Rorug06G0370400

Syntaxin 6, N-terminal

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0010278
Physical Location & Seq
Forward (+)
51709115 .. 51711508
2394 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0370400.1

Sequence Viewer

Length: 2307 bp
ATGAAAAATTATAGGTCGGGGACTATGTTTCAGGCAATGAATTTAGGGTCAGTTTCATGTTCTGCTGAGACCACCGAAGTGTACACTCCTCAAGTAGCGGATGAGTTGAAGCCTACAAAAAACCGTCAATTTAGAACACTAGATGAGCTTTTTGAATTTTACAACAAGTATGCTTTTGAAGCTGGGTTTAGTGTTCGGAGAAGTTCTACTGCCAAGAGTAAAGATGGTTCTGAAACTATAAGACAAGAACTTTGTTGTCGCAAAGAAGGGCATTCACAGAAACATACAGCTCTGCCAAAAAAGCGGAAAGGGATCATAAGAACTGGTTGTCTAGCAAAGATTGCAGCTGTGAAGAGATGTGGCATATATGTAATCACTCAATTTACGGAGGCTCATAACCATCCTTTGACAACTCCAGAGAGAGTTCATTTGTTACCATCTCATCGTCAAGTTTCAAATGCTACCAAATGCTTAACCATGGAACTTGGACTGGTAAATATTCCAACCCACCAACAAATCAGTTTGCTTGAAGTTCAATCGGGAGGAATTGAGAATATGGGTTGCATAGGGAAAGATATATACAATTATGAAAGAGATAAGCGAGAAGAGTTGAAAGGACATGATGGAGATATGTTGTATGCTCATTTTTTAGCACAGCGGGAGAAGAATTCATTTTTCAATTTCAAGATAGAGGAAGACAATGAAAATCGAATCAAACATTGTTTTTGGGCAGATGCGACCTCCAGGAGGGCTTATAGTTTCTTTGGGGATGTAGTTATCTTTGATATAACATACAACACTAACAAATATCGGCTGATATTTGCACCACTATTAGGGGTTAACCACCATGGTCAGACCATTATGTTTGGTTGTGCATTCTTAGGTGATGAATCCACAGAGTCGTTTGTTTGGCTACTCAATACTTTCTTAGAAGAAATGCCAGGAGGAAGTCCCCCAAAAATGATAATTACTGATCAAGATCCTGCTATGAAGATTGCCATTTCCCAAGTTTTTCCTAACACATTCCATAGGTATTGCAGTTGGCACATATTAAATAAGTTTTCAGAAAAGATAGGTGCAGTGAAATGTAATGAATATTATGATGACTTTAGAAGTTGTGTGTGGAACTCTGAGATGACAGAAGAATTTGATAAGAAGTGGAAGGAAGTTGTTGAGAAGAGTGGTTTAAGTAACAATGGATGGCTTCAATCAATTTATGACATTCGAGCATCATGGGTGCCTGCATGTTGTAATCACATTTTCTCGGCCGGAATGTCAAGTAGCCAACGTGCTGAAAGTTGTCATTCATTTTTCAAGAAGTATGTTGACCACAAAAATTCATTACTAGACTTTGTGATTCGCTTTAATAGAGGACTTGTACATCAACGTCATCAAGAGTTAGTTTCTACCCATATTGATGCAAATGAAGAGCCTCAGATGAATACCCCTCATCCTATGGAATCTCAATTGTCTAGAATTTATACTCGTGCCTGTTTCCAACAATTTCAAAGTGAGTTCTATATTAGCTTTTTCAATTACAGGTTTCAACTTATGAGAGAGGATGACAATCAAAGATTGTATTTGGTCAAGAAAAGAAGTGATCAGATTCAAAAGGATCGGGAAATTGTTTATGACAAGCATACGGACCTTGCTTCATGTACTTGCAAAAAATTTCAAAGTGAAGGAATCCCCTGTAGGCACATCTTGGGATATTTGCTGAAAGTTCAGGAAGTAGATTACTTGCCTGACCAATATATTTTGAATAGATGGACTAAAGCTGCAAATGCTACTGTAGTTAAGGGCCTTGATGGGTTGGAGATAACAGATATAAATGCATTGGTGGTGAAGCGTAGTAAATTATTTCATCATGCTTCACTTGTTATTGATAAAGTCCTTACAAGTCCTCATGAAGCTCAGACCATGTTTATCGAGGCTCTTGACAATGTTCTTGATAAGCTTAAACAAATGCAAGTCAATAGTAGTGAAAGTGCAAGTATCGGTAAGAAGTTGCCAAGTGATGTTCAACATAGGTATAATGAGCCAAAGATTATCAAAACAAAGGGTTCTGGAAAAAGGCTTAAGAAGTCAAAGGAGAAGACAGAGAGAAAGAGAAGTAGTACAAGGAAATGTCATGGATGTGGTTTGTATGGGCAATTACATGATAAACGGAATTGTCCGGCGCTTAATATGCCTAACGAGAGTTTTGTTCTTGACAAATATGCGGACAAGGATGAAGATGATCACAAGCCAATATCAACTGATGAAGATGAGGACCCCATTTCCTTCGATGAAGATGATGACAATTAA
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
Syntaxin-6_N

Protein Analysis

768

Amino Acids

88.66

Weight (kDa)

7.93

Isoelectric Point (pI)

48.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
FAR1 PF03101 52 - 137 2.3e-17 FAR1 DNA-binding domain
ZSWIM1-3_RNaseH-like PF21056 221 - 341 2.8e-12 Zinc finger SWIM domain-containing protein 1/3, RNaseH-like domain
MULE PF10551 258 - 352 1.1e-28 MULE transposase domain
SWIM PF04434 550 - 571 3.7e-07 SWIM zinc finger
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)
AccB1I GGYRCC 1 cut(s) 1237
AciI CCGC 4 cut(s) 98, 304, 658, 2222
AclWI GGATC 3 cut(s) 320, 974, 1623
AcoI YGGCCR 1 cut(s) 1266
AcsI RAATTY 7 cut(s) 40, 155, 667, 1145, 1336, 1476, 1670
AfaI GTAC 4 cut(s) 83, 1380, 1660, 2119
AfiI CCNNNNNNNGG 2 cut(s) 747, 833
AflII CTTAAG 1 cut(s) 2078
AjnI CCWGG 2 cut(s) 743, 940
AleI CACNNNNGTG 1 cut(s) 77
AluBI AGCT 8 cut(s) 148, 182, 290, 347, 1527, 1778, 1913, 1957
AluI AGCT 8 cut(s) 148, 182, 290, 347, 1527, 1778, 1913, 1957
Alw26I GTCTC 1 cut(s) 62
AlwI GGATC 3 cut(s) 320, 974, 1623
AoxI GGCC 2 cut(s) 1266, 1801
ApeKI GCWGC 2 cut(s) 344, 1778
ApoI RAATTY 7 cut(s) 40, 155, 667, 1145, 1336, 1476, 1670
ArsI GACNNNNNNTTYG 2 cut(s) 234, 266
AspLEI GCGC 1 cut(s) 2182
AspS9I GGNCC 3 cut(s) 1645, 1801, 2272
AsuHPI GGTGA 2 cut(s) 896, 1855
AvaII GGWCC 2 cut(s) 1645, 2272
BanI GGYRCC 1 cut(s) 1237
BauI CACGAG 1 cut(s) 1485
BbsI GAAGAC 2 cut(s) 702, 2102
BbvI GCAGC 2 cut(s) 356, 1765
BccI CCATC 7 cut(s) 218, 408, 445, 617, 1194, 1761, 1802
BciT130I CCWGG 2 cut(s) 745, 942
BclI TGATCA 3 cut(s) 973, 1600, 2239
BcoDI GTCTC 1 cut(s) 62
BfaI CTAG 4 cut(s) 140, 332, 1346, 1473
BfmI CTRYAG 2 cut(s) 1693, 1791
BfoI RGCGCY 1 cut(s) 2183
BfrI CTTAAG 1 cut(s) 2078
BisI GCNGC 2 cut(s) 345, 1779
BlsI GCNGC 2 cut(s) 346, 1780
Bme1390I CCNGG 2 cut(s) 745, 942
Bme18I GGWCC 2 cut(s) 1645, 2272
BmgT120I GGNCC 3 cut(s) 1645, 1801, 2272
BmiI GGNNCC 2 cut(s) 1239, 2274
BmrFI CCNGG 2 cut(s) 745, 942
BmsI GCATC 3 cut(s) 724, 1238, 1408
BpiI GAAGAC 2 cut(s) 702, 2102
BpmI CTGGAG 2 cut(s) 399, 727
BpuEI CTTGAG 1 cut(s) 75
BsaBI GATNNNNATC 2 cut(s) 978, 1566
BsaI GGTCTC 1 cut(s) 62
BsaJI CCNNGG 2 cut(s) 477, 847
Bsc4I CCNNNNNNNGG 2 cut(s) 747, 833
Bse1I ACTGG 2 cut(s) 328, 495
Bse3DI GCAATG 1 cut(s) 42
Bse8I GATNNNNATC 2 cut(s) 978, 1566
BseBI CCWGG 2 cut(s) 745, 942
BseDI CCNNGG 2 cut(s) 477, 847
BseGI GGATG 8 cut(s) 106, 400, 775, 1205, 1450, 1567, 2141, 2236
BseJI GATNNNNATC 2 cut(s) 978, 1566
BseLI CCNNNNNNNGG 2 cut(s) 747, 833
BseMI GCAATG 1 cut(s) 42
BseMII CTCAG 4 cut(s) 57, 1122, 1448, 1928
BseNI ACTGG 2 cut(s) 328, 495
BseRI GAGGAG 1 cut(s) 78
BseX3I CGGCCG 1 cut(s) 1266
BseXI GCAGC 2 cut(s) 356, 1765
BseYI CCCAGC 1 cut(s) 182
BsgI GTGCAG 1 cut(s) 1098
Bsh1285I CGRYCG 1 cut(s) 1269
BshFI GGCC 2 cut(s) 1268, 1803
BshNI GGYRCC 1 cut(s) 1237
BsiEI CGRYCG 1 cut(s) 1269
BsiSI CCGG 2 cut(s) 1269, 2177
BslFI GGGAC 2 cut(s) 34, 936
BslI CCNNNNNNNGG 2 cut(s) 747, 833
BsmAI GTCTC 1 cut(s) 62
BsmFI GGGAC 2 cut(s) 34, 936
BsmI GAATGC 2 cut(s) 271, 875
BsnI GGCC 2 cut(s) 1268, 1803
Bso31I GGTCTC 1 cut(s) 62
Bsp1407I TGTACA 2 cut(s) 81, 1378
Bsp143I GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
Bsp19I CCATGG 2 cut(s) 477, 847
BspACI CCGC 4 cut(s) 98, 304, 658, 2222
BspANI GGCC 2 cut(s) 1268, 1803
BspCNI CTCAG 4 cut(s) 58, 1123, 1447, 1927
BspHI TCATGA 1 cut(s) 1906
BspLI GGNNCC 2 cut(s) 1239, 2274
BspPI GGATC 3 cut(s) 320, 974, 1623
BspQI GCTCTTC 1 cut(s) 1422
BspT107I GGYRCC 1 cut(s) 1237
BspTI CTTAAG 1 cut(s) 2078
BspTNI GGTCTC 1 cut(s) 62
BsrDI GCAATG 1 cut(s) 42
BsrGI TGTACA 2 cut(s) 81, 1378
BsrI ACTGG 2 cut(s) 328, 495
BssECI CCNNGG 2 cut(s) 477, 847
BssMI GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
BssSI CACGAG 1 cut(s) 1485
BssT1I CCWWGG 2 cut(s) 477, 847
Bst2BI CACGAG 1 cut(s) 1485
Bst2UI CCWGG 2 cut(s) 745, 942
Bst4CI ACNGT 2 cut(s) 125, 1792
Bst6I CTCTTC 4 cut(s) 347, 600, 1172, 1422
BstAFI CTTAAG 1 cut(s) 2078
BstAPI GCANNNNNTGC 1 cut(s) 341
BstAUI TGTACA 2 cut(s) 81, 1378
BstC8I GCNNGC 1 cut(s) 1242
BstDEI CTNAG 6 cut(s) 66, 880, 928, 1131, 1434, 1914
BstDSI CCRYGG 2 cut(s) 477, 847
BstENI CCTNNNNNAGG 1 cut(s) 745
BstF5I GGATG 8 cut(s) 106, 400, 775, 1205, 1450, 1567, 2141, 2236
BstH2I RGCGCY 1 cut(s) 2183
BstHHI GCGC 1 cut(s) 2182
BstKTI GATC 6 cut(s) 315, 976, 982, 1603, 1618, 2242
BstMAI GTCTC 1 cut(s) 62
BstMBI GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
BstMCI CGRYCG 1 cut(s) 1269
BstMWI GCNNNNNNNGC 5 cut(s) 179, 301, 341, 1784, 2188
BstNI CCWGG 2 cut(s) 745, 942
BstNSI RCATGY 1 cut(s) 1248
BstSCI CCNGG 2 cut(s) 743, 940
BstSFI CTRYAG 2 cut(s) 1693, 1791
BstV1I GCAGC 2 cut(s) 356, 1765
BstV2I GAAGAC 2 cut(s) 702, 2102
BstX2I RGATCY 1 cut(s) 979
BstYI RGATCY 1 cut(s) 979
BstZI CGGCCG 1 cut(s) 1266
BsuRI GGCC 2 cut(s) 1268, 1803
BtgI CCRYGG 2 cut(s) 477, 847
BtsCI GGATG 8 cut(s) 106, 400, 775, 1205, 1450, 1567, 2141, 2236
BtsI GCAGTG 1 cut(s) 1086
BtsIMutI CAGTG 1 cut(s) 1086
Cac8I GCNNGC 1 cut(s) 1242
CciI TCATGA 1 cut(s) 1906
CfoI GCGC 1 cut(s) 2182
Cfr13I GGNCC 3 cut(s) 1645, 1801, 2272
Csp6I GTAC 4 cut(s) 82, 1379, 1659, 2118
CviQI GTAC 4 cut(s) 82, 1379, 1659, 2118
DdeI CTNAG 6 cut(s) 66, 880, 928, 1131, 1434, 1914
DpnI GATC 6 cut(s) 314, 975, 981, 1602, 1617, 2241
DpnII GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
EaeI YGGCCR 1 cut(s) 1266
EagI CGGCCG 1 cut(s) 1266
Eam1104I CTCTTC 4 cut(s) 347, 600, 1172, 1422
EarI CTCTTC 4 cut(s) 347, 600, 1172, 1422
EclXI CGGCCG 1 cut(s) 1266
Eco130I CCWWGG 2 cut(s) 477, 847
Eco31I GGTCTC 1 cut(s) 62
Eco47I GGWCC 2 cut(s) 1645, 2272
Eco52I CGGCCG 1 cut(s) 1266
EcoNI CCTNNNNNAGG 1 cut(s) 745
EcoO109I RGGNCCY 2 cut(s) 1801, 2272
EcoRI GAATTC 1 cut(s) 667
EcoRII CCWGG 2 cut(s) 743, 940
EcoT14I CCWWGG 2 cut(s) 477, 847
EcoT22I ATGCAT 1 cut(s) 1837
ErhI CCWWGG 2 cut(s) 477, 847
FaqI GGGAC 2 cut(s) 34, 936
FauI CCCGC 1 cut(s) 651
FbaI TGATCA 3 cut(s) 973, 1600, 2239
Fnu4HI GCNGC 2 cut(s) 345, 1779
FokI GGATG 8 cut(s) 113, 387, 782, 1212, 1437, 1574, 2148, 2243
Fsp4HI GCNGC 2 cut(s) 345, 1779
FspBI CTAG 4 cut(s) 140, 332, 1346, 1473
GlaI GCGC 1 cut(s) 2181
GluI GCNGC 2 cut(s) 345, 1779
GsaI CCCAGC 1 cut(s) 186
GsuI CTGGAG 2 cut(s) 399, 727
HaeII RGCGCY 1 cut(s) 2183
HaeIII GGCC 2 cut(s) 1268, 1803
HapII CCGG 2 cut(s) 1269, 2177
HhaI GCGC 1 cut(s) 2182
Hin6I GCGC 1 cut(s) 2180
HinP1I GCGC 1 cut(s) 2180
HincII GTYRAC 2 cut(s) 841, 1327
HindII GTYRAC 2 cut(s) 841, 1327
HindIII AAGCTT 1 cut(s) 1955
HinfI GANTC 7 cut(s) 711, 890, 899, 1357, 1460, 1606, 1686
HpaI GTTAAC 1 cut(s) 841
HpaII CCGG 2 cut(s) 1269, 2177
HphI GGTGA 2 cut(s) 896, 1855
Hpy166II GTNNAC 4 cut(s) 82, 84, 841, 1327
Hpy188I TCNGA 8 cut(s) 198, 232, 855, 1066, 1132, 1437, 1605, 1917
Hpy8I GTNNAC 4 cut(s) 82, 84, 841, 1327
HpyAV CCTTC 4 cut(s) 260, 1156, 1676, 2293
HpyCH4III ACNGT 2 cut(s) 125, 1792
HpyCH4IV ACGT 2 cut(s) 1288, 1387
HpyF10VI GCNNNNNNNGC 5 cut(s) 179, 301, 341, 1784, 2188
HpyF3I CTNAG 6 cut(s) 66, 880, 928, 1131, 1434, 1914
HpySE526I ACGT 2 cut(s) 1288, 1387
HspAI GCGC 1 cut(s) 2180
Ksp22I TGATCA 3 cut(s) 973, 1600, 2239
KspAI GTTAAC 1 cut(s) 841
Kzo9I GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
LguI GCTCTTC 1 cut(s) 1422
Lsp1109I GCAGC 2 cut(s) 356, 1765
LweI GCATC 3 cut(s) 724, 1238, 1408
MaeI CTAG 4 cut(s) 140, 332, 1346, 1473
MaeII ACGT 2 cut(s) 1288, 1387
MaeIII GTNAC 2 cut(s) 432, 1190
MalI GATC 6 cut(s) 314, 975, 981, 1602, 1617, 2241
MboI GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
MfeI CAATTG 1 cut(s) 1466
MflI RGATCY 1 cut(s) 979
MlyI GAGTC 1 cut(s) 908
MmeI TCCRAC 3 cut(s) 527, 1522, 1794
Mph1103I ATGCAT 1 cut(s) 1837
MslI CAYNNNNRTG 3 cut(s) 77, 1416, 2136
MspA1I CMGCKG 2 cut(s) 347, 658
MspCI CTTAAG 1 cut(s) 2078
MspI CCGG 2 cut(s) 1269, 2177
MspR9I CCNGG 2 cut(s) 745, 942
MunI CAATTG 1 cut(s) 1466
Mva1269I GAATGC 2 cut(s) 271, 875
MvaI CCWGG 2 cut(s) 745, 942
MwoI GCNNNNNNNGC 5 cut(s) 179, 301, 341, 1784, 2188
NcoI CCATGG 2 cut(s) 477, 847
NdeII GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
NlaIV GGNNCC 2 cut(s) 1239, 2274
NmeAIII GCCGAG 1 cut(s) 1244
NsiI ATGCAT 1 cut(s) 1837
NspI RCATGY 1 cut(s) 1248
OliI CACNNNNGTG 1 cut(s) 77
PagI TCATGA 1 cut(s) 1906
PciSI GCTCTTC 1 cut(s) 1422
PctI GAATGC 2 cut(s) 271, 875
PfeI GAWTC 6 cut(s) 711, 890, 1357, 1460, 1606, 1686
PfoI TCCNGGA 1 cut(s) 743
PkrI GCNGC 2 cut(s) 346, 1780
PleI GAGTC 1 cut(s) 907
PpsI GAGTC 1 cut(s) 907
PpuMI RGGWCCY 1 cut(s) 2272
Psp5II RGGWCCY 1 cut(s) 2272
Psp6I CCWGG 2 cut(s) 743, 940
PspFI CCCAGC 1 cut(s) 182
PspGI CCWGG 2 cut(s) 743, 940
PspN4I GGNNCC 2 cut(s) 1239, 2274
PspPI GGNCC 3 cut(s) 1645, 1801, 2272
PspPPI RGGWCCY 1 cut(s) 2272
PsrI GAACNNNNNNTAC 2 cut(s) 211, 243
PsuI RGATCY 1 cut(s) 979
PvuII CAGCTG 1 cut(s) 347
RsaI GTAC 4 cut(s) 83, 1380, 1660, 2119
RsaNI GTAC 4 cut(s) 82, 1379, 1659, 2118
RseI CAYNNNNRTG 3 cut(s) 77, 1416, 2136
SapI GCTCTTC 1 cut(s) 1422
SatI GCNGC 2 cut(s) 345, 1779
Sau3AI GATC 6 cut(s) 312, 973, 979, 1600, 1615, 2239
Sau96I GGNCC 3 cut(s) 1645, 1801, 2272
SchI GAGTC 1 cut(s) 908
ScrFI CCNGG 2 cut(s) 745, 942
SfaNI GCATC 3 cut(s) 724, 1238, 1408
SfcI CTRYAG 2 cut(s) 1693, 1791
SinI GGWCC 2 cut(s) 1645, 2272
SmiMI CAYNNNNRTG 3 cut(s) 77, 1416, 2136
SmlI CTYRAG 2 cut(s) 90, 2078
SmoI CTYRAG 2 cut(s) 90, 2078
SsiI CCGC 4 cut(s) 98, 304, 658, 2222
SspI AATATT 2 cut(s) 499, 1097
SspMI CTAG 4 cut(s) 140, 332, 1346, 1473
StyD4I CCNGG 2 cut(s) 743, 940
StyI CCWWGG 2 cut(s) 477, 847
TaaI ACNGT 2 cut(s) 125, 1792
TaiI ACGT 2 cut(s) 1291, 1390
TaqI TCGA 4 cut(s) 709, 1225, 1929, 2286
TatI WGTACW 4 cut(s) 81, 1378, 1658, 2117
TfiI GAWTC 6 cut(s) 711, 890, 1357, 1460, 1606, 1686
TscAI CASTG 1 cut(s) 1086
TseI GCWGC 2 cut(s) 344, 1778
TspGWI ACGGA 3 cut(s) 401, 1658, 2182
TspRI CASTG 1 cut(s) 1086
Vha464I CTTAAG 1 cut(s) 2078
VpaK11BI GGWCC 2 cut(s) 1645, 2272
XagI CCTNNNNNAGG 1 cut(s) 745
XapI RAATTY 7 cut(s) 40, 155, 667, 1145, 1336, 1476, 1670
XbaI TCTAGA 1 cut(s) 1472
XceI RCATGY 1 cut(s) 1248
XspI CTAG 4 cut(s) 140, 332, 1346, 1473
Zsp2I ATGCAT 1 cut(s) 1837
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.