RorugPtG0003300

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000008
OG0011888
Physical Location & Seq
Forward (+)
66448 .. 75699
9252 bp
Loading structure...
UTR
Exon/CDS
Intron
RorugPtG0003300.1

Sequence Viewer

Length: 1527 bp
ATGGGTTTGCCTTGGTATCGTGTTCATACCGTCGTATTGAATGATCCCGGTCGTTTGATTTCTGTCCATATAATGCATACAGCTCTGGTTGCTGGTTGGGCCGGTTCGATGGCTCTATACGAATTAGCCGTTTTTGATCCCTCTGATCCTGTTCTTGATCCAATGTGGAGACAGGGTATGTTCGTTATACCCTTCATGACTCGTTTAGGAATAACGAATTCATGGGGCGGTTGGAGTATTACAGGGGGGACTGTAACGAATCCGGGTATTTGGAGTTACGAAGGCGTGGCCGGGGCACATATTGTGTTTTCTGGCTTGTGTTTTTTGGCAGCTATCTGGCATTGGGTGTATTGGGATCTAGAAATATTTACTGATGAACGTACAGGAAAACCCTCTTTGGATTTGCCTAAGATCTTTGGAATTCATTTATTTCTCTCAGGGGTGGCTTGCTTTGGTTTTGGTGCATTTCATGTAACAGGATTGTATGGTCCTGGAATATGGGTGTCCGATCCTTATGGACTAACCGGAAGGGTACAGGCCGTAAATCCAGCGTGGGGTGTGGAGGGTTTTGATCCTTTTGTTCCGGGAGGAATAGCTTCTCATCATATTGCAGCAGGGACCTTAGGTATATTGGCAGGTCTATTTCATCTTAGTGTTCGTCCACCCCAACGCCTATACAAAGGATTACGTATGGGAAATATTGAAACCGTCCTTTCCAGTAGTATTGCTGCTGTCTTTTTTGCAGCTTTTGTAGTTGCTGGAACTATGTGGTATGGTTCAGCAACTACCCCGATTGAATTGTTTGGTCCCACGCGCTATCAATGGGATCAAGGATACTTCCAACAAGAAATATATCGAAGAATTGGTGCTGGCTTAGCCGAAAATCAAAGTTTATCCGAAGCTTGGTCTAAAATTCCTGAAAAACTAGCTTTTTATGATTACATCGGCAATAATCCGGCAAAAGGGGGATTATTCAGAGCGGGCTCAATGGACAACGGGGATGGAATAGCTGTTGGGTGGTTAGGACATCCTATCTTTAGAGATAAAGAGGGGCATGAGCTTTTTGTACGTCGTATGCCGACGTTTTTTGAAACATTTCCAGTTGTTTTGGTCGACGGGGACGGAATTGTTAGAGCCGATGTTCCTTTTAGAAGGGCAGAATCAAAATATAGTGTCGAACAAGTAGGTGTAACTGTTGAGTTCTATGGCGGCGAACTGAATGGAGTCAGTTATAGTGACCCTGCTACTGTGAAAAAATATGCTAGACGTGCTCAATTGGGTGAAATTTTTGAATTAGACCGTGCTACTTTGAAATCCGATGGTGTTTTTCGTAGCAGTCCAAGGGGTTGGTTTACCTTTGGGCATGCTTCGTTTGCTTTGCTCTTCTTCTTCGGACACATTTGGCATGGTGCTAGAACCTTGTTTAGAGATGTTTTTGCTGGTATTGATCCGGATTTAGATGCTCAAGTGGAATTTGGAACATTCCAAAAACTTGGAGATCCAACTACACGAAGACAGGTAGTTTGA
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
No domains found.

Protein Analysis

508

Amino Acids

56.09

Weight (kDa)

6.2

Isoelectric Point (pI)

32.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PSII PF00421 1 - 500 8.8e-275 Photosystem II protein
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: OG0011888)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G44360
fragaria_vesca FvH4_7g00100 FvH4_7g00100
malus_domestica MD07G1001600.v1.1 MD15G1336100.v1.1
prunus_persica Prupe.2G003100_v2.0.a1
pyrus_communis pycom07g00200
rosa_chinensis RchiOBHm_Chr1g0313291
rosa_laevigata RLG00000030808
rosa_multiflora Rmu_sc0004761.1_g000006
rosa_roxburghii Rroxscaffold_4G00332270
rosa_rugosa RorugPtG0002800.1 RorugPtG0002900.1 RorugPtG0003300
rosa_samantha Rh1AG002500 Rh1CG001800 Rh1CG007200 Rh1DG002400
rosa_wichuraiana Rw1G000160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 626
AccBSI CCGCTC 1 cut(s) 980
AccI GTMKAC 1 cut(s) 1113
AccII CGCG 1 cut(s) 814
AccIII TCCGGA 1 cut(s) 1450
AciI CCGC 3 cut(s) 228, 980, 1209
AcoI YGGCCR 1 cut(s) 288
AcsI RAATTY 5 cut(s) 217, 420, 912, 1284, 1472
AfaI GTAC 3 cut(s) 382, 534, 1068
AfiI CCNNNNNNNGG 3 cut(s) 554, 903, 962
AgsI TTSAA 6 cut(s) 40, 704, 797, 1091, 1292, 1312
AjiI CACGTC 1 cut(s) 1268
AjnI CCWGG 1 cut(s) 490
AluBI AGCT 8 cut(s) 83, 332, 596, 746, 902, 929, 1010, 1060
AluI AGCT 8 cut(s) 83, 332, 596, 746, 902, 929, 1010, 1060
Alw21I GWGCWC 1 cut(s) 1273
Alw26I GTCTC 1 cut(s) 163
Aor13HI TCCGGA 1 cut(s) 1450
AoxI GGCC 3 cut(s) 99, 288, 537
ApeKI GCWGC 4 cut(s) 329, 611, 728, 743
ApoI RAATTY 5 cut(s) 217, 420, 912, 1284, 1472
ArsI GACNNNNNNTTYG 1 cut(s) 1506
Asp700I GAANNNNTTC 2 cut(s) 595, 1095
AspLEI GCGC 1 cut(s) 816
AspS9I GGNCC 4 cut(s) 99, 488, 618, 806
AsuC2I CCSGG 4 cut(s) 48, 264, 292, 585
AsuHPI GGTGA 1 cut(s) 1292
AvaII GGWCC 3 cut(s) 488, 618, 806
AxyI CCTNAGG 1 cut(s) 622
BaeGI GKGCMC 1 cut(s) 298
BanII GRGCYC 1 cut(s) 986
BbsI GAAGAC 1 cut(s) 1519
Bbv12I GWGCWC 1 cut(s) 1273
BbvI GCAGC 4 cut(s) 341, 623, 715, 755
BccI CCATC 3 cut(s) 103, 995, 1313
BceAI ACGGC 2 cut(s) 113, 524
BciT130I CCWGG 1 cut(s) 492
BciVI GTATCC 1 cut(s) 827
BcnI CCSGG 4 cut(s) 48, 264, 292, 585
BcoDI GTCTC 1 cut(s) 163
BfaI CTAG 4 cut(s) 359, 926, 1263, 1413
BfuAI ACCTGC 1 cut(s) 626
BfuI GTATCC 1 cut(s) 827
BglII AGATCT 1 cut(s) 411
BisI GCNGC 5 cut(s) 330, 612, 729, 744, 1210
BlpI GCTNAGC 1 cut(s) 874
BlsI GCNGC 5 cut(s) 331, 613, 730, 745, 1211
Bme1390I CCNGG 5 cut(s) 48, 264, 292, 492, 585
Bme18I GGWCC 3 cut(s) 488, 618, 806
BmgBI CACGTC 1 cut(s) 1268
BmgT120I GGNCC 4 cut(s) 99, 488, 618, 806
BmiI GGNNCC 2 cut(s) 619, 808
BmrFI CCNGG 5 cut(s) 48, 264, 292, 492, 585
BmsI GCATC 1 cut(s) 1450
BpiI GAAGAC 1 cut(s) 1519
Bpu1102I GCTNAGC 1 cut(s) 874
BpuEI CTTGAG 1 cut(s) 1449
BpuMI CCSGG 4 cut(s) 48, 264, 292, 585
BsaAI YACGTR 1 cut(s) 689
BsaJI CCNNGG 3 cut(s) 11, 291, 1340
BsaWI WCCGGW 2 cut(s) 524, 1450
BsaXI ACNNNNNCTCC 2 cut(s) 160, 190
Bsc4I CCNNNNNNNGG 3 cut(s) 554, 903, 962
Bse118I RCCGGY 1 cut(s) 101
Bse1I ACTGG 2 cut(s) 717, 1100
Bse21I CCTNAGG 1 cut(s) 622
BseAI TCCGGA 1 cut(s) 1450
BseBI CCWGG 1 cut(s) 492
BseDI CCNNGG 3 cut(s) 11, 291, 1340
BseGI GGATG 2 cut(s) 1006, 1027
BseLI CCNNNNNNNGG 3 cut(s) 554, 903, 962
BseMII CTCAG 1 cut(s) 450
BseNI ACTGG 2 cut(s) 717, 1100
BseSI GKGCMC 1 cut(s) 298
BseXI GCAGC 4 cut(s) 341, 623, 715, 755
Bsh1236I CGCG 1 cut(s) 814
Bsh1285I CGRYCG 1 cut(s) 52
BshFI GGCC 3 cut(s) 101, 290, 539
BsiEI CGRYCG 1 cut(s) 52
BsiHKAI GWGCWC 1 cut(s) 1273
BsiSI CCGG 8 cut(s) 48, 102, 263, 291, 525, 584, 956, 1451
BslFI GGGAC 4 cut(s) 262, 631, 792, 1133
BslI CCNNNNNNNGG 3 cut(s) 554, 903, 962
BsmAI GTCTC 1 cut(s) 163
BsmFI GGGAC 4 cut(s) 262, 631, 792, 1133
BsnI GGCC 3 cut(s) 101, 290, 539
Bsp1286I GDGCHC 3 cut(s) 298, 986, 1273
Bsp13I TCCGGA 1 cut(s) 1450
Bsp1720I GCTNAGC 1 cut(s) 874
BspACI CCGC 3 cut(s) 228, 980, 1209
BspANI GGCC 3 cut(s) 101, 290, 539
BspCNI CTCAG 1 cut(s) 449
BspEI TCCGGA 1 cut(s) 1450
BspFNI CGCG 1 cut(s) 814
BspHI TCATGA 1 cut(s) 195
BspLI GGNNCC 2 cut(s) 619, 808
BspMI ACCTGC 1 cut(s) 626
BspQI GCTCTTC 1 cut(s) 1388
BsrBI CCGCTC 1 cut(s) 980
BsrFI RCCGGY 1 cut(s) 101
BsrI ACTGG 2 cut(s) 717, 1100
BssAI RCCGGY 1 cut(s) 101
BssECI CCNNGG 3 cut(s) 11, 291, 1340
BssT1I CCWWGG 2 cut(s) 11, 1340
Bst2UI CCWGG 1 cut(s) 492
Bst4CI ACNGT 6 cut(s) 31, 253, 709, 1195, 1249, 1301
Bst6I CTCTTC 1 cut(s) 1388
BstBAI YACGTR 1 cut(s) 689
BstC8I GCNNGC 4 cut(s) 448, 871, 982, 1365
BstDEI CTNAG 5 cut(s) 408, 436, 622, 650, 874
BstF5I GGATG 2 cut(s) 1006, 1027
BstFNI CGCG 1 cut(s) 814
BstHHI GCGC 1 cut(s) 816
BstMAI GTCTC 1 cut(s) 163
BstMCI CGRYCG 1 cut(s) 52
BstMWI GCNNNNNNNGC 5 cut(s) 89, 98, 875, 1268, 1373
BstNI CCWGG 1 cut(s) 492
BstNSI RCATGY 1 cut(s) 1367
BstSCI CCNGG 5 cut(s) 46, 262, 290, 490, 583
BstSLI GKGCMC 1 cut(s) 298
BstSNI TACGTA 1 cut(s) 689
BstUI CGCG 1 cut(s) 814
BstV1I GCAGC 4 cut(s) 341, 623, 715, 755
BstV2I GAAGAC 1 cut(s) 1519
BstX2I RGATCY 3 cut(s) 355, 411, 1498
BstXI CCANNNNNNTGG 2 cut(s) 1347, 1493
BstYI RGATCY 3 cut(s) 355, 411, 1498
Bsu36I CCTNAGG 1 cut(s) 622
BsuI GTATCC 1 cut(s) 827
BsuRI GGCC 3 cut(s) 101, 290, 539
BtrI CACGTC 1 cut(s) 1268
BtsCI GGATG 2 cut(s) 1006, 1027
BveI ACCTGC 1 cut(s) 626
Cac8I GCNNGC 4 cut(s) 448, 871, 982, 1365
CciI TCATGA 1 cut(s) 195
CfoI GCGC 1 cut(s) 816
Cfr10I RCCGGY 1 cut(s) 101
Cfr13I GGNCC 4 cut(s) 99, 488, 618, 806
Csp6I GTAC 3 cut(s) 381, 533, 1067
CviAII CATG 6 cut(s) 196, 222, 470, 1055, 1364, 1406
CviQI GTAC 3 cut(s) 381, 533, 1067
DdeI CTNAG 5 cut(s) 408, 436, 622, 650, 874
EaeI YGGCCR 1 cut(s) 288
Eam1104I CTCTTC 1 cut(s) 1388
EarI CTCTTC 1 cut(s) 1388
Eco105I TACGTA 1 cut(s) 689
Eco130I CCWWGG 2 cut(s) 11, 1340
Eco24I GRGCYC 1 cut(s) 986
Eco47I GGWCC 3 cut(s) 488, 618, 806
Eco81I CCTNAGG 1 cut(s) 622
EcoO109I RGGNCCY 1 cut(s) 618
EcoRI GAATTC 2 cut(s) 217, 420
EcoRII CCWGG 1 cut(s) 490
EcoT14I CCWWGG 2 cut(s) 11, 1340
EcoT22I ATGCAT 1 cut(s) 78
EcoT38I GRGCYC 1 cut(s) 986
ErhI CCWWGG 2 cut(s) 11, 1340
FaeI CATG 6 cut(s) 199, 225, 473, 1058, 1367, 1409
FaqI GGGAC 4 cut(s) 262, 631, 792, 1133
FatI CATG 6 cut(s) 195, 221, 469, 1054, 1363, 1405
FauI CCCGC 1 cut(s) 973
FblI GTMKAC 1 cut(s) 1113
Fnu4HI GCNGC 5 cut(s) 330, 612, 729, 744, 1210
FokI GGATG 2 cut(s) 1013, 1014
FriOI GRGCYC 1 cut(s) 986
Fsp4HI GCNGC 5 cut(s) 330, 612, 729, 744, 1210
FspBI CTAG 4 cut(s) 359, 926, 1263, 1413
GlaI GCGC 1 cut(s) 815
GluI GCNGC 5 cut(s) 330, 612, 729, 744, 1210
HaeIII GGCC 3 cut(s) 101, 290, 539
HapII CCGG 8 cut(s) 48, 102, 263, 291, 525, 584, 956, 1451
HhaI GCGC 1 cut(s) 816
Hin1II CATG 6 cut(s) 199, 225, 473, 1058, 1367, 1409
Hin6I GCGC 1 cut(s) 814
HinP1I GCGC 1 cut(s) 814
HincII GTYRAC 1 cut(s) 1114
HindII GTYRAC 1 cut(s) 1114
HindIII AAGCTT 1 cut(s) 900
HinfI GANTC 4 cut(s) 199, 259, 1160, 1224
HpaII CCGG 8 cut(s) 48, 102, 263, 291, 525, 584, 956, 1451
HphI GGTGA 1 cut(s) 1292
Hpy166II GTNNAC 3 cut(s) 662, 1114, 1353
Hpy188I TCNGA 6 cut(s) 145, 508, 898, 977, 1318, 1394
Hpy188III TCNNGA 5 cut(s) 155, 196, 359, 917, 1451
Hpy8I GTNNAC 3 cut(s) 662, 1114, 1353
Hpy99I CGWCG 4 cut(s) 35, 1074, 1084, 1118
HpyAV CCTTC 4 cut(s) 202, 275, 522, 1146
HpyCH4III ACNGT 6 cut(s) 31, 253, 709, 1195, 1249, 1301
HpyCH4IV ACGT 5 cut(s) 379, 688, 1069, 1082, 1267
HpyCH4V TGCA 4 cut(s) 76, 464, 611, 743
HpyF10VI GCNNNNNNNGC 5 cut(s) 89, 98, 875, 1268, 1373
HpyF3I CTNAG 5 cut(s) 408, 436, 622, 650, 874
HpySE526I ACGT 5 cut(s) 379, 688, 1069, 1082, 1267
Hsp92II CATG 6 cut(s) 199, 225, 473, 1058, 1367, 1409
HspAI GCGC 1 cut(s) 814
Kpn2I TCCGGA 1 cut(s) 1450
LguI GCTCTTC 1 cut(s) 1388
Lsp1109I GCAGC 4 cut(s) 341, 623, 715, 755
LweI GCATC 1 cut(s) 1450
MaeI CTAG 4 cut(s) 359, 926, 1263, 1413
MaeII ACGT 5 cut(s) 379, 688, 1069, 1082, 1267
MaeIII GTNAC 5 cut(s) 253, 275, 472, 1189, 1235
MbiI CCGCTC 1 cut(s) 980
MboII GAAGA 5 cut(s) 870, 1375, 1378, 1381, 1524
MfeI CAATTG 1 cut(s) 1274
MflI RGATCY 3 cut(s) 355, 411, 1498
MhlI GDGCHC 3 cut(s) 298, 986, 1273
MlyI GAGTC 2 cut(s) 193, 1233
MmeI TCCRAC 3 cut(s) 212, 865, 1526
MnlI CCTC 5 cut(s) 151, 403, 556, 581, 1042
Mph1103I ATGCAT 1 cut(s) 78
MroI TCCGGA 1 cut(s) 1450
MroXI GAANNNNTTC 2 cut(s) 595, 1095
MslI CAYNNNNRTG 1 cut(s) 651
MspI CCGG 8 cut(s) 48, 102, 263, 291, 525, 584, 956, 1451
MspR9I CCNGG 5 cut(s) 48, 264, 292, 492, 585
MunI CAATTG 1 cut(s) 1274
MvaI CCWGG 1 cut(s) 492
MvnI CGCG 1 cut(s) 814
MwoI GCNNNNNNNGC 5 cut(s) 89, 98, 875, 1268, 1373
NciI CCSGG 4 cut(s) 48, 264, 292, 585
NlaIII CATG 6 cut(s) 199, 225, 473, 1058, 1367, 1409
NlaIV GGNNCC 2 cut(s) 619, 808
NmuCI GTSAC 1 cut(s) 1235
NsiI ATGCAT 1 cut(s) 78
NspI RCATGY 1 cut(s) 1367
PaeI GCATGC 1 cut(s) 1367
PagI TCATGA 1 cut(s) 195
PciSI GCTCTTC 1 cut(s) 1388
PcsI WCGNNNNNNNCGW 1 cut(s) 126
PdmI GAANNNNTTC 2 cut(s) 595, 1095
PfeI GAWTC 2 cut(s) 259, 1160
PfoI TCCNGGA 2 cut(s) 490, 583
PkrI GCNGC 5 cut(s) 331, 613, 730, 745, 1211
PleI GAGTC 2 cut(s) 193, 1232
PpsI GAGTC 2 cut(s) 193, 1232
Ppu21I YACGTR 1 cut(s) 689
PpuMI RGGWCCY 1 cut(s) 618
Psp5II RGGWCCY 1 cut(s) 618
Psp6I CCWGG 1 cut(s) 490
PspGI CCWGG 1 cut(s) 490
PspN4I GGNNCC 2 cut(s) 619, 808
PspPI GGNCC 4 cut(s) 99, 488, 618, 806
PspPPI RGGWCCY 1 cut(s) 618
PsuI RGATCY 3 cut(s) 355, 411, 1498
RsaI GTAC 3 cut(s) 382, 534, 1068
RsaNI GTAC 3 cut(s) 381, 533, 1067
RseI CAYNNNNRTG 1 cut(s) 651
SalI GTCGAC 1 cut(s) 1112
SapI GCTCTTC 1 cut(s) 1388
SatI GCNGC 5 cut(s) 330, 612, 729, 744, 1210
Sau96I GGNCC 4 cut(s) 99, 488, 618, 806
SchI GAGTC 2 cut(s) 193, 1233
ScrFI CCNGG 5 cut(s) 48, 264, 292, 492, 585
SduI GDGCHC 3 cut(s) 298, 986, 1273
SfaNI GCATC 1 cut(s) 1450
SinI GGWCC 3 cut(s) 488, 618, 806
SmiMI CAYNNNNRTG 1 cut(s) 651
SmlI CTYRAG 1 cut(s) 1464
SmoI CTYRAG 1 cut(s) 1464
SnaBI TACGTA 1 cut(s) 689
SphI GCATGC 1 cut(s) 1367
SsiI CCGC 3 cut(s) 228, 980, 1209
SspI AATATT 2 cut(s) 366, 700
SspMI CTAG 4 cut(s) 359, 926, 1263, 1413
StyD4I CCNGG 5 cut(s) 46, 262, 290, 490, 583
StyI CCWWGG 2 cut(s) 11, 1340
TaaI ACNGT 6 cut(s) 31, 253, 709, 1195, 1249, 1301
TaiI ACGT 5 cut(s) 382, 691, 1072, 1085, 1270
TaqI TCGA 4 cut(s) 107, 856, 1113, 1176
TauI GCSGC 1 cut(s) 1212
TfiI GAWTC 2 cut(s) 259, 1160
TseFI GTSAC 1 cut(s) 1235
TseI GCWGC 4 cut(s) 329, 611, 728, 743
Tsp45I GTSAC 1 cut(s) 1235
TspDTI ATGAA 7 cut(s) 14, 184, 210, 390, 413, 458, 635
TspGWI ACGGA 1 cut(s) 1137
VpaK11BI GGWCC 3 cut(s) 488, 618, 806
XapI RAATTY 5 cut(s) 217, 420, 912, 1284, 1472
XbaI TCTAGA 1 cut(s) 358
XceI RCATGY 1 cut(s) 1367
XmiI GTMKAC 1 cut(s) 1113
XmnI GAANNNNTTC 2 cut(s) 595, 1095
XspI CTAG 4 cut(s) 359, 926, 1263, 1413
Zsp2I ATGCAT 1 cut(s) 78
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.