AT5G65685

starch synthase 4, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0011846
Physical Location & Seq
Reverse (-)
26273034 .. 26278112
5079 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G65685.3

Sequence Viewer

Length: 1383 bp
ATGCAAGCAACGGCGAATCTTCCGACGATATGGAATCTGTCGCTTCGTGGGTCATCCTCTAAAGTCCATATAGTGAACCCTAGGCATCGAAAGTCTCACGCGCTTCATTGTTTGAGATCAGAAGGGCATGAAGAGTTTGACAATTCTCAGAAAAGTCTTGGACAATCTTCTATTACAAAAGAAGCAAAACATAAGGACATATGGAACCTCTTTAGAGAAGCTCAAAAAAATATAATGATCTTAAACAAACAACGCCTAGCTGCAGTTGACGAGTTAGAACAGCTAAAGAAAGATAAAGAGGAATTGTTAGAGAGGATAAACCAATTGGAGGCAGAAAGTCAGATTGTAATCAAGAAAGATAAGTCGTCTCTATTCTGGGAGTTGCTTCTCCGTATTGATTCTATGGTTATCAATGGACTAGTTAACATTGAAGAAGCTTCATCCATGAGAAAGCTGGTTAAAGAGCATGAAGCGAACATCTCTGTATTTCCTCTTGATGTCCTGCAACAAGGAGATGCCGAAATTCTAGCAGAACTTAGACGGTTCACAAATAAAGGCAAAAGGAATGGTCTCCATGTGATTCATATTTGCACCGAAATGGCTCCATTAGTTTCTGTTGGACCTTTGGCCTCATATATAACAGGATTGTCTTGTGCACTCCAAGAAGAGGGTTACATGGTTGAAGTTATATTGCCAAAATATTCTACACTTGATTTGGACGAAATTGAAGGGCTTCGTGAAATCGAAGCCGATGCATATTCTTATTTTGATGGCCAGCTGCATGCAAACCGAATATGGAACGGAGTTGTCTCTGGAATAGGAGTGACACTTATTCAACCAGTGTATTACTCGTCAATGTTTAGCCGTGATAAAGTATACGGGTATCAGGACGATTTTGATAGATTTGCATACTTCTCTCGTGCTTCATTGGATTACATTGCAAAATCTGGAAAGCAGCCTGATGTTTTACACATTCACAACTGGCAAACTGCAATAGTTGGACCGTTGTTTTGGGATGTTTTTGTTAATCAGGGACTTGAAGGTACTAGAATACTCTTGACATGCCAAGACTTTGACAAGGGTCTTGTACCTCCTGAAAAATTGGAGCTATGTGGGCTCGATCCAGCTGAACTTCACCGTCTTGATCGCTTACAAGATAACACAAATCCACATTTTGTTAATATTTTGAAGGGCGGTGTTGTCTACTCCAACAAAGTTGTAATAATGTCATCCTCACATAGCTCAATCCCTGGTCTCGAACCAACTTTAGCTATCCACAAGGACAAGTTGTTTTTTGCTCCCTTTGGAATGGACAACTCAATGGAGAAAGACTTGTGTTGTGACCTTCACGTCTCTGCATATACTTCCATTAAGAACCTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00500 ko01100 ko01110 ko02026 map00500 map01100 map01110 map02026
Pfam Domains
Protein Families
Glyco_transf_5

Protein Analysis

460

Amino Acids

52.06

Weight (kDa)

5.88

Isoelectric Point (pI)

49.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_transf_5 PF08323 114 - 335 1.8e-34 Starch synthase catalytic domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1349
AccI GTMKAC 2 cut(s) 876, 1203
AccII CGCG 1 cut(s) 101
AciI CCGC 1 cut(s) 1194
AclWI GGATC 1 cut(s) 1115
AcoI YGGCCR 1 cut(s) 772
AcsI RAATTY 1 cut(s) 522
AfaI GTAC 2 cut(s) 1045, 1089
AfiI CCNNNNNNNGG 2 cut(s) 328, 667
AgsI TTSAA 6 cut(s) 431, 683, 728, 836, 1040, 1189
AhlI ACTAGT 1 cut(s) 418
AjiI CACGTC 1 cut(s) 1351
AjnI CCWGG 1 cut(s) 1249
Alw21I GWGCWC 1 cut(s) 658
Alw26I GTCTC 6 cut(s) 99, 372, 575, 814, 1259, 1357
Alw44I GTGCAC 1 cut(s) 654
AlwI GGATC 1 cut(s) 1115
AoxI GGCC 2 cut(s) 627, 772
ApaLI GTGCAC 1 cut(s) 654
ApeKI GCWGC 3 cut(s) 260, 778, 955
ApoI RAATTY 1 cut(s) 522
ArsI GACNNNNNNTTYG 2 cut(s) 993, 1025
Asp700I GAANNNNTTC 1 cut(s) 732
AspA2I CCTAGG 1 cut(s) 80
AspLEI GCGC 1 cut(s) 103
AspS9I GGNCC 2 cut(s) 620, 1001
AsuHPI GGTGA 1 cut(s) 1127
AvaII GGWCC 2 cut(s) 620, 1001
AvrII CCTAGG 1 cut(s) 80
BaeGI GKGCMC 1 cut(s) 658
BalI TGGCCA 1 cut(s) 774
BanII GRGCYC 1 cut(s) 1119
BauI CACGAG 1 cut(s) 918
Bbv12I GWGCWC 1 cut(s) 658
BbvI GCAGC 3 cut(s) 247, 765, 967
BccI CCATC 1 cut(s) 764
BceAI ACGGC 2 cut(s) 27, 849
BcgI CGANNNNNNTGC 2 cut(s) 734, 768
BciT130I CCWGG 1 cut(s) 1251
BcoDI GTCTC 6 cut(s) 99, 372, 575, 814, 1259, 1357
BcuI ACTAGT 1 cut(s) 418
BfaI CTAG 5 cut(s) 81, 257, 419, 527, 1047
BfmI CTRYAG 1 cut(s) 261
BisI GCNGC 3 cut(s) 261, 779, 956
BlnI CCTAGG 1 cut(s) 80
BlsI GCNGC 3 cut(s) 262, 780, 957
Bme1390I CCNGG 1 cut(s) 1251
Bme18I GGWCC 2 cut(s) 620, 1001
BmgBI CACGTC 1 cut(s) 1351
BmgT120I GGNCC 2 cut(s) 620, 1001
BmiI GGNNCC 2 cut(s) 206, 603
BmrFI CCNGG 1 cut(s) 1251
BmsI GCATC 3 cut(s) 94, 505, 742
BoxI GACNNNNGTC 1 cut(s) 1080
BsaBI GATNNNNATC 1 cut(s) 347
BsaI GGTCTC 2 cut(s) 575, 1259
BsaJI CCNNGG 2 cut(s) 80, 1249
Bsc4I CCNNNNNNNGG 2 cut(s) 328, 667
Bse1I ACTGG 2 cut(s) 839, 986
Bse3DI GCAATG 1 cut(s) 936
Bse8I GATNNNNATC 1 cut(s) 347
BseBI CCWGG 1 cut(s) 1251
BseDI CCNNGG 2 cut(s) 80, 1249
BseGI GGATG 4 cut(s) 53, 440, 1021, 1229
BseJI GATNNNNATC 1 cut(s) 347
BseLI CCNNNNNNNGG 2 cut(s) 328, 667
BseMI GCAATG 1 cut(s) 936
BseMII CTCAG 1 cut(s) 161
BseNI ACTGG 2 cut(s) 839, 986
BseSI GKGCMC 1 cut(s) 658
BseXI GCAGC 3 cut(s) 247, 765, 967
Bsh1236I CGCG 1 cut(s) 101
BshFI GGCC 2 cut(s) 629, 774
BsiHKAI GWGCWC 1 cut(s) 658
BslFI GGGAC 1 cut(s) 1047
BslI CCNNNNNNNGG 2 cut(s) 328, 667
BsmAI GTCTC 6 cut(s) 99, 372, 575, 814, 1259, 1357
BsmBI CGTCTC 2 cut(s) 372, 1357
BsmFI GGGAC 1 cut(s) 1047
BsnI GGCC 2 cut(s) 629, 774
Bso31I GGTCTC 2 cut(s) 575, 1259
Bsp1286I GDGCHC 2 cut(s) 658, 1119
Bsp143I GATC 4 cut(s) 116, 237, 1120, 1144
BspACI CCGC 1 cut(s) 1194
BspANI GGCC 2 cut(s) 629, 774
BspCNI CTCAG 1 cut(s) 160
BspFNI CGCG 1 cut(s) 101
BspLI GGNNCC 2 cut(s) 206, 603
BspMAI CTGCAG 1 cut(s) 265
BspPI GGATC 1 cut(s) 1115
BspTNI GGTCTC 2 cut(s) 575, 1259
BsrDI GCAATG 1 cut(s) 936
BsrI ACTGG 2 cut(s) 839, 986
BssECI CCNNGG 2 cut(s) 80, 1249
BssMI GATC 4 cut(s) 116, 237, 1120, 1144
BssNAI GTATAC 1 cut(s) 877
BssSI CACGAG 1 cut(s) 918
BssT1I CCWWGG 1 cut(s) 80
Bst1107I GTATAC 1 cut(s) 877
Bst2BI CACGAG 1 cut(s) 918
Bst2UI CCWGG 1 cut(s) 1251
Bst4CI ACNGT 3 cut(s) 543, 1005, 1139
Bst6I CTCTTC 2 cut(s) 126, 660
BstC8I GCNNGC 3 cut(s) 6, 776, 783
BstDEI CTNAG 2 cut(s) 147, 536
BstF5I GGATG 4 cut(s) 53, 440, 1021, 1229
BstFNI CGCG 1 cut(s) 101
BstHHI GCGC 1 cut(s) 103
BstKTI GATC 4 cut(s) 119, 240, 1123, 1147
BstMAI GTCTC 6 cut(s) 99, 372, 575, 814, 1259, 1357
BstMBI GATC 4 cut(s) 116, 237, 1120, 1144
BstMWI GCNNNNNNNGC 1 cut(s) 1114
BstNI CCWGG 1 cut(s) 1251
BstNSI RCATGY 2 cut(s) 785, 1065
BstPAI GACNNNNGTC 1 cut(s) 1080
BstSCI CCNGG 1 cut(s) 1249
BstSFI CTRYAG 1 cut(s) 261
BstSLI GKGCMC 1 cut(s) 658
BstUI CGCG 1 cut(s) 101
BstV1I GCAGC 3 cut(s) 247, 765, 967
BstZ17I GTATAC 1 cut(s) 877
BsuRI GGCC 2 cut(s) 629, 774
BtrI CACGTC 1 cut(s) 1351
BtsCI GGATG 4 cut(s) 53, 440, 1021, 1229
BtsIMutI CAGTG 1 cut(s) 846
Cac8I GCNNGC 3 cut(s) 6, 776, 783
CfoI GCGC 1 cut(s) 103
Cfr13I GGNCC 2 cut(s) 620, 1001
Csp6I GTAC 2 cut(s) 1044, 1088
CviAII CATG 7 cut(s) 128, 445, 467, 575, 676, 782, 1062
CviQI GTAC 2 cut(s) 1044, 1088
DdeI CTNAG 2 cut(s) 147, 536
DpnI GATC 4 cut(s) 118, 239, 1122, 1146
DpnII GATC 4 cut(s) 116, 237, 1120, 1144
DrdI GACNNNNNNGTC 1 cut(s) 1349
DseDI GACNNNNNNGTC 1 cut(s) 1349
EaeI YGGCCR 1 cut(s) 772
Eam1104I CTCTTC 2 cut(s) 126, 660
EarI CTCTTC 2 cut(s) 126, 660
Eco130I CCWWGG 1 cut(s) 80
Eco24I GRGCYC 1 cut(s) 1119
Eco31I GGTCTC 2 cut(s) 575, 1259
Eco47I GGWCC 2 cut(s) 620, 1001
EcoRII CCWGG 1 cut(s) 1249
EcoT14I CCWWGG 1 cut(s) 80
EcoT22I ATGCAT 1 cut(s) 757
EcoT38I GRGCYC 1 cut(s) 1119
ErhI CCWWGG 1 cut(s) 80
Esp3I CGTCTC 2 cut(s) 372, 1357
FaeI CATG 7 cut(s) 131, 448, 470, 578, 679, 785, 1065
FaqI GGGAC 1 cut(s) 1047
FatI CATG 7 cut(s) 127, 444, 466, 574, 675, 781, 1061
FauNDI CATATG 1 cut(s) 200
FblI GTMKAC 2 cut(s) 876, 1203
Fnu4HI GCNGC 3 cut(s) 261, 779, 956
FokI GGATG 4 cut(s) 40, 427, 1028, 1216
FriOI GRGCYC 1 cut(s) 1119
Fsp4HI GCNGC 3 cut(s) 261, 779, 956
FspBI CTAG 5 cut(s) 81, 257, 419, 527, 1047
GlaI GCGC 1 cut(s) 102
GluI GCNGC 3 cut(s) 261, 779, 956
HaeIII GGCC 2 cut(s) 629, 774
HhaI GCGC 1 cut(s) 103
Hin1II CATG 7 cut(s) 131, 448, 470, 578, 679, 785, 1065
Hin6I GCGC 1 cut(s) 101
HinP1I GCGC 1 cut(s) 101
HincII GTYRAC 2 cut(s) 268, 424
HindII GTYRAC 2 cut(s) 268, 424
HindIII AAGCTT 1 cut(s) 435
HinfI GANTC 4 cut(s) 16, 34, 398, 580
HpaI GTTAAC 1 cut(s) 424
HphI GGTGA 1 cut(s) 1127
Hpy166II GTNNAC 7 cut(s) 76, 268, 424, 546, 656, 877, 1204
Hpy188I TCNGA 4 cut(s) 24, 121, 150, 342
Hpy8I GTNNAC 7 cut(s) 76, 268, 424, 546, 656, 877, 1204
Hpy99I CGWCG 1 cut(s) 28
HpyAV CCTTC 5 cut(s) 116, 722, 1034, 1183, 1355
HpyCH4III ACNGT 3 cut(s) 543, 1005, 1139
HpyCH4IV ACGT 1 cut(s) 1350
HpyF10VI GCNNNNNNNGC 1 cut(s) 1114
HpyF3I CTNAG 2 cut(s) 147, 536
HpySE526I ACGT 1 cut(s) 1350
Hsp92II CATG 7 cut(s) 131, 448, 470, 578, 679, 785, 1065
HspAI GCGC 1 cut(s) 101
KspAI GTTAAC 1 cut(s) 424
Kzo9I GATC 4 cut(s) 116, 237, 1120, 1144
LmnI GCTCC 3 cut(s) 607, 1105, 1303
Lsp1109I GCAGC 3 cut(s) 247, 765, 967
LweI GCATC 3 cut(s) 94, 505, 742
MaeI CTAG 5 cut(s) 81, 257, 419, 527, 1047
MaeII ACGT 1 cut(s) 1350
MaeIII GTNAC 3 cut(s) 671, 823, 1340
MalI GATC 4 cut(s) 118, 239, 1122, 1146
MboI GATC 4 cut(s) 116, 237, 1120, 1144
MboII GAAGA 5 cut(s) 11, 143, 159, 443, 677
MfeI CAATTG 1 cut(s) 323
MhlI GDGCHC 2 cut(s) 658, 1119
MlsI TGGCCA 1 cut(s) 774
MluCI AATT 6 cut(s) 142, 302, 323, 522, 723, 1100
MluNI TGGCCA 1 cut(s) 774
MmeI TCCRAC 4 cut(s) 47, 598, 979, 1233
Mox20I TGGCCA 1 cut(s) 774
Mph1103I ATGCAT 1 cut(s) 757
MroXI GAANNNNTTC 1 cut(s) 732
MscI TGGCCA 1 cut(s) 774
MseI TTAA 6 cut(s) 242, 423, 459, 1026, 1179, 1371
MslI CAYNNNNRTG 1 cut(s) 596
Msp20I TGGCCA 1 cut(s) 774
MspA1I CMGCKG 2 cut(s) 778, 1127
MspR9I CCNGG 1 cut(s) 1251
MunI CAATTG 1 cut(s) 323
MvaI CCWGG 1 cut(s) 1251
MvnI CGCG 1 cut(s) 101
MwoI GCNNNNNNNGC 1 cut(s) 1114
NdeI CATATG 1 cut(s) 200
NdeII GATC 4 cut(s) 116, 237, 1120, 1144
NlaIII CATG 7 cut(s) 131, 448, 470, 578, 679, 785, 1065
NlaIV GGNNCC 2 cut(s) 206, 603
NmuCI GTSAC 2 cut(s) 823, 1340
NsiI ATGCAT 1 cut(s) 757
NspI RCATGY 2 cut(s) 785, 1065
PaeI GCATGC 1 cut(s) 785
PdmI GAANNNNTTC 1 cut(s) 732
PfeI GAWTC 4 cut(s) 16, 34, 398, 580
PkrI GCNGC 3 cut(s) 262, 780, 957
PshAI GACNNNNGTC 1 cut(s) 1080
Psp6I CCWGG 1 cut(s) 1249
PspGI CCWGG 1 cut(s) 1249
PspN4I GGNNCC 2 cut(s) 206, 603
PspPI GGNCC 2 cut(s) 620, 1001
PstI CTGCAG 1 cut(s) 265
PvuII CAGCTG 2 cut(s) 778, 1127
RsaI GTAC 2 cut(s) 1045, 1089
RsaNI GTAC 2 cut(s) 1044, 1088
RseI CAYNNNNRTG 1 cut(s) 596
SaqAI TTAA 6 cut(s) 242, 423, 459, 1026, 1179, 1371
SatI GCNGC 3 cut(s) 261, 779, 956
Sau3AI GATC 4 cut(s) 116, 237, 1120, 1144
Sau96I GGNCC 2 cut(s) 620, 1001
ScrFI CCNGG 1 cut(s) 1251
SduI GDGCHC 2 cut(s) 658, 1119
SfaNI GCATC 3 cut(s) 94, 505, 742
SfcI CTRYAG 1 cut(s) 261
SinI GGWCC 2 cut(s) 620, 1001
SmiMI CAYNNNNRTG 1 cut(s) 596
SpeI ACTAGT 1 cut(s) 418
SphI GCATGC 1 cut(s) 785
Sse9I AATT 6 cut(s) 142, 302, 323, 522, 723, 1100
SsiI CCGC 1 cut(s) 1194
SspI AATATT 2 cut(s) 701, 1183
SspMI CTAG 5 cut(s) 81, 257, 419, 527, 1047
StyD4I CCNGG 1 cut(s) 1249
StyI CCWWGG 1 cut(s) 80
TaaI ACNGT 3 cut(s) 543, 1005, 1139
TaiI ACGT 1 cut(s) 1353
TaqI TCGA 4 cut(s) 88, 744, 1119, 1257
TasI AATT 6 cut(s) 142, 302, 323, 522, 723, 1100
TfiI GAWTC 4 cut(s) 16, 34, 398, 580
Tru1I TTAA 6 cut(s) 242, 423, 459, 1026, 1179, 1371
Tru9I TTAA 6 cut(s) 242, 423, 459, 1026, 1179, 1371
TscAI CASTG 1 cut(s) 846
TseFI GTSAC 2 cut(s) 823, 1340
TseI GCWGC 3 cut(s) 260, 778, 955
Tsp45I GTSAC 2 cut(s) 823, 1340
TspDTI ATGAA 6 cut(s) 95, 144, 429, 483, 572, 915
TspGWI ACGGA 2 cut(s) 380, 816
TspRI CASTG 1 cut(s) 846
VneI GTGCAC 1 cut(s) 654
VpaK11BI GGWCC 2 cut(s) 620, 1001
XapI RAATTY 1 cut(s) 522
XceI RCATGY 2 cut(s) 785, 1065
XcmI CCANNNNNNNNNTGG 1 cut(s) 451
XmaJI CCTAGG 1 cut(s) 80
XmiI GTMKAC 2 cut(s) 876, 1203
XmnI GAANNNNTTC 1 cut(s) 732
XspI CTAG 5 cut(s) 81, 257, 419, 527, 1047
Zsp2I ATGCAT 1 cut(s) 757
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.