 175
FblI GTMKAC 1 cut(s) 201
FokI GGATG 2 cut(s) 792, 855
FriOI GRGCYC 1 cut(s) 267
FspBI CTAG 1 cut(s) 92
GlaI GCGC 1 cut(s) 404
HaeII RGCGCY 1 cut(s) 406
HaeIII GGCC 3 cut(s) 535, 831, 985
HapII CCGG 4 cut(s) 406, 422, 949, 980
HhaI GCGC 1 cut(s) 405
Hin1II CATG 3 cut(s) 568, 930, 938
Hin6I GCGC 1 cut(s) 403
HinP1I GCGC 1 cut(s) 403
HincII GTYRAC 1 cut(s) 202
HindII GTYRAC 1 cut(s) 202
HindIII AAGCTT 1 cut(s) 711
HinfI GANTC 9 cut(s) 73, 86, 122, 255, 312, 333, 425, 477, 560
HpaII CCGG 4 cut(s) 406, 422, 949, 980
HphI GGTGA 1 cut(s) 850
Hpy166II GTNNAC 2 cut(s) 202, 852
Hpy188I TCNGA 4 cut(s) 183, 879, 900, 919
Hpy188III TCNNGA 4 cut(s) 106, 144, 233, 962
Hpy8I GTNNAC 2 cut(s) 202, 852
Hpy99I CGWCG 3 cut(s) 145, 206, 293
HpyAV CCTTC 3 cut(s) 141, 439, 637
HpyCH4III ACNGT 2 cut(s) 856, 955
HpyCH4IV ACGT 2 cut(s) 382, 719
HpyCH4V TGCA 9 cut(s) 115, 210, 327, 375, 484, 509, 568, 664, 689
HpyF10VI GCNNNNNNNGC 3 cut(s) 324, 710, 733
HpyF3I CTNAG 1 cut(s) 221
HpySE526I ACGT 2 cut(s) 382, 719
Hsp92II CATG 3 cut(s) 568, 930, 938
HspAI GCGC 1 cut(s) 403
KroI GCCGGC 1 cut(s) 405
KroNI GCCGGC 1 cut(s) 407
Ksp22I TGATCA 1 cut(s) 175
KspI CCGCGG 1 cut(s) 910
Kzo9I GATC 2 cut(s) 175, 879
LguI GCTCTTC 1 cut(s) 362
LmnI GCTCC 3 cut(s) 270, 554, 635
Lsp1109I GCAGC 9 cut(s) 339, 359, 579, 673, 713, 736, 739, 739, 742
LweI GCATC 2 cut(s) 22, 60
MaeI CTAG 1 cut(s) 92
MaeII ACGT 2 cut(s) 382, 719
MaeIII GTNAC 3 cut(s) 671, 823, 856
MalI GATC 2 cut(s) 177, 881
MboI GATC 2 cut(s) 175, 879
MboII GAAGA 6 cut(s) 82, 376, 379, 445, 785, 968
MflI RGATCY 1 cut(s) 879
MhlI GDGCHC 2 cut(s) 267, 787
MluCI AATT 7 cut(s) 101, 110, 485, 517, 622, 920, 957
MlyI GAGTC 2 cut(s) 264, 342
MmeI TCCRAC 2 cut(s) 597, 833
MnlI CCTC 8 cut(s) 112, 230, 535, 627, 717, 893, 934, 937
Mph1103I ATGCAT 1 cut(s) 570
MreI CGCCGGCG 1 cut(s) 405
MroNI GCCGGC 1 cut(s) 405
MroXI GAANNNNTTC 1 cut(s) 311
MseI TTAA 1 cut(s) 153
MslI CAYNNNNRTG 1 cut(s) 502
MspA1I CMGCKG 3 cut(s) 83, 686, 909
MspI CCGG 4 cut(s) 406, 422, 949, 980
MspR9I CCNGG 2 cut(s) 873, 981
Mva1269I GAATGC 1 cut(s) 568
MvaI CCWGG 1 cut(s) 873
MvnI CGCG 1 cut(s) 909
MwoI GCNNNNNNNGC 3 cut(s) 324, 710, 733
NaeI GCCGGC 1 cut(s) 407
NciI CCSGG 1 cut(s) 981
NdeII GATC 2 cut(s) 175, 879
NgoMIV GCCGGC 1 cut(s) 405
NlaIII CATG 3 cut(s) 568, 930, 938
NlaIV GGNNCC 2 cut(s) 46, 984
NmuCI GTSAC 2 cut(s) 671, 856
NsiI ATGCAT 1 cut(s) 570
NspV TTCGAA 1 cut(s) 998
PciSI GCTCTTC 1 cut(s) 362
PctI GAATGC 1 cut(s) 568
PdiI GCCGGC 1 cut(s) 407
PdmI GAANNNNTTC 1 cut(s) 311
PfeI GAWTC 7 cut(s) 73, 86, 122, 312, 425, 477, 560
PflMI CCANNNNNTGG 2 cut(s) 343, 827
PleI GAGTC 2 cut(s) 263, 341
PmaCI CACGTG 1 cut(s) 720
PmlI CACGTG 1 cut(s) 720
PpsI GAGTC 2 cut(s) 263, 341
Ppu21I YACGTR 1 cut(s) 720
PshBI ATTAAT 1 cut(s) 153
Psp124BI GAGCTC 1 cut(s) 267
Psp6I CCWGG 1 cut(s) 871
PspCI CACGTG 1 cut(s) 720
PspGI CCWGG 1 cut(s) 871
PspN4I GGNNCC 2 cut(s) 46, 984
PspPI GGNCC 5 cut(s) 45, 217, 849, 946, 983
PstI CTGCAG 2 cut(s) 377, 691
PstNI CAGNNNCTG 3 cut(s) 258, 592, 827
PsuI RGATCY 1 cut(s) 879
PvuII CAGCTG 1 cut(s) 83
RsaI GTAC 1 cut(s) 472
RsaNI GTAC 1 cut(s) 471
RseI CAYNNNNRTG 1 cut(s) 502
SacI GAGCTC 1 cut(s) 267
SacII CCGCGG 1 cut(s) 910
SalI GTCGAC 1 cut(s) 200
SapI GCTCTTC 1 cut(s) 362
SaqAI TTAA 1 cut(s) 153
Sau3AI GATC 2 cut(s) 175, 879
Sau96I GGNCC 5 cut(s) 45, 217, 849, 946, 983
SchI GAGTC 2 cut(s) 264, 342
ScrFI CCNGG 2 cut(s) 873, 981
SduI GDGCHC 2 cut(s) 267, 787
SfaNI GCATC 2 cut(s) 22, 60
SfcI CTRYAG 2 cut(s) 373, 687
Sfr303I CCGCGG 1 cut(s) 910
SfuI TTCGAA 1 cut(s) 998
SgrAI CRCCGGYG 1 cut(s) 405
SgrBI CCGCGG 1 cut(s) 910
SinI GGWCC 4 cut(s) 45, 217, 849, 946
SmiMI CAYNNNNRTG 1 cut(s) 502
SmlI CTYRAG 1 cut(s) 708
SmoI CTYRAG 1 cut(s) 708
Sse9I AATT 7 cut(s) 101, 110, 485, 517, 622, 920, 957
SsiI CCGC 8 cut(s) 215, 247, 409, 577, 684, 734, 907, 909
SspMI CTAG 1 cut(s) 92
SstI GAGCTC 1 cut(s) 267
StyD4I CCNGG 2 cut(s) 871, 979
TaaI ACNGT 2 cut(s) 856, 955
TaiI ACGT 2 cut(s) 385, 722
TaqI TCGA 5 cut(s) 76, 143, 201, 885, 998
TaqII GACCGA 1 cut(s) 837
TasI AATT 7 cut(s) 101, 110, 485, 517, 622, 920, 957
TauI GCSGC 3 cut(s) 250, 686, 736
TfiI GAWTC 7 cut(s) 73, 86, 122, 312, 425, 477, 560
Tru1I TTAA 1 cut(s) 153
Tru9I TTAA 1 cut(s) 153
TscAI CASTG 3 cut(s) 329, 593, 859
TseFI GTSAC 2 cut(s) 671, 856
TseI GCWGC 9 cut(s) 327, 372, 592, 686, 701, 727, 730, 749, 752
Tsp45I GTSAC 2 cut(s) 671, 856
TspDTI ATGAA 2 cut(s) 83, 917
TspGWI ACGGA 1 cut(s) 648
TspRI CASTG 3 cut(s) 329, 593, 859
Van91I CCANNNNNTGG 2 cut(s) 343, 827
VpaK11BI GGWCC 4 cut(s) 45, 217, 849, 946
VspI ATTAAT 1 cut(s) 153
XapI RAATTY 2 cut(s) 101, 920
XmiI GTMKAC 1 cut(s) 201
XmnI GAANNNNTTC 1 cut(s) 311
XspI CTAG 1 cut(s) 92
Zsp2I ATGCAT 1 cut(s) 570
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.