Rorug04G0235000

Upstream in-frame stop codon

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0009085
Physical Location & Seq
Forward (+)
40090360 .. 40094312
3953 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0235000.1

Sequence Viewer

Length: 1230 bp
ATGACGTGTTTGTGCTCTTGGTGTTCCTCTTGCACTTGCGGCCTCTGCTCCTCCGTGGCCTCCGGGATTTCCGGCAAATCAGCGAGACTCGGGTACTGCGGCCTCTTCGGGCTTTCCTTGGTCGTCACTTGGATTCTTAGAGAAGTTGGAGCTCCTCTCTTGGAGAAAATCCCATGGATAAGCTCTTCCGAGACTCACACCAAGGCATGGTATCAAATACAAGCGGTTCTTCGGGTGAGCATGGGGAATTTCTTGTTTTTTGCGATACTTTCGCTTATAATGATAGGTGTGAAGGATCGAAATGACCGGCGAGATGGCTGGCACCATGGTGGATGGATTGCCAAGATGATCATCTGGCTTTTGCTTGTCATTCTCATGTTTTTTCTTCCAGACATTGTCATCACAATCTACGGAGATATATCAAAATTTGGGGCAGGCCTGTTTTTACTGGTTCAAGTGATTATCTTACTAGACTTTACTCACTCCTGGAATGATGCATGGGTGGAGAAAGATGAACAAAAATGGTATATCGCGTTGCTTGCTATATCAATTGGGTGCTATATTGCAGCATTTGTGTTCTTAGGCATTCTGTTCATTTGGTTCAATCCCTCTGGCAATGACTGTGGCCTTAATGTCTTCTTCATTGTCATGACCATGATTCTGGCATTTGCATTTGCAGTGATTGCATTACACCCAACGGTGAATGGCAGCCTCCTTCCTGCTTCTGTTATATCAGTATATTGTGCTTATGTGTGCTACACGGCTCTTTCCTGTGAGCCTGTTGGCTATGCTTGCAATGGTCTTCACCACTCCAGCGCGGTCTCTTTTAGTACTACTCTTCTTGGGATGGTGACGACCATTCTTTCAGTTCTGTACTCTGCATTACGTGCTGGATCTTCAACAACTTTTCTGTCACCACCGTCTTCACCCAGGGCAGCTGAAAAGAAACCTCTTCTTGAGGGGAAAGAGTTGGAAGAAGGGAAAGAAAAGAATGAAAAAGAAGCACAACCTGTCAGCTATTCCTATACATTTTTCCACCTGATATTTGCCTTGGCTAGCATGTATTCAGCCATGCTTCTTTCGGGTTGGACCAACACATCAGAGAGCTCAGACCTTATAGACGTTGGCTGGACATCAGTTTGGGTGCGAATCTGCACAGAGTGGGTTACTGCTGGACTATATGTTTGGTCCCTTGTAGCTCCTTTACTTTTCCCAGACCGCGAGTTCTAG
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
CYSTM

Protein Analysis

409

Amino Acids

45.22

Weight (kDa)

5.91

Isoelectric Point (pI)

30.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Serinc PF03348 6 - 407 9.8e-119 Serine incorporator (Serinc)
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 278
AccB1I GGYRCC 1 cut(s) 321
AccB7I CCANNNNNTGG 1 cut(s) 207
AccII CGCG 3 cut(s) 533, 818, 1221
AciI CCGC 5 cut(s) 39, 99, 224, 818, 1219
AclWI GGATC 2 cut(s) 303, 901
AcsI RAATTY 2 cut(s) 247, 425
AdeI CACNNNGTG 1 cut(s) 1161
AfaI GTAC 3 cut(s) 95, 832, 875
AfiI CCNNNNNNNGG 1 cut(s) 207
AflIII ACRYGT 1 cut(s) 5
AgsI TTSAA 3 cut(s) 455, 604, 900
AjiI CACGTC 1 cut(s) 6
AjnI CCWGG 2 cut(s) 485, 929
AleI CACNNNNGTG 1 cut(s) 327
AluBI AGCT 6 cut(s) 152, 183, 938, 1017, 1107, 1199
AluI AGCT 6 cut(s) 152, 183, 938, 1017, 1107, 1199
Alw21I GWGCWC 3 cut(s) 17, 154, 1109
Alw26I GTCTC 3 cut(s) 79, 185, 826
AlwI GGATC 2 cut(s) 303, 901
Ama87I CYCGRG 1 cut(s) 89
AoxI GGCC 5 cut(s) 40, 57, 100, 436, 625
ApeKI GCWGC 3 cut(s) 566, 708, 935
ApoI RAATTY 2 cut(s) 247, 425
ArsI GACNNNNNNTTYG 2 cut(s) 1167, 1199
AspLEI GCGC 1 cut(s) 818
AspS9I GGNCC 2 cut(s) 1089, 1188
AsuC2I CCSGG 1 cut(s) 64
AsuHPI GGTGA 6 cut(s) 247, 712, 797, 862, 906, 918
AsuNHI GCTAGC 1 cut(s) 1055
AvaI CYCGRG 1 cut(s) 89
AvaII GGWCC 2 cut(s) 1089, 1188
BanI GGYRCC 1 cut(s) 321
BanII GRGCYC 2 cut(s) 154, 1109
BbsI GAAGAC 3 cut(s) 628, 794, 915
Bbv12I GWGCWC 3 cut(s) 17, 154, 1109
BbvI GCAGC 3 cut(s) 578, 720, 947
BccI CCATC 3 cut(s) 308, 327, 841
BceAI ACGGC 1 cut(s) 777
BciT130I CCWGG 2 cut(s) 487, 931
BclI TGATCA 1 cut(s) 348
BcnI CCSGG 1 cut(s) 64
BcoDI GTCTC 3 cut(s) 79, 185, 826
BfaI CTAG 3 cut(s) 470, 1056, 1228
BisI GCNGC 5 cut(s) 40, 100, 567, 709, 936
BlsI GCNGC 5 cut(s) 41, 101, 568, 710, 937
BmcAI AGTACT 1 cut(s) 832
Bme1390I CCNGG 3 cut(s) 64, 487, 931
Bme18I GGWCC 2 cut(s) 1089, 1188
BmeT110I CYCGRG 1 cut(s) 89
BmgBI CACGTC 1 cut(s) 6
BmgT120I GGNCC 2 cut(s) 1089, 1188
BmiI GGNNCC 2 cut(s) 323, 1190
BmrFI CCNGG 3 cut(s) 64, 487, 931
BmsI GCATC 1 cut(s) 484
BmtI GCTAGC 1 cut(s) 1059
BpiI GAAGAC 3 cut(s) 628, 794, 915
BplI GAGNNNNNCTC 2 cut(s) 141, 173
BpmI CTGGAG 1 cut(s) 796
BpuEI CTTGAG 1 cut(s) 977
BpuMI CCSGG 1 cut(s) 64
BsaAI YACGTR 1 cut(s) 887
BsaBI GATNNNNATC 1 cut(s) 350
BsaI GGTCTC 1 cut(s) 826
BsaJI CCNNGG 8 cut(s) 54, 117, 173, 201, 325, 929, 930, 1050
Bsc4I CCNNNNNNNGG 1 cut(s) 207
Bse118I RCCGGY 1 cut(s) 306
Bse1I ACTGG 1 cut(s) 453
Bse3DI GCAATG 2 cut(s) 622, 802
Bse8I GATNNNNATC 1 cut(s) 350
BseBI CCWGG 2 cut(s) 487, 931
BseDI CCNNGG 8 cut(s) 54, 117, 173, 201, 325, 929, 930, 1050
BseGI GGATG 2 cut(s) 338, 852
BseJI GATNNNNATC 1 cut(s) 350
BseLI CCNNNNNNNGG 1 cut(s) 207
BseMI GCAATG 2 cut(s) 622, 802
BseMII CTCAG 1 cut(s) 1122
BseNI ACTGG 1 cut(s) 453
BseRI GAGGAG 2 cut(s) 40, 144
BseXI GCAGC 3 cut(s) 578, 720, 947
BsgI GTGCAG 1 cut(s) 1138
Bsh1236I CGCG 3 cut(s) 533, 818, 1221
BshFI GGCC 5 cut(s) 42, 59, 102, 438, 627
BshNI GGYRCC 1 cut(s) 321
BsiHKAI GWGCWC 3 cut(s) 17, 154, 1109
BsiHKCI CYCGRG 1 cut(s) 89
BsiSI CCGG 3 cut(s) 63, 72, 307
BslFI GGGAC 1 cut(s) 1174
BslI CCNNNNNNNGG 1 cut(s) 207
BsmAI GTCTC 3 cut(s) 79, 185, 826
BsmFI GGGAC 1 cut(s) 1174
BsmI GAATGC 1 cut(s) 585
BsnI GGCC 5 cut(s) 42, 59, 102, 438, 627
Bso31I GGTCTC 1 cut(s) 826
BsoBI CYCGRG 1 cut(s) 89
Bsp1286I GDGCHC 3 cut(s) 17, 154, 1109
Bsp143I GATC 3 cut(s) 295, 348, 893
Bsp19I CCATGG 2 cut(s) 173, 325
BspACI CCGC 5 cut(s) 39, 99, 224, 818, 1219
BspANI GGCC 5 cut(s) 42, 59, 102, 438, 627
BspCNI CTCAG 1 cut(s) 1121
BspFNI CGCG 3 cut(s) 533, 818, 1221
BspHI TCATGA 1 cut(s) 648
BspLI GGNNCC 2 cut(s) 323, 1190
BspOI GCTAGC 1 cut(s) 1059
BspPI GGATC 2 cut(s) 303, 901
BspQI GCTCTTC 1 cut(s) 190
BspT107I GGYRCC 1 cut(s) 321
BspTNI GGTCTC 1 cut(s) 826
BsrDI GCAATG 2 cut(s) 622, 802
BsrFI RCCGGY 1 cut(s) 306
BsrI ACTGG 1 cut(s) 453
BssAI RCCGGY 1 cut(s) 306
BssECI CCNNGG 8 cut(s) 54, 117, 173, 201, 325, 929, 930, 1050
BssMI GATC 3 cut(s) 295, 348, 893
BssT1I CCWWGG 5 cut(s) 117, 173, 201, 325, 1050
Bst2UI CCWGG 2 cut(s) 487, 931
Bst4CI ACNGT 3 cut(s) 623, 700, 921
Bst6I CTCTTC 4 cut(s) 110, 190, 843, 957
BstAPI GCANNNNNTGC 2 cut(s) 683, 887
BstBAI YACGTR 1 cut(s) 887
BstC8I GCNNGC 5 cut(s) 320, 436, 540, 793, 1057
BstDEI CTNAG 3 cut(s) 137, 580, 1108
BstDSI CCRYGG 3 cut(s) 54, 173, 325
BstF5I GGATG 2 cut(s) 338, 852
BstFNI CGCG 3 cut(s) 533, 818, 1221
BstHHI GCGC 1 cut(s) 818
BstKTI GATC 3 cut(s) 298, 351, 896
BstMAI GTCTC 3 cut(s) 79, 185, 826
BstMBI GATC 3 cut(s) 295, 348, 893
BstMWI GCNNNNNNNGC 6 cut(s) 39, 45, 539, 683, 792, 887
BstNI CCWGG 2 cut(s) 487, 931
BstNSI RCATGY 1 cut(s) 1063
BstSCI CCNGG 3 cut(s) 62, 485, 929
BstUI CGCG 3 cut(s) 533, 818, 1221
BstV1I GCAGC 3 cut(s) 578, 720, 947
BstV2I GAAGAC 3 cut(s) 628, 794, 915
BstX2I RGATCY 1 cut(s) 893
BstXI CCANNNNNNTGG 1 cut(s) 661
BstYI RGATCY 1 cut(s) 893
BsuRI GGCC 5 cut(s) 42, 59, 102, 438, 627
BtgI CCRYGG 3 cut(s) 54, 173, 325
BtrI CACGTC 1 cut(s) 6
BtsCI GGATG 2 cut(s) 338, 852
BtsI GCAGTG 1 cut(s) 684
BtsIMutI CAGTG 1 cut(s) 684
Cac8I GCNNGC 5 cut(s) 320, 436, 540, 793, 1057
CciI TCATGA 1 cut(s) 648
CfoI GCGC 1 cut(s) 818
Cfr10I RCCGGY 1 cut(s) 306
Cfr13I GGNCC 2 cut(s) 1089, 1188
Csp6I GTAC 3 cut(s) 94, 831, 874
CspCI CAANNNNNGTGG 2 cut(s) 604, 639
CviQI GTAC 3 cut(s) 94, 831, 874
DdeI CTNAG 3 cut(s) 137, 580, 1108
DpnI GATC 3 cut(s) 297, 350, 895
DpnII GATC 3 cut(s) 295, 348, 893
DraIII CACNNNGTG 1 cut(s) 1161
Eam1104I CTCTTC 4 cut(s) 110, 190, 843, 957
EarI CTCTTC 4 cut(s) 110, 190, 843, 957
Ecl136II GAGCTC 2 cut(s) 152, 1107
Eco130I CCWWGG 5 cut(s) 117, 173, 201, 325, 1050
Eco147I AGGCCT 1 cut(s) 438
Eco24I GRGCYC 2 cut(s) 154, 1109
Eco31I GGTCTC 1 cut(s) 826
Eco47I GGWCC 2 cut(s) 1089, 1188
Eco53kI GAGCTC 2 cut(s) 152, 1107
Eco88I CYCGRG 1 cut(s) 89
EcoICRI GAGCTC 2 cut(s) 152, 1107
EcoRII CCWGG 2 cut(s) 485, 929
EcoT14I CCWWGG 5 cut(s) 117, 173, 201, 325, 1050
EcoT22I ATGCAT 1 cut(s) 499
EcoT38I GRGCYC 2 cut(s) 154, 1109
ErhI CCWWGG 5 cut(s) 117, 173, 201, 325, 1050
FalI AAGNNNNNCTT 2 cut(s) 213, 245
FaqI GGGAC 1 cut(s) 1174
FbaI TGATCA 1 cut(s) 348
Fnu4HI GCNGC 5 cut(s) 40, 100, 567, 709, 936
FokI GGATG 2 cut(s) 345, 859
FriOI GRGCYC 2 cut(s) 154, 1109
Fsp4HI GCNGC 5 cut(s) 40, 100, 567, 709, 936
FspBI CTAG 3 cut(s) 470, 1056, 1228
GlaI GCGC 1 cut(s) 817
GluI GCNGC 5 cut(s) 40, 100, 567, 709, 936
GsuI CTGGAG 1 cut(s) 796
HaeIII GGCC 5 cut(s) 42, 59, 102, 438, 627
HapII CCGG 3 cut(s) 63, 72, 307
HhaI GCGC 1 cut(s) 818
Hin6I GCGC 1 cut(s) 816
HinP1I GCGC 1 cut(s) 816
HinfI GANTC 5 cut(s) 87, 133, 193, 658, 1149
HpaII CCGG 3 cut(s) 63, 72, 307
HphI GGTGA 6 cut(s) 247, 712, 797, 862, 906, 918
Hpy188I TCNGA 3 cut(s) 190, 1102, 1111
Hpy188III TCNNGA 3 cut(s) 389, 649, 956
HpyAV CCTTC 3 cut(s) 286, 725, 971
HpyCH4III ACNGT 3 cut(s) 623, 700, 921
HpyCH4IV ACGT 3 cut(s) 5, 886, 1122
HpyCH4V TGCA 9 cut(s) 33, 497, 566, 671, 677, 686, 795, 881, 1155
HpyF10VI GCNNNNNNNGC 6 cut(s) 39, 45, 539, 683, 792, 887
HpyF3I CTNAG 3 cut(s) 137, 580, 1108
HpySE526I ACGT 3 cut(s) 5, 886, 1122
HspAI GCGC 1 cut(s) 816
Ksp22I TGATCA 1 cut(s) 348
Kzo9I GATC 3 cut(s) 295, 348, 893
LguI GCTCTTC 1 cut(s) 190
LmnI GCTCC 4 cut(s) 53, 149, 157, 1204
Lsp1109I GCAGC 3 cut(s) 578, 720, 947
LweI GCATC 1 cut(s) 484
MaeI CTAG 3 cut(s) 470, 1056, 1228
MaeII ACGT 3 cut(s) 5, 886, 1122
MaeIII GTNAC 4 cut(s) 124, 850, 912, 1165
MalI GATC 3 cut(s) 297, 350, 895
MboI GATC 3 cut(s) 295, 348, 893
MfeI CAATTG 1 cut(s) 549
MflI RGATCY 1 cut(s) 893
MhlI GDGCHC 3 cut(s) 17, 154, 1109
MluCI AATT 3 cut(s) 247, 425, 549
MlyI GAGTC 2 cut(s) 81, 187
MmeI TCCRAC 3 cut(s) 127, 951, 1067
Mph1103I ATGCAT 1 cut(s) 499
MseI TTAA 1 cut(s) 630
MslI CAYNNNNRTG 4 cut(s) 327, 374, 647, 653
MspA1I CMGCKG 1 cut(s) 938
MspI CCGG 3 cut(s) 63, 72, 307
MspR9I CCNGG 3 cut(s) 64, 487, 931
MunI CAATTG 1 cut(s) 549
Mva1269I GAATGC 1 cut(s) 585
MvaI CCWGG 2 cut(s) 487, 931
MvnI CGCG 3 cut(s) 533, 818, 1221
MwoI GCNNNNNNNGC 6 cut(s) 39, 45, 539, 683, 792, 887
NciI CCSGG 1 cut(s) 64
NcoI CCATGG 2 cut(s) 173, 325
NdeII GATC 3 cut(s) 295, 348, 893
NheI GCTAGC 1 cut(s) 1055
NlaIV GGNNCC 2 cut(s) 323, 1190
NmuCI GTSAC 3 cut(s) 124, 850, 912
NsiI ATGCAT 1 cut(s) 499
NspI RCATGY 1 cut(s) 1063
OliI CACNNNNGTG 1 cut(s) 327
PagI TCATGA 1 cut(s) 648
PasI CCCWGGG 1 cut(s) 930
PceI AGGCCT 1 cut(s) 438
PciSI GCTCTTC 1 cut(s) 190
PctI GAATGC 1 cut(s) 585
PfeI GAWTC 3 cut(s) 133, 658, 1149
PflFI GACNNNGTC 1 cut(s) 395
PflMI CCANNNNNTGG 1 cut(s) 207
PfoI TCCNGGA 2 cut(s) 62, 485
PkrI GCNGC 5 cut(s) 41, 101, 568, 710, 937
PleI GAGTC 2 cut(s) 81, 187
PpsI GAGTC 2 cut(s) 81, 187
Ppu21I YACGTR 1 cut(s) 887
PsiI TTATAA 1 cut(s) 278
Psp124BI GAGCTC 2 cut(s) 154, 1109
Psp6I CCWGG 2 cut(s) 485, 929
PspGI CCWGG 2 cut(s) 485, 929
PspN4I GGNNCC 2 cut(s) 323, 1190
PspPI GGNCC 2 cut(s) 1089, 1188
PsuI RGATCY 1 cut(s) 893
PsyI GACNNNGTC 1 cut(s) 395
PvuII CAGCTG 1 cut(s) 938
RsaI GTAC 3 cut(s) 95, 832, 875
RsaNI GTAC 3 cut(s) 94, 831, 874
RseI CAYNNNNRTG 4 cut(s) 327, 374, 647, 653
SacI GAGCTC 2 cut(s) 154, 1109
SapI GCTCTTC 1 cut(s) 190
SaqAI TTAA 1 cut(s) 630
SatI GCNGC 5 cut(s) 40, 100, 567, 709, 936
Sau3AI GATC 3 cut(s) 295, 348, 893
Sau96I GGNCC 2 cut(s) 1089, 1188
ScaI AGTACT 1 cut(s) 832
SchI GAGTC 2 cut(s) 81, 187
ScrFI CCNGG 3 cut(s) 64, 487, 931
SduI GDGCHC 3 cut(s) 17, 154, 1109
SfaNI GCATC 1 cut(s) 484
SinI GGWCC 2 cut(s) 1089, 1188
SmiMI CAYNNNNRTG 4 cut(s) 327, 374, 647, 653
SmlI CTYRAG 1 cut(s) 956
SmoI CTYRAG 1 cut(s) 956
Sse9I AATT 3 cut(s) 247, 425, 549
SseBI AGGCCT 1 cut(s) 438
SsiI CCGC 5 cut(s) 39, 99, 224, 818, 1219
SspMI CTAG 3 cut(s) 470, 1056, 1228
SstI GAGCTC 2 cut(s) 154, 1109
StuI AGGCCT 1 cut(s) 438
StyD4I CCNGG 3 cut(s) 62, 485, 929
StyI CCWWGG 5 cut(s) 117, 173, 201, 325, 1050
TaaI ACNGT 3 cut(s) 623, 700, 921
TaiI ACGT 3 cut(s) 8, 889, 1125
TaqI TCGA 1 cut(s) 298
TasI AATT 3 cut(s) 247, 425, 549
TatI WGTACW 2 cut(s) 830, 873
TauI GCSGC 2 cut(s) 42, 102
TfiI GAWTC 3 cut(s) 133, 658, 1149
Tru1I TTAA 1 cut(s) 630
Tru9I TTAA 1 cut(s) 630
TscAI CASTG 1 cut(s) 684
TseFI GTSAC 3 cut(s) 124, 850, 912
TseI GCWGC 3 cut(s) 566, 708, 935
Tsp45I GTSAC 3 cut(s) 124, 850, 912
TspDTI ATGAA 4 cut(s) 528, 583, 631, 1008
TspGWI ACGGA 2 cut(s) 43, 426
TspRI CASTG 1 cut(s) 684
Tth111I GACNNNGTC 1 cut(s) 395
Van91I CCANNNNNTGG 1 cut(s) 207
VpaK11BI GGWCC 2 cut(s) 1089, 1188
XapI RAATTY 2 cut(s) 247, 425
XceI RCATGY 1 cut(s) 1063
XspI CTAG 3 cut(s) 470, 1056, 1228
ZrmI AGTACT 1 cut(s) 832
Zsp2I ATGCAT 1 cut(s) 499
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.