Rh6DG349800

Protein LOW PSII ACCUMULATION 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0011276
Physical Location & Seq
Forward (+)
55074154 .. 55076969
2816 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG349800.1

Sequence Viewer

Length: 1356 bp
ATGGCTATGGCTGCTCAGGCTCTGCACCAGCAATGTCTCTGCTTCTCCTCAAACCCAATAACAACATCAACAACAAGGCCATGGCTTCCCGCCAGAACCACCACCCTTACCTTTTTCCAAGTCCACAAGAAACTTGCCCATCACATCTCTCTCATTCCTTGCTCTTCTTCTTCTTCTTCTTCAACTTCTCAGTCCCCTGAAGCCAATACAGAAACCGCCGAGTCCTGTGTCAACTTGGGCCTCCAGCTTTTCTCCAAAGGACGGGTTAAAGATGCTTTAGTTCAGTTCGAAACGGCACTTAATTTAGATCCCAATCCTATAGAGGCCCAAGCAGCTCTCTATAATAAAGCTTGCTGTCACGCCTACAGAGGGGAAGGAAGGAAAGCTGCTGATTGTCTACGTACTTGCTTAAGAGAATATAACCTCAAATTTGGCACAATTTTGAATGACCCTGACTTGGCCTCTTTTCGAGCTTTGCCTGAGTATAAGGAATTGCAAGAAGAGGCTAGAATAGGTGGAGAAGACATAGGCTACAGTTTTAGGAGAGACTTGAAACTTATTAGTGAAGTCCAAGCACCATTCCGTGGGGTTAGGAGATTCTTTTATGTGGCATTCTCTGCAGCTGCAGGAATCTCGACGTTCTTCACTGTACCTAGGCTATTCCGTGCATTTGCAGGTGGTGATGGTGCTCCTGATCTCTTGGAAACTGCTGGGAATGTTGCTATTAATGTCGGAGGTTTTACAGTTCTTGTGGCATTGTTTTTATGGGAAAACAAGAAGGAAGAGGAACAACTTGCACAAATATCTCGCAATGAAAGTCTGTCAAGGCTGCCATTGCGCCTCTCCACCAATAGGGTTGTTGAACTTGTGCAGTTGCGGGACACTGTTAGACCTGTCATTTTAGCAGGGAAGAAGGAGACTGTTTCTTCAAGCATGCAGCAGGCAGCGAGGTTCCGAACGGATCTCCTCTCAAGAGGTGTTCTTTTAGTTCCTGTTATCTGGGGTGAAGTTAGGGCACCTCAAACAGAGAAGAAAGGCTTTGGCACACCTTCAAAGGCAGCCGCCGCTCTGCCTTCTATTGGGGAAGATTTCGAGAAACGAACTCAGTCTATAACTGCAAAGTCAAAATTAAAAGCTGAAATTCGATTCAAGGCCGAGATTGTATCCCCTGAGGAATGGGAAAGTTGGATAAGGGATCAGCAGAAGTCTGAAGGAGTCACTCCTGGTGAGGATGTCTACATTATACTGCGCCTAGATGGTCGGGTTCGAAGATCAGGGAAAGGCATGCCTGACTGGCAACAAATTTTGCAGGAGCTGCCTCCAGTAGAAGCATTGCTTAGCAAACTTGAAAGATAG

Protein Analysis

451

Amino Acids

50.05

Weight (kDa)

8.92

Isoelectric Point (pI)

53.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3493 PF11998 181 - 258 4.4e-24 Low psii accumulation1 / Rep27
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: OG0011276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02910 AT1G02910
fragaria_vesca FvH4_2g25340 FvH4_2g25340 FvH4_2g25340 FvH4_2g25340
malus_domestica MD03G1284800.v1.1 MD11G1304300.v1.1
prunus_persica Prupe.8G257900_v2.0.a1
pyrus_communis pycom11g26620
rosa_chinensis RchiOBHm_Chr6g0293521
rosa_laevigata RLG00000011944
rosa_multiflora Rmu_sc0006269.1_g000009
rosa_roxburghii Rroxscaffold_7G00174120
rosa_rugosa Rorug06G0236000 Rorug06G0236100.1
rosa_samantha Rh6AG348800 Rh6CG362900 Rh6DG349800
rosa_wichuraiana Rw6G030350

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 665
Acc36I ACCTGC 1 cut(s) 665
AccB1I GGYRCC 1 cut(s) 1015
AccB7I CCANNNNNTGG 1 cut(s) 584
AccBSI CCGCTC 1 cut(s) 1067
AccI GTMKAC 2 cut(s) 397, 1236
AciI CCGC 5 cut(s) 90, 216, 877, 1062, 1065
AclWI GGATC 3 cut(s) 302, 969, 1203
AcsI RAATTY 3 cut(s) 428, 1140, 1302
AcuI CTGAAG 2 cut(s) 219, 1230
AfaI GTAC 2 cut(s) 403, 651
AfiI CCNNNNNNNGG 6 cut(s) 261, 369, 457, 584, 852, 1079
AflII CTTAAG 1 cut(s) 409
AgsI TTSAA 8 cut(s) 183, 445, 553, 863, 930, 1053, 1150, 1349
AjnI CCWGG 1 cut(s) 1222
AluBI AGCT 8 cut(s) 247, 335, 350, 386, 473, 623, 1136, 1315
AluI AGCT 8 cut(s) 247, 335, 350, 386, 473, 623, 1136, 1315
Alw21I GWGCWC 1 cut(s) 691
Alw26I GTCTC 3 cut(s) 41, 540, 911
AlwI GGATC 3 cut(s) 302, 969, 1203
AlwNI CAGNNNCTG 2 cut(s) 22, 1315
AoxI GGCC 5 cut(s) 77, 238, 324, 459, 1152
ApoI RAATTY 3 cut(s) 428, 1140, 1302
AseI ATTAAT 1 cut(s) 726
AspA2I CCTAGG 1 cut(s) 653
AspLEI GCGC 2 cut(s) 840, 1251
AspS9I GGNCC 2 cut(s) 238, 325
AsuHPI GGTGA 3 cut(s) 692, 1016, 1238
AsuII TTCGAA 2 cut(s) 288, 1267
AvrII CCTAGG 1 cut(s) 653
AxyI CCTNAGG 1 cut(s) 1170
BaeGI GKGCMC 1 cut(s) 1018
BanI GGYRCC 1 cut(s) 1015
BbsI GAAGAC 1 cut(s) 528
Bbv12I GWGCWC 1 cut(s) 691
BbvI GCAGC 9 cut(s) 344, 373, 610, 632, 816, 949, 956, 1070, 1302
BccI CCATC 3 cut(s) 147, 677, 1250
BceAI ACGGC 1 cut(s) 309
BcgI CGANNNNNNTGC 2 cut(s) 615, 649
BciT130I CCWGG 1 cut(s) 1224
BciVI GTATCC 1 cut(s) 1174
BcoDI GTCTC 3 cut(s) 41, 540, 911
BfaI CTAG 3 cut(s) 507, 654, 1253
BfmI CTRYAG 5 cut(s) 318, 364, 532, 618, 624
BfrI CTTAAG 1 cut(s) 409
BfuAI ACCTGC 1 cut(s) 665
BfuI GTATCC 1 cut(s) 1174
BglI GCCNNNNNGGC 1 cut(s) 1294
BlnI CCTAGG 1 cut(s) 653
BlpI GCTNAGC 1 cut(s) 1337
Bme1390I CCNGG 1 cut(s) 1224
BmgT120I GGNCC 2 cut(s) 238, 325
BmiI GGNNCC 2 cut(s) 953, 1017
BmrFI CCNGG 1 cut(s) 1224
BmsI GCATC 1 cut(s) 262
BpiI GAAGAC 1 cut(s) 528
BpmI CTGGAG 2 cut(s) 227, 1305
Bpu10I CCTNAGC 1 cut(s) 15
Bpu1102I GCTNAGC 1 cut(s) 1337
Bpu14I TTCGAA 2 cut(s) 288, 1267
BpuEI CTTGAG 1 cut(s) 955
BsaAI YACGTR 1 cut(s) 401
BsaBI GATNNNNATC 1 cut(s) 312
BsaJI CCNNGG 3 cut(s) 80, 583, 653
Bsc4I CCNNNNNNNGG 6 cut(s) 261, 369, 457, 584, 852, 1079
Bse1I ACTGG 2 cut(s) 1298, 1322
Bse21I CCTNAGG 1 cut(s) 1170
Bse3DI GCAATG 4 cut(s) 38, 817, 833, 1331
Bse8I GATNNNNATC 1 cut(s) 312
BseBI CCWGG 1 cut(s) 1224
BseDI CCNNGG 3 cut(s) 80, 583, 653
BseGI GGATG 1 cut(s) 1237
BseJI GATNNNNATC 1 cut(s) 312
BseLI CCNNNNNNNGG 6 cut(s) 261, 369, 457, 584, 852, 1079
BseMI GCAATG 4 cut(s) 38, 817, 833, 1331
BseMII CTCAG 5 cut(s) 29, 203, 471, 1118, 1161
BseNI ACTGG 2 cut(s) 1298, 1322
BseRI GAGGAG 2 cut(s) 37, 956
BseSI GKGCMC 1 cut(s) 1018
BseXI GCAGC 9 cut(s) 344, 373, 610, 632, 816, 949, 956, 1070, 1302
BseYI CCCAGC 1 cut(s) 710
BsgI GTGCAG 2 cut(s) 8, 890
BshFI GGCC 5 cut(s) 79, 240, 326, 461, 1154
BshNI GGYRCC 1 cut(s) 1015
BsiHKAI GWGCWC 1 cut(s) 691
BslFI GGGAC 2 cut(s) 178, 893
BslI CCNNNNNNNGG 6 cut(s) 261, 369, 457, 584, 852, 1079
BsmAI GTCTC 3 cut(s) 41, 540, 911
BsmFI GGGAC 2 cut(s) 178, 893
BsmI GAATGC 1 cut(s) 611
BsnI GGCC 5 cut(s) 79, 240, 326, 461, 1154
Bsp119I TTCGAA 2 cut(s) 288, 1267
Bsp1286I GDGCHC 2 cut(s) 691, 1018
Bsp143I GATC 5 cut(s) 307, 694, 961, 1195, 1271
Bsp1720I GCTNAGC 1 cut(s) 1337
Bsp19I CCATGG 1 cut(s) 80
BspACI CCGC 5 cut(s) 90, 216, 877, 1062, 1065
BspANI GGCC 5 cut(s) 79, 240, 326, 461, 1154
BspCNI CTCAG 5 cut(s) 28, 202, 472, 1117, 1162
BspLI GGNNCC 2 cut(s) 953, 1017
BspMAI CTGCAG 2 cut(s) 622, 628
BspMI ACCTGC 1 cut(s) 665
BspPI GGATC 3 cut(s) 302, 969, 1203
BspQI GCTCTTC 1 cut(s) 169
BspT104I TTCGAA 2 cut(s) 288, 1267
BspT107I GGYRCC 1 cut(s) 1015
BspTI CTTAAG 1 cut(s) 409
BsrBI CCGCTC 1 cut(s) 1067
BsrDI GCAATG 4 cut(s) 38, 817, 833, 1331
BsrI ACTGG 2 cut(s) 1298, 1322
BssECI CCNNGG 3 cut(s) 80, 583, 653
BssMI GATC 5 cut(s) 307, 694, 961, 1195, 1271
BssT1I CCWWGG 2 cut(s) 80, 653
Bst2UI CCWGG 1 cut(s) 1224
Bst4CI ACNGT 5 cut(s) 536, 649, 745, 886, 922
Bst6I CTCTTC 3 cut(s) 169, 495, 777
BstAFI CTTAAG 1 cut(s) 409
BstAPI GCANNNNNTGC 2 cut(s) 617, 1315
BstBAI YACGTR 1 cut(s) 401
BstBI TTCGAA 2 cut(s) 288, 1267
BstC8I GCNNGC 4 cut(s) 352, 935, 942, 1286
BstDEI CTNAG 6 cut(s) 15, 189, 480, 1104, 1170, 1337
BstDSI CCRYGG 2 cut(s) 80, 583
BstF5I GGATG 1 cut(s) 1237
BstHHI GCGC 2 cut(s) 840, 1251
BstKTI GATC 5 cut(s) 310, 697, 964, 1198, 1274
BstMAI GTCTC 3 cut(s) 41, 540, 911
BstMBI GATC 5 cut(s) 307, 694, 961, 1195, 1271
BstMWI GCNNNNNNNGC 8 cut(s) 11, 17, 332, 617, 835, 1064, 1294, 1315
BstNI CCWGG 1 cut(s) 1224
BstNSI RCATGY 2 cut(s) 937, 1288
BstSCI CCNGG 1 cut(s) 1222
BstSFI CTRYAG 5 cut(s) 318, 364, 532, 618, 624
BstSLI GKGCMC 1 cut(s) 1018
BstSNI TACGTA 1 cut(s) 401
BstV1I GCAGC 9 cut(s) 344, 373, 610, 632, 816, 949, 956, 1070, 1302
BstV2I GAAGAC 1 cut(s) 528
BstX2I RGATCY 2 cut(s) 307, 961
BstYI RGATCY 2 cut(s) 307, 961
Bsu36I CCTNAGG 1 cut(s) 1170
BsuI GTATCC 1 cut(s) 1174
BsuRI GGCC 5 cut(s) 79, 240, 326, 461, 1154
BtgI CCRYGG 2 cut(s) 80, 583
BtsCI GGATG 1 cut(s) 1237
BtsIMutI CAGTG 2 cut(s) 645, 882
BveI ACCTGC 1 cut(s) 665
Cac8I GCNNGC 4 cut(s) 352, 935, 942, 1286
CaiI CAGNNNCTG 2 cut(s) 22, 1315
CfoI GCGC 2 cut(s) 840, 1251
Cfr13I GGNCC 2 cut(s) 238, 325
Csp6I GTAC 2 cut(s) 402, 650
CviAII CATG 3 cut(s) 81, 934, 1285
CviQI GTAC 2 cut(s) 402, 650
DdeI CTNAG 6 cut(s) 15, 189, 480, 1104, 1170, 1337
DpnI GATC 5 cut(s) 309, 696, 963, 1197, 1273
DpnII GATC 5 cut(s) 307, 694, 961, 1195, 1271
Eam1104I CTCTTC 3 cut(s) 169, 495, 777
EarI CTCTTC 3 cut(s) 169, 495, 777
Eco105I TACGTA 1 cut(s) 401
Eco130I CCWWGG 2 cut(s) 80, 653
Eco57I CTGAAG 2 cut(s) 219, 1230
Eco81I CCTNAGG 1 cut(s) 1170
EcoRII CCWGG 1 cut(s) 1222
EcoT14I CCWWGG 2 cut(s) 80, 653
ErhI CCWWGG 2 cut(s) 80, 653
FaeI CATG 3 cut(s) 84, 937, 1288
FalI AAGNNNNNCTT 4 cut(s) 1022, 1054, 1320, 1352
FaqI GGGAC 2 cut(s) 178, 893
FatI CATG 3 cut(s) 80, 933, 1284
FauI CCCGC 2 cut(s) 97, 870
FblI GTMKAC 2 cut(s) 397, 1236
FokI GGATG 1 cut(s) 1244
FspBI CTAG 3 cut(s) 507, 654, 1253
GlaI GCGC 2 cut(s) 839, 1250
GsaI CCCAGC 1 cut(s) 714
GsuI CTGGAG 2 cut(s) 227, 1305
HaeIII GGCC 5 cut(s) 79, 240, 326, 461, 1154
HhaI GCGC 2 cut(s) 840, 1251
Hin1II CATG 3 cut(s) 84, 937, 1288
Hin6I GCGC 2 cut(s) 838, 1249
HinP1I GCGC 2 cut(s) 838, 1249
HincII GTYRAC 1 cut(s) 232
HindII GTYRAC 1 cut(s) 232
HindIII AAGCTT 1 cut(s) 348
HinfI GANTC 5 cut(s) 221, 597, 630, 1146, 1215
HphI GGTGA 3 cut(s) 692, 1016, 1238
Hpy166II GTNNAC 4 cut(s) 124, 232, 398, 1237
Hpy188I TCNGA 3 cut(s) 734, 956, 1210
Hpy188III TCNNGA 4 cut(s) 634, 692, 972, 1093
Hpy8I GTNNAC 4 cut(s) 124, 232, 398, 1237
Hpy99I CGWCG 1 cut(s) 640
HpyAV CCTTC 7 cut(s) 368, 372, 772, 907, 1059, 1083, 1205
HpyCH4III ACNGT 5 cut(s) 536, 649, 745, 886, 922
HpyCH4IV ACGT 2 cut(s) 400, 638
HpyF10VI GCNNNNNNNGC 8 cut(s) 11, 17, 332, 617, 835, 1064, 1294, 1315
HpyF3I CTNAG 6 cut(s) 15, 189, 480, 1104, 1170, 1337
HpySE526I ACGT 2 cut(s) 400, 638
Hsp92II CATG 3 cut(s) 84, 937, 1288
HspAI GCGC 2 cut(s) 838, 1249
Kzo9I GATC 5 cut(s) 307, 694, 961, 1195, 1271
LguI GCTCTTC 1 cut(s) 169
LmnI GCTCC 2 cut(s) 694, 1312
Lsp1109I GCAGC 9 cut(s) 344, 373, 610, 632, 816, 949, 956, 1070, 1302
LweI GCATC 1 cut(s) 262
MaeI CTAG 3 cut(s) 507, 654, 1253
MaeII ACGT 2 cut(s) 400, 638
MaeIII GTNAC 2 cut(s) 356, 1216
MalI GATC 5 cut(s) 309, 696, 963, 1197, 1273
MbiI CCGCTC 1 cut(s) 1067
MboI GATC 5 cut(s) 307, 694, 961, 1195, 1271
MflI RGATCY 2 cut(s) 307, 961
MhlI GDGCHC 2 cut(s) 691, 1018
MluCI AATT 7 cut(s) 301, 428, 438, 491, 1127, 1140, 1302
MlyI GAGTC 2 cut(s) 230, 1224
MmeI TCCRAC 2 cut(s) 712, 1166
MseI TTAA 5 cut(s) 267, 300, 410, 726, 1130
MspA1I CMGCKG 1 cut(s) 623
MspCI CTTAAG 1 cut(s) 409
MspR9I CCNGG 1 cut(s) 1224
Mva1269I GAATGC 1 cut(s) 611
MvaI CCWGG 1 cut(s) 1224
MwoI GCNNNNNNNGC 8 cut(s) 11, 17, 332, 617, 835, 1064, 1294, 1315
NcoI CCATGG 1 cut(s) 80
NdeII GATC 5 cut(s) 307, 694, 961, 1195, 1271
NlaIII CATG 3 cut(s) 84, 937, 1288
NlaIV GGNNCC 2 cut(s) 953, 1017
NmeAIII GCCGAG 2 cut(s) 244, 1180
NmuCI GTSAC 2 cut(s) 356, 1216
NspI RCATGY 2 cut(s) 937, 1288
NspV TTCGAA 2 cut(s) 288, 1267
PaeI GCATGC 2 cut(s) 937, 1288
PaqCI CACCTGC 1 cut(s) 665
PciSI GCTCTTC 1 cut(s) 169
PctI GAATGC 1 cut(s) 611
PfeI GAWTC 3 cut(s) 597, 630, 1146
PflMI CCANNNNNTGG 1 cut(s) 584
PleI GAGTC 2 cut(s) 229, 1223
PpsI GAGTC 2 cut(s) 229, 1223
Ppu21I YACGTR 1 cut(s) 401
PshBI ATTAAT 1 cut(s) 726
Psp6I CCWGG 1 cut(s) 1222
PspFI CCCAGC 1 cut(s) 710
PspGI CCWGG 1 cut(s) 1222
PspN4I GGNNCC 2 cut(s) 953, 1017
PspPI GGNCC 2 cut(s) 238, 325
PstI CTGCAG 2 cut(s) 622, 628
PstNI CAGNNNCTG 2 cut(s) 22, 1315
PsuI RGATCY 2 cut(s) 307, 961
PvuII CAGCTG 1 cut(s) 623
RsaI GTAC 2 cut(s) 403, 651
RsaNI GTAC 2 cut(s) 402, 650
SapI GCTCTTC 1 cut(s) 169
SaqAI TTAA 5 cut(s) 267, 300, 410, 726, 1130
Sau3AI GATC 5 cut(s) 307, 694, 961, 1195, 1271
Sau96I GGNCC 2 cut(s) 238, 325
SchI GAGTC 2 cut(s) 230, 1224
ScrFI CCNGG 1 cut(s) 1224
SduI GDGCHC 2 cut(s) 691, 1018
SfaNI GCATC 1 cut(s) 262
SfcI CTRYAG 5 cut(s) 318, 364, 532, 618, 624
SfuI TTCGAA 2 cut(s) 288, 1267
SmlI CTYRAG 2 cut(s) 409, 970
SmoI CTYRAG 2 cut(s) 409, 970
SnaBI TACGTA 1 cut(s) 401
SphI GCATGC 2 cut(s) 937, 1288
Sse9I AATT 7 cut(s) 301, 428, 438, 491, 1127, 1140, 1302
SsiI CCGC 5 cut(s) 90, 216, 877, 1062, 1065
SspMI CTAG 3 cut(s) 507, 654, 1253
StyD4I CCNGG 1 cut(s) 1222
StyI CCWWGG 2 cut(s) 80, 653
TaaI ACNGT 5 cut(s) 536, 649, 745, 886, 922
TaiI ACGT 2 cut(s) 403, 641
TaqI TCGA 6 cut(s) 288, 469, 635, 1092, 1144, 1267
TasI AATT 7 cut(s) 301, 428, 438, 491, 1127, 1140, 1302
TauI GCSGC 2 cut(s) 1064, 1067
TfiI GAWTC 3 cut(s) 597, 630, 1146
Tru1I TTAA 5 cut(s) 267, 300, 410, 726, 1130
Tru9I TTAA 5 cut(s) 267, 300, 410, 726, 1130
TscAI CASTG 2 cut(s) 652, 889
TseFI GTSAC 2 cut(s) 356, 1216
Tsp45I GTSAC 2 cut(s) 356, 1216
TspDTI ATGAA 1 cut(s) 828
TspGWI ACGGA 3 cut(s) 572, 653, 974
TspRI CASTG 2 cut(s) 652, 889
Van91I CCANNNNNTGG 1 cut(s) 584
Vha464I CTTAAG 1 cut(s) 409
VspI ATTAAT 1 cut(s) 726
XapI RAATTY 3 cut(s) 428, 1140, 1302
XceI RCATGY 2 cut(s) 937, 1288
XmaJI CCTAGG 1 cut(s) 653
XmiI GTMKAC 2 cut(s) 397, 1236
XspI CTAG 3 cut(s) 507, 654, 1253
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.