Rroxscaffold_2G00119120

ATP synthase subunit alpha

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0009873
Physical Location & Seq
Forward (+)
50913308 .. 50917646
4339 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00119120.1

Sequence Viewer

Length: 1572 bp
ATGGTAACCATTCGAGCAGATGAAATTAGTAATATTATCCGCGAACGTATTGAGCAATATAACCGAGAGGTAAAGATTTTAAATACGGGTACTGTACTTCAAGTGGGAGATGGCATTGCTCGTATTTATGGTCTTGATGAAGTAATGGCAGGTGAATTAGTAGAATTTGAAGAAGGTACGATAGGCATTGCTCTGAATTTGGAATCAAATAATGTTGGTGTTGTATTAATGGGTGACGGTTTGATGATACAAGAGGGGAGTTCTGTAAAAGCAACGGGAAGAATTGCTCAGATCCCAGTAAGCGAGGCGTTTTTAGGTCGTGTTGTAAATGCACTGGCTAAACCTATTGATGGCCGGGGCGAAATTTCAGCCTCTGAATCTCGGTTAATTGAGTCTCCTGCTCCTGGTATTATTTCGAGACGTTCCGTATACGAGCCCCTTCAAACAGGACTTATTGCTATTGATTCGATGATCCCTATAGGGCGCGGTCAGCGGGAATTGATTATTGGGGACAGACAGACCGGTAAAACAGCAGTAGCCACGGATACGATTCTCAATCAACAAGGGCAAAATGTAATATGTGTTTATGTAGCGATTGGTCAAAAAGCATCTTCTGTGGCTCAAGTGGTGACTGCTTTACAGGAAAGGGGGGCAATGGAATACACTATTGTGGTAGCTGAAGCGGCGGATTCCCCGGCTACATTACAGTATCTTGCTCCTTATACAGGAGCAGCTCTGGCTGAATATTTCATGTACCGTGAGCAACACACTTTAATCATTTATGACGATCTCTCCAAACAAGCGCAGGCTTATCGCCAAATGTCTCTTCTATTACGAAGACCGCCGGGCCGCGAAGCGTATCCGGGAGATGTTTTTTATCTACATTCACGCCTTTTGGAAAGAGCCGCGAAATTAGGTTCTCTTTTAGGTGAAGGAAGTATGACTGCTTTACCAATAGTTGAGACCCAATCGGGGGATGTTTCGGCTTATATTCCTACTAATGTAATTTCCATTACAGATGGACAAATATTCTTATCTGCTGATTTATTCAATGCTGGAATCAGACCAGCTATTAATGTGGGTATTTCTGTTTCCAGAGTGGGATCGGCAGCTCAAATTAAAGCCATGAAACAAGTAGCTGGAAAATTAAAATTGGAATTGGCCCAATTTGCAGAATTAGAAGCCTTTGCACAATTTGCTTCTGATCTCGATAAAGCTACTCAGAATCAATTGGCAAGAGGTCAACGATTACGTGAGTTGCTCAAACAATCTCAATCAGCCCCCCTTGCGGTGGAAGAACAGATATTGACTATTTATACCGGAACGAACGGTTATCTTGATTCATTAGAAATTGGACAGGTAAGGAAATTTCTTGTTGAGTTACGTACTTATTTAAAAACGAATAAACCGCAGTTCCAAGAAATCATATCTTCTACCAAGACATTTACCGAGGAAGCGGAAATCCTTTTGAAAGAGGCTATTCAGGATCAGATGGAACGTTTTCTACTTCAGGAACAACAGCTTGCCAAACAAAGGCTAAGAGAAAAAAGAACAGGGGTATTACTGGCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00190 ko00195 ko01100 map00190 map00195 map01100
Pfam Domains
Protein Families
ATP-synt_C ATP-synt_ab ATP-synt_ab_C ATP-synt_ab_N

Protein Analysis

523

Amino Acids

57.22

Weight (kDa)

5.29

Isoelectric Point (pI)

37.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ATP-synt_ab_N PF02874 29 - 93 7.7e-18 ATP synthase alpha/beta family, beta-barrel domain
ATP-synt_ab PF00006 150 - 365 4.1e-82 ATP synthase alpha/beta family, nucleotide-binding domain
ATP-synt_ab_C PF00306 372 - 496 8.4e-44 ATP synthase alpha/beta chain, C terminal domain
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)
AarI CACCTGC 1 cut(s) 140
Acc36I ACCTGC 1 cut(s) 140
AccI GTMKAC 1 cut(s) 429
AccII CGCG 4 cut(s) 42, 486, 852, 908
AclI AACGTT 1 cut(s) 1498
AclWI GGATC 4 cut(s) 286, 466, 1111, 1494
AcoI YGGCCR 1 cut(s) 352
AcsI RAATTY 4 cut(s) 164, 196, 363, 1367
AcuI CTGAAG 2 cut(s) 699, 1493
AfaI GTAC 5 cut(s) 91, 96, 178, 755, 1387
AfiI CCNNNNNNNGG 8 cut(s) 350, 404, 725, 972, 973, 1288, 1291, 1533
AgeI ACCGGT 1 cut(s) 521
AgsI TTSAA 5 cut(s) 101, 170, 443, 1051, 1471
AjnI CCWGG 1 cut(s) 403
AjuI GAANNNNNNNTTGG 4 cut(s) 489, 521, 810, 842
AleI CACNNNNGTG 1 cut(s) 668
AluBI AGCT 7 cut(s) 677, 734, 1070, 1112, 1139, 1217, 1522
AluI AGCT 7 cut(s) 677, 734, 1070, 1112, 1139, 1217, 1522
Alw26I GTCTC 4 cut(s) 399, 412, 828, 956
AlwI GGATC 4 cut(s) 286, 466, 1111, 1494
AlwNI CAGNNNCTG 1 cut(s) 374
AoxI GGCC 3 cut(s) 352, 847, 1161
ApeKI GCWGC 2 cut(s) 731, 1109
ApoI RAATTY 4 cut(s) 164, 196, 363, 1367
AseI ATTAAT 2 cut(s) 227, 1074
AsiGI ACCGGT 1 cut(s) 521
Asp700I GAANNNNTTC 1 cut(s) 1500
AspLEI GCGC 2 cut(s) 486, 805
AspS9I GGNCC 2 cut(s) 847, 1162
AsuC2I CCSGG 4 cut(s) 356, 695, 846, 864
AsuHPI GGTGA 4 cut(s) 164, 245, 640, 941
BanII GRGCYC 1 cut(s) 438
BbsI GAAGAC 1 cut(s) 844
BbvI GCAGC 2 cut(s) 743, 1121
BccI CCATC 4 cut(s) 104, 344, 1013, 1486
BcgI CGANNNNNNTGC 2 cut(s) 794, 828
BciT130I CCWGG 1 cut(s) 405
BciVI GTATCC 2 cut(s) 538, 870
BcnI CCSGG 4 cut(s) 356, 695, 846, 864
BcoDI GTCTC 4 cut(s) 399, 412, 828, 956
BfmI CTRYAG 1 cut(s) 477
BfuAI ACCTGC 1 cut(s) 140
BfuI GTATCC 2 cut(s) 538, 870
BisI GCNGC 5 cut(s) 684, 732, 850, 906, 1110
BlsI GCNGC 5 cut(s) 685, 733, 851, 907, 1111
Bme1390I CCNGG 5 cut(s) 356, 405, 695, 846, 864
BmgT120I GGNCC 2 cut(s) 847, 1162
BmrFI CCNGG 5 cut(s) 356, 405, 695, 846, 864
BmrI ACTGGG 1 cut(s) 290
BmsI GCATC 1 cut(s) 617
BmuI ACTGGG 1 cut(s) 290
BpiI GAAGAC 1 cut(s) 844
BpuEI CTTGAG 1 cut(s) 606
BpuMI CCSGG 4 cut(s) 356, 695, 846, 864
BsaAI YACGTR 2 cut(s) 1253, 1385
BsaI GGTCTC 1 cut(s) 956
BsaJI CCNNGG 4 cut(s) 355, 540, 693, 1449
BsaWI WCCGGW 2 cut(s) 521, 1319
BsaXI ACNNNNNCTCC 2 cut(s) 776, 806
Bsc4I CCNNNNNNNGG 8 cut(s) 350, 404, 725, 972, 973, 1288, 1291, 1533
Bse118I RCCGGY 1 cut(s) 521
Bse1I ACTGG 3 cut(s) 296, 339, 1569
Bse3DI GCAATG 3 cut(s) 114, 186, 660
BseBI CCWGG 1 cut(s) 405
BseDI CCNNGG 4 cut(s) 355, 540, 693, 1449
BseGI GGATG 1 cut(s) 982
BseLI CCNNNNNNNGG 8 cut(s) 350, 404, 725, 972, 973, 1288, 1291, 1533
BseMI GCAATG 3 cut(s) 114, 186, 660
BseMII CTCAG 2 cut(s) 302, 1235
BseNI ACTGG 3 cut(s) 296, 339, 1569
BseXI GCAGC 2 cut(s) 743, 1121
Bsh1236I CGCG 4 cut(s) 42, 486, 852, 908
BshFI GGCC 3 cut(s) 354, 849, 1163
BshTI ACCGGT 1 cut(s) 521
BsiSI CCGG 6 cut(s) 355, 522, 695, 845, 863, 1320
BslFI GGGAC 1 cut(s) 524
BslI CCNNNNNNNGG 8 cut(s) 350, 404, 725, 972, 973, 1288, 1291, 1533
BsmAI GTCTC 4 cut(s) 399, 412, 828, 956
BsmBI CGTCTC 1 cut(s) 412
BsmFI GGGAC 1 cut(s) 524
BsnI GGCC 3 cut(s) 354, 849, 1163
Bso31I GGTCTC 1 cut(s) 956
Bsp1286I GDGCHC 1 cut(s) 438
Bsp143I GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
BspANI GGCC 3 cut(s) 354, 849, 1163
BspCNI CTCAG 2 cut(s) 301, 1234
BspFNI CGCG 4 cut(s) 42, 486, 852, 908
BspMI ACCTGC 1 cut(s) 140
BspPI GGATC 4 cut(s) 286, 466, 1111, 1494
BspTNI GGTCTC 1 cut(s) 956
BsrDI GCAATG 3 cut(s) 114, 186, 660
BsrFI RCCGGY 1 cut(s) 521
BsrI ACTGG 3 cut(s) 296, 339, 1569
BssAI RCCGGY 1 cut(s) 521
BssECI CCNNGG 4 cut(s) 355, 540, 693, 1449
BssMI GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
BssNAI GTATAC 1 cut(s) 430
Bst1107I GTATAC 1 cut(s) 430
Bst2UI CCWGG 1 cut(s) 405
Bst4CI ACNGT 5 cut(s) 94, 239, 708, 758, 1331
Bst6I CTCTTC 1 cut(s) 831
BstAPI GCANNNNNTGC 1 cut(s) 1196
BstBAI YACGTR 2 cut(s) 1253, 1385
BstC8I GCNNGC 2 cut(s) 807, 1524
BstDEI CTNAG 3 cut(s) 288, 1221, 1538
BstDSI CCRYGG 1 cut(s) 540
BstEII GGTNACC 1 cut(s) 4
BstENI CCTNNNNNAGG 1 cut(s) 723
BstF5I GGATG 1 cut(s) 982
BstFNI CGCG 4 cut(s) 42, 486, 852, 908
BstHHI GCGC 2 cut(s) 486, 805
BstKTI GATC 6 cut(s) 294, 474, 790, 1106, 1207, 1489
BstMAI GTCTC 4 cut(s) 399, 412, 828, 956
BstMBI GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
BstMWI GCNNNNNNNGC 6 cut(s) 490, 683, 737, 1169, 1196, 1286
BstNI CCWGG 1 cut(s) 405
BstPI GGTNACC 1 cut(s) 4
BstSCI CCNGG 5 cut(s) 354, 403, 693, 844, 862
BstSFI CTRYAG 1 cut(s) 477
BstSNI TACGTA 1 cut(s) 1385
BstUI CGCG 4 cut(s) 42, 486, 852, 908
BstV1I GCAGC 2 cut(s) 743, 1121
BstV2I GAAGAC 1 cut(s) 844
BstX2I RGATCY 1 cut(s) 291
BstYI RGATCY 1 cut(s) 291
BstZ17I GTATAC 1 cut(s) 430
BsuI GTATCC 2 cut(s) 538, 870
BsuRI GGCC 3 cut(s) 354, 849, 1163
BtgI CCRYGG 1 cut(s) 540
BtsCI GGATG 1 cut(s) 982
BtsIMutI CAGTG 1 cut(s) 332
BveI ACCTGC 1 cut(s) 140
Cac8I GCNNGC 2 cut(s) 807, 1524
CaiI CAGNNNCTG 1 cut(s) 374
CfoI GCGC 2 cut(s) 486, 805
Cfr10I RCCGGY 1 cut(s) 521
Cfr13I GGNCC 2 cut(s) 847, 1162
Csp6I GTAC 5 cut(s) 90, 95, 177, 754, 1386
CspAI ACCGGT 1 cut(s) 521
CviAII CATG 2 cut(s) 751, 1126
CviQI GTAC 5 cut(s) 90, 95, 177, 754, 1386
DdeI CTNAG 3 cut(s) 288, 1221, 1538
DpnI GATC 6 cut(s) 293, 473, 789, 1105, 1206, 1488
DpnII GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
DraI TTTAAA 2 cut(s) 81, 1395
EaeI YGGCCR 1 cut(s) 352
Eam1104I CTCTTC 1 cut(s) 831
EarI CTCTTC 1 cut(s) 831
EciI GGCGGA 1 cut(s) 701
Eco105I TACGTA 1 cut(s) 1385
Eco24I GRGCYC 1 cut(s) 438
Eco31I GGTCTC 1 cut(s) 956
Eco57I CTGAAG 2 cut(s) 699, 1493
Eco91I GGTNACC 1 cut(s) 4
EcoNI CCTNNNNNAGG 1 cut(s) 723
EcoO65I GGTNACC 1 cut(s) 4
EcoRII CCWGG 1 cut(s) 403
EcoT38I GRGCYC 1 cut(s) 438
Esp3I CGTCTC 1 cut(s) 412
FaeI CATG 2 cut(s) 754, 1129
FaqI GGGAC 1 cut(s) 524
FatI CATG 2 cut(s) 750, 1125
FauI CCCGC 1 cut(s) 486
FblI GTMKAC 1 cut(s) 429
Fnu4HI GCNGC 5 cut(s) 684, 732, 850, 906, 1110
FokI GGATG 1 cut(s) 989
FriOI GRGCYC 1 cut(s) 438
Fsp4HI GCNGC 5 cut(s) 684, 732, 850, 906, 1110
GlaI GCGC 2 cut(s) 485, 804
GluI GCNGC 5 cut(s) 684, 732, 850, 906, 1110
HaeIII GGCC 3 cut(s) 354, 849, 1163
HapII CCGG 6 cut(s) 355, 522, 695, 845, 863, 1320
HhaI GCGC 2 cut(s) 486, 805
Hin1II CATG 2 cut(s) 754, 1129
Hin6I GCGC 2 cut(s) 484, 803
HinP1I GCGC 2 cut(s) 484, 803
HincII GTYRAC 1 cut(s) 1244
HindII GTYRAC 1 cut(s) 1244
HinfI GANTC 9 cut(s) 203, 377, 392, 464, 550, 689, 1059, 1225, 1340
HpaII CCGG 6 cut(s) 355, 522, 695, 845, 863, 1320
HphI GGTGA 4 cut(s) 164, 245, 640, 941
Hpy166II GTNNAC 2 cut(s) 430, 1244
Hpy188I TCNGA 7 cut(s) 195, 291, 376, 1064, 1204, 1224, 1491
Hpy188III TCNNGA 7 cut(s) 134, 417, 1095, 1208, 1337, 1484, 1511
Hpy8I GTNNAC 2 cut(s) 430, 1244
HpyAV CCTTC 3 cut(s) 167, 449, 926
HpyCH4III ACNGT 5 cut(s) 94, 239, 708, 758, 1331
HpyCH4IV ACGT 5 cut(s) 46, 421, 1252, 1384, 1498
HpyCH4V TGCA 3 cut(s) 332, 1172, 1190
HpyF10VI GCNNNNNNNGC 6 cut(s) 490, 683, 737, 1169, 1196, 1286
HpyF3I CTNAG 3 cut(s) 288, 1221, 1538
HpySE526I ACGT 5 cut(s) 46, 421, 1252, 1384, 1498
Hsp92II CATG 2 cut(s) 754, 1129
HspAI GCGC 2 cut(s) 484, 803
Kzo9I GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
LmnI GCTCC 3 cut(s) 406, 721, 728
Lsp1109I GCAGC 2 cut(s) 743, 1121
LweI GCATC 1 cut(s) 617
MaeII ACGT 5 cut(s) 46, 421, 1252, 1384, 1498
MaeIII GTNAC 4 cut(s) 4, 233, 628, 1380
MalI GATC 6 cut(s) 293, 473, 789, 1105, 1206, 1488
MboI GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
MboII GAAGA 7 cut(s) 182, 291, 603, 818, 849, 1307, 1422
MfeI CAATTG 1 cut(s) 1229
MflI RGATCY 1 cut(s) 291
MhlI GDGCHC 1 cut(s) 438
MlyI GAGTC 1 cut(s) 401
MnlI CCTC 7 cut(s) 61, 247, 298, 382, 1232, 1444, 1468
MroXI GAANNNNTTC 1 cut(s) 1500
MseI TTAA 8 cut(s) 80, 227, 386, 773, 1074, 1119, 1148, 1394
MslI CAYNNNNRTG 1 cut(s) 668
MspA1I CMGCKG 1 cut(s) 493
MspI CCGG 6 cut(s) 355, 522, 695, 845, 863, 1320
MspR9I CCNGG 5 cut(s) 356, 405, 695, 846, 864
MunI CAATTG 1 cut(s) 1229
MvaI CCWGG 1 cut(s) 405
MvnI CGCG 4 cut(s) 42, 486, 852, 908
MwoI GCNNNNNNNGC 6 cut(s) 490, 683, 737, 1169, 1196, 1286
NciI CCSGG 4 cut(s) 356, 695, 846, 864
NdeII GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
NlaIII CATG 2 cut(s) 754, 1129
NmuCI GTSAC 2 cut(s) 233, 628
OliI CACNNNNGTG 1 cut(s) 668
PaqCI CACCTGC 1 cut(s) 140
PdmI GAANNNNTTC 1 cut(s) 1500
PfeI GAWTC 8 cut(s) 203, 377, 464, 550, 689, 1059, 1225, 1340
PfoI TCCNGGA 1 cut(s) 862
PinAI ACCGGT 1 cut(s) 521
PkrI GCNGC 5 cut(s) 685, 733, 851, 907, 1111
PleI GAGTC 1 cut(s) 400
PpsI GAGTC 1 cut(s) 400
Ppu21I YACGTR 2 cut(s) 1253, 1385
PshBI ATTAAT 2 cut(s) 227, 1074
Psp1406I AACGTT 1 cut(s) 1498
Psp6I CCWGG 1 cut(s) 403
PspEI GGTNACC 1 cut(s) 4
PspGI CCWGG 1 cut(s) 403
PspPI GGNCC 2 cut(s) 847, 1162
PsrI GAACNNNNNNTAC 2 cut(s) 1488, 1520
PstNI CAGNNNCTG 1 cut(s) 374
PsuI RGATCY 1 cut(s) 291
RsaI GTAC 5 cut(s) 91, 96, 178, 755, 1387
RsaNI GTAC 5 cut(s) 90, 95, 177, 754, 1386
RseI CAYNNNNRTG 1 cut(s) 668
SaqAI TTAA 8 cut(s) 80, 227, 386, 773, 1074, 1119, 1148, 1394
SatI GCNGC 5 cut(s) 684, 732, 850, 906, 1110
Sau3AI GATC 6 cut(s) 291, 471, 787, 1103, 1204, 1486
Sau96I GGNCC 2 cut(s) 847, 1162
SchI GAGTC 1 cut(s) 401
ScrFI CCNGG 5 cut(s) 356, 405, 695, 846, 864
SduI GDGCHC 1 cut(s) 438
SfaNI GCATC 1 cut(s) 617
SfcI CTRYAG 1 cut(s) 477
SmiMI CAYNNNNRTG 1 cut(s) 668
SmlI CTYRAG 1 cut(s) 621
SmoI CTYRAG 1 cut(s) 621
SnaBI TACGTA 1 cut(s) 1385
SspI AATATT 3 cut(s) 34, 746, 1029
StyD4I CCNGG 5 cut(s) 354, 403, 693, 844, 862
TaaI ACNGT 5 cut(s) 94, 239, 708, 758, 1331
TaiI ACGT 5 cut(s) 49, 424, 1255, 1387, 1501
TaqI TCGA 4 cut(s) 13, 416, 467, 1209
TatI WGTACW 1 cut(s) 94
TauI GCSGC 3 cut(s) 686, 852, 908
TfiI GAWTC 8 cut(s) 203, 377, 464, 550, 689, 1059, 1225, 1340
Tru1I TTAA 8 cut(s) 80, 227, 386, 773, 1074, 1119, 1148, 1394
Tru9I TTAA 8 cut(s) 80, 227, 386, 773, 1074, 1119, 1148, 1394
TscAI CASTG 1 cut(s) 339
TseFI GTSAC 2 cut(s) 233, 628
TseI GCWGC 2 cut(s) 731, 1109
Tsp45I GTSAC 2 cut(s) 233, 628
TspDTI ATGAA 5 cut(s) 36, 153, 739, 1142, 1332
TspGWI ACGGA 2 cut(s) 415, 557
TspRI CASTG 1 cut(s) 339
VspI ATTAAT 2 cut(s) 227, 1074
XagI CCTNNNNNAGG 1 cut(s) 723
XapI RAATTY 4 cut(s) 164, 196, 363, 1367
XmiI GTMKAC 1 cut(s) 429
XmnI GAANNNNTTC 1 cut(s) 1500
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.