MD03G1163400.v1.1

ATP synthase regulation protein NCA2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0011465
Physical Location & Seq
Forward (+)
20319533 .. 20336643
17111 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1163400.v1.1.491

Sequence Viewer

Length: 1797 bp
ATGGAGGTCAGTCCAGCCCCAGCGAGTGATGGAACCGAAACCAAGGGCCTGAAACCCCTCATCTCGCTCTACTCCAACCGTCTCTGGAACCGCGTCCGCCGCTTCCTCCCCGCTTCTGATTCCAATTTTCTCCGGAAAATTCCAATTCTTGCTGGGGCTGGGGAAGCCAGATCACGGAAACGACGAGAATGTCTTCCTCTTCCGCTGCCTTTTAATCCACTGGAATCATCTGGGGTATCGACAGAGGCATCTAGAGTTTTTGATGTTCTACATGATATGTTGGAACACATCTTCTACAATTTGCATAATATCCAGAAGAACTTGCAGTTTTGGCAATCTAGGGCTGAGGGATCTAATGCTCAAAAAGTTAAATTTATGGTGTTAGAGAGAGGGCCACATGCTTTTATTGAAGGTGCAATTCAGCTGATACGTGGATGCATTGCTGAAGGTTCTTCTATACAGAGTATATCCCTCTCTGCATCTGCTCACATATCTGAACGGATAACTATATTAACTAGCTTGAGATGTTCTCTCGCCACATTTTTGGCCCAGGTTTACATGGAAATTGACAAGTTTGGAGACGGGTTAGTGAGCGATCCAGAGAATTCATTGCCTTCCTTACTAATTAGAATTAATGGCTTATTCTTCAAACTAGAGGCATCTGTTGGCCATGTGCATGCAATGCGGCAGGTTGATTCGTCTGTTGAGGGCAGCTATTCAGTTCCACTACTATTTGAGAAACTCCCGGAAATAAATCAAGAAGGATCCCAGTGGACAGACTGTGAAATTAAGGATGCTATCAATTTGGTTTATCAGAATCTGGACAAGCTCGATTCTTACTTGTCTTCTATTGTTTGCAAACATCGTAAACCAAGGAAGGTAACACAATATTGGATCCGTTATACATGTGGTGCGGTTGGCTTCTCAGTTTGTTCTGTGTGGCTTATAGGACATAGTAGTCTGATGGGAAGTCCTGACATTGACAATTGGGTTCGTGAAGCGAGGGATTCAACAGTCAGCTTCTTTAGCGATCATGTGGAGCAACCGCTTCTGTCTATTAGAGATGAACTCTTTGAGACATTCAGGAAAAGACATAAAGGAATGATGGATCACGAAGAAGTGCAACTAACTTCTAATTCTCTACACAGAATGTTACTGGCTTTCATTGAGCAGACAAAAGGCCAAAAGTTCCCAGAGAATGCATCAGATCAGGAAATGCTTGAAATAGTCATGGCCAGGTACGAAGAGGAACTTACCCATCCTATTCAGAACCTTCTTAATGGAGAGCTGGCTCGTGCTATGCTGATCCAGGTTCAGAAGCTAAAGCTGGATATTGAAACGGCGATGCTTGAACTCAACCAAATTCTGAGGGCAAATGAGATCAATTTTGCTATTCTGGCGGCTTTACCGGCATTCTTCCTCTCCCTCATTCTGCTAATGGTAGTGCGTGCATGGTTCAAGCAGGATACTAGAGCAGAAGGAAGGGGAAGAATTGCTCGGATCCAGCGGAGGTTACTGGTTGTGGAGGTTGAGAAACAGATTATGCAGTATCGTACTTTTTACGGTCAAGGGATGGAGAAAGAAGCGCAGTGCGTGTATGGATTGTTGTTGTATAGTCTGGATCGACTATACCGTGCTGTCAAGAGGCACGCAAAAGCAACCGGTGAATGGAAATGGTTGAGTGAGGATATTGTTGATTTGGGGAAGCCCAGCCTCCAAATTGGAGATAAACTCATATTGACCTCACGCATGGTACGAGTGTACGACTGTCTGCTTCCTTCGTTGAAACGCCAATAG
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
NCA2

Protein Analysis

599

Amino Acids

68.2

Weight (kDa)

8.25

Isoelectric Point (pI)

40.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NCA2 PF08637 314 - 588 2.1e-73 ATP synthase regulation protein NCA2
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: OG0011465)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G12290 AT5G12290 AT5G12290 AT5G12290
fragaria_vesca FvH4_5g07960
malus_domestica MD03G1163400.v1.1
prunus_persica Prupe.4G269200_v2.0.a1
pyrus_communis pycom5153684g00200
rosa_chinensis RchiOBHm_Chr7g0190441
rosa_laevigata RLG00000004532
rosa_multiflora Rmu_sc0002614.1_g000003 Rmu_sc0029194.1_g000001
rosa_roxburghii Rroxscaffold_3G00264620
rosa_rugosa Rorug06G0504700
rosa_samantha Rh7AG110600 Rh7BG113200 Rh7CG115400 Rh7DG113700
rosa_wichuraiana Rw0G019860 Rw7G009600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 189, 957
Acc36I ACCTGC 1 cut(s) 679
AccII CGCG 1 cut(s) 93
AccIII TCCGGA 1 cut(s) 132
AcoI YGGCCR 2 cut(s) 667, 1233
AcsI RAATTY 4 cut(s) 138, 371, 604, 1362
AcuI CTGAAG 1 cut(s) 465
AfaI GTAC 4 cut(s) 1241, 1555, 1755, 1763
AfiI CCNNNNNNNGG 2 cut(s) 174, 1668
AflIII ACRYGT 1 cut(s) 905
AgeI ACCGGT 1 cut(s) 1661
AgsI TTSAA 8 cut(s) 410, 649, 1011, 1223, 1337, 1352, 1459, 1786
AjnI CCWGG 3 cut(s) 549, 1235, 1308
AluBI AGCT 8 cut(s) 424, 519, 714, 829, 1020, 1288, 1321, 1327
AluI AGCT 8 cut(s) 424, 519, 714, 829, 1020, 1288, 1321, 1327
Alw26I GTCTC 3 cut(s) 86, 573, 1070
AlwNI CAGNNNCTG 1 cut(s) 820
Aor13HI TCCGGA 1 cut(s) 132
AoxI GGCC 6 cut(s) 46, 392, 546, 667, 1180, 1233
ApeKI GCWGC 2 cut(s) 205, 711
ApoI RAATTY 4 cut(s) 138, 371, 604, 1362
AseI ATTAAT 1 cut(s) 633
AsiGI ACCGGT 1 cut(s) 1661
Asp700I GAANNNNTTC 1 cut(s) 192
AspLEI GCGC 1 cut(s) 1588
AspS9I GGNCC 3 cut(s) 46, 392, 547
AsuC2I CCSGG 1 cut(s) 746
AsuHPI GGTGA 1 cut(s) 1676
BaeI ACNNNNGTAYC 2 cut(s) 1745, 1778
BalI TGGCCA 2 cut(s) 669, 1235
BamHI GGATCC 3 cut(s) 764, 894, 1500
BauI CACGAG 1 cut(s) 1293
BbsI GAAGAC 2 cut(s) 185, 837
BbvCI CCTCAGC 1 cut(s) 345
BbvI GCAGC 2 cut(s) 192, 723
BccI CCATC 5 cut(s) 23, 958, 1099, 1266, 1567
BceAI ACGGC 1 cut(s) 1356
BciT130I CCWGG 3 cut(s) 551, 1237, 1310
BciVI GTATCC 1 cut(s) 1459
BcnI CCSGG 1 cut(s) 746
BcoDI GTCTC 3 cut(s) 86, 573, 1070
BfaI CTAG 5 cut(s) 252, 339, 516, 653, 1470
BfuAI ACCTGC 1 cut(s) 679
BfuI GTATCC 1 cut(s) 1459
BisI GCNGC 5 cut(s) 100, 206, 686, 712, 1401
BlsI GCNGC 5 cut(s) 101, 207, 687, 713, 1402
Bme1390I CCNGG 4 cut(s) 551, 746, 1237, 1310
BmgT120I GGNCC 3 cut(s) 46, 392, 547
BmiI GGNNCC 5 cut(s) 34, 89, 766, 896, 1502
BmrFI CCNGG 4 cut(s) 551, 746, 1237, 1310
BmrI ACTGGG 1 cut(s) 763
BmsI GCATC 7 cut(s) 257, 425, 488, 668, 784, 1211, 1335
BmuI ACTGGG 1 cut(s) 763
BpiI GAAGAC 2 cut(s) 185, 837
BplI GAGNNNNNCTC 6 cut(s) 514, 546, 1053, 1085, 1716, 1748
Bpu10I CCTNAGC 1 cut(s) 345
BpuEI CTTGAG 1 cut(s) 541
BpuMI CCSGG 1 cut(s) 746
BsaAI YACGTR 1 cut(s) 431
BsaJI CCNNGG 3 cut(s) 42, 549, 872
BsaWI WCCGGW 2 cut(s) 132, 1661
Bsc4I CCNNNNNNNGG 2 cut(s) 174, 1668
Bse118I RCCGGY 2 cut(s) 1408, 1661
Bse1I ACTGG 4 cut(s) 225, 769, 1161, 1521
Bse3DI GCAATG 3 cut(s) 438, 608, 687
BseAI TCCGGA 1 cut(s) 132
BseBI CCWGG 3 cut(s) 551, 1237, 1310
BseDI CCNNGG 3 cut(s) 42, 549, 872
BseGI GGATG 4 cut(s) 440, 799, 1258, 1578
BseLI CCNNNNNNNGG 2 cut(s) 174, 1668
BseMI GCAATG 3 cut(s) 438, 608, 687
BseMII CTCAG 3 cut(s) 336, 939, 1358
BseNI ACTGG 4 cut(s) 225, 769, 1161, 1521
BseXI GCAGC 2 cut(s) 192, 723
BseYI CCCAGC 4 cut(s) 19, 152, 158, 1709
Bsh1236I CGCG 1 cut(s) 93
BshFI GGCC 6 cut(s) 48, 394, 548, 669, 1182, 1235
BshTI ACCGGT 1 cut(s) 1661
BsiSI CCGG 4 cut(s) 133, 746, 1409, 1662
BslI CCNNNNNNNGG 2 cut(s) 174, 1668
BsmAI GTCTC 3 cut(s) 86, 573, 1070
BsmBI CGTCTC 2 cut(s) 86, 573
BsmI GAATGC 2 cut(s) 1204, 1412
BsnI GGCC 6 cut(s) 48, 394, 548, 669, 1182, 1235
Bsp13I TCCGGA 1 cut(s) 132
BspANI GGCC 6 cut(s) 48, 394, 548, 669, 1182, 1235
BspCNI CTCAG 3 cut(s) 337, 938, 1359
BspEI TCCGGA 1 cut(s) 132
BspFNI CGCG 1 cut(s) 93
BspLI GGNNCC 5 cut(s) 34, 89, 766, 896, 1502
BspMI ACCTGC 1 cut(s) 679
BsrDI GCAATG 3 cut(s) 438, 608, 687
BsrFI RCCGGY 2 cut(s) 1408, 1661
BsrI ACTGG 4 cut(s) 225, 769, 1161, 1521
BssAI RCCGGY 2 cut(s) 1408, 1661
BssECI CCNNGG 3 cut(s) 42, 549, 872
BssSI CACGAG 1 cut(s) 1293
BssT1I CCWWGG 2 cut(s) 42, 872
Bst2BI CACGAG 1 cut(s) 1293
Bst2UI CCWGG 3 cut(s) 551, 1237, 1310
Bst4CI ACNGT 6 cut(s) 80, 782, 1015, 1565, 1634, 1769
Bst6I CTCTTC 2 cut(s) 204, 1239
BstAPI GCANNNNNTGC 1 cut(s) 682
BstBAI YACGTR 1 cut(s) 431
BstC8I GCNNGC 4 cut(s) 678, 1290, 1449, 1650
BstDEI CTNAG 3 cut(s) 345, 925, 1367
BstF5I GGATG 4 cut(s) 440, 799, 1258, 1578
BstFNI CGCG 1 cut(s) 93
BstHHI GCGC 1 cut(s) 1588
BstMAI GTCTC 3 cut(s) 86, 573, 1070
BstMWI GCNNNNNNNGC 7 cut(s) 99, 164, 331, 682, 1026, 1397, 1409
BstNI CCWGG 3 cut(s) 551, 1237, 1310
BstNSI RCATGY 3 cut(s) 401, 680, 909
BstSCI CCNGG 4 cut(s) 549, 744, 1235, 1308
BstUI CGCG 1 cut(s) 93
BstV1I GCAGC 2 cut(s) 192, 723
BstV2I GAAGAC 2 cut(s) 185, 837
BstX2I RGATCY 4 cut(s) 350, 764, 894, 1500
BstXI CCANNNNNNTGG 1 cut(s) 544
BstYI RGATCY 4 cut(s) 350, 764, 894, 1500
BsuI GTATCC 1 cut(s) 1459
BsuRI GGCC 6 cut(s) 48, 394, 548, 669, 1182, 1235
BtgZI GCGATG 1 cut(s) 1358
BtsCI GGATG 4 cut(s) 440, 799, 1258, 1578
BtsI GCAGTG 1 cut(s) 1595
BtsIMutI CAGTG 3 cut(s) 218, 776, 1595
BveI ACCTGC 1 cut(s) 679
Cac8I GCNNGC 4 cut(s) 678, 1290, 1449, 1650
CaiI CAGNNNCTG 1 cut(s) 820
CfoI GCGC 1 cut(s) 1588
Cfr10I RCCGGY 2 cut(s) 1408, 1661
Cfr13I GGNCC 3 cut(s) 46, 392, 547
CseI GACGC 1 cut(s) 82
Csp6I GTAC 4 cut(s) 1240, 1554, 1754, 1762
CspAI ACCGGT 1 cut(s) 1661
CviQI GTAC 4 cut(s) 1240, 1554, 1754, 1762
DdeI CTNAG 3 cut(s) 345, 925, 1367
DrdI GACNNNNNNGTC 2 cut(s) 189, 957
DseDI GACNNNNNNGTC 2 cut(s) 189, 957
EaeI YGGCCR 2 cut(s) 667, 1233
Eam1104I CTCTTC 2 cut(s) 204, 1239
EarI CTCTTC 2 cut(s) 204, 1239
EciI GGCGGA 1 cut(s) 86
Eco130I CCWWGG 2 cut(s) 42, 872
Eco57I CTGAAG 1 cut(s) 465
EcoO109I RGGNCCY 1 cut(s) 46
EcoRI GAATTC 1 cut(s) 604
EcoRII CCWGG 3 cut(s) 549, 1235, 1308
EcoT14I CCWWGG 2 cut(s) 42, 872
EcoT22I ATGCAT 2 cut(s) 440, 1204
ErhI CCWWGG 2 cut(s) 42, 872
Esp3I CGTCTC 2 cut(s) 86, 573
FalI AAGNNNNNCTT 2 cut(s) 1236, 1268
FauI CCCGC 1 cut(s) 118
Fnu4HI GCNGC 5 cut(s) 100, 206, 686, 712, 1401
FokI GGATG 4 cut(s) 447, 806, 1245, 1585
Fsp4HI GCNGC 5 cut(s) 100, 206, 686, 712, 1401
FspBI CTAG 5 cut(s) 252, 339, 516, 653, 1470
GlaI GCGC 1 cut(s) 1587
GluI GCNGC 5 cut(s) 100, 206, 686, 712, 1401
GsaI CCCAGC 4 cut(s) 23, 156, 162, 1713
HaeIII GGCC 6 cut(s) 48, 394, 548, 669, 1182, 1235
HapII CCGG 4 cut(s) 133, 746, 1409, 1662
HgaI GACGC 1 cut(s) 82
HhaI GCGC 1 cut(s) 1588
Hin6I GCGC 1 cut(s) 1586
HinP1I GCGC 1 cut(s) 1586
HinfI GANTC 6 cut(s) 119, 224, 695, 817, 833, 1007
HpaII CCGG 4 cut(s) 133, 746, 1409, 1662
HphI GGTGA 1 cut(s) 1676
Hpy166II GTNNAC 4 cut(s) 556, 774, 869, 1762
Hpy188I TCNGA 9 cut(s) 118, 496, 816, 963, 1207, 1269, 1317, 1368, 1500
Hpy8I GTNNAC 4 cut(s) 556, 774, 869, 1762
Hpy99I CGWCG 1 cut(s) 186
HpyAV CCTTC 9 cut(s) 404, 440, 624, 755, 871, 1283, 1472, 1476, 1788
HpyCH4III ACNGT 6 cut(s) 80, 782, 1015, 1565, 1634, 1769
HpyCH4IV ACGT 1 cut(s) 430
HpyF10VI GCNNNNNNNGC 7 cut(s) 99, 164, 331, 682, 1026, 1397, 1409
HpyF3I CTNAG 3 cut(s) 345, 925, 1367
HpySE526I ACGT 1 cut(s) 430
HspAI GCGC 1 cut(s) 1586
Kpn2I TCCGGA 1 cut(s) 132
LmnI GCTCC 1 cut(s) 1039
Lsp1109I GCAGC 2 cut(s) 192, 723
LweI GCATC 7 cut(s) 257, 425, 488, 668, 784, 1211, 1335
MaeI CTAG 5 cut(s) 252, 339, 516, 653, 1470
MaeII ACGT 1 cut(s) 430
MaeIII GTNAC 3 cut(s) 880, 1152, 1512
MfeI CAATTG 1 cut(s) 985
MflI RGATCY 4 cut(s) 350, 764, 894, 1500
MlsI TGGCCA 2 cut(s) 669, 1235
MluNI TGGCCA 2 cut(s) 669, 1235
MmeI TCCRAC 2 cut(s) 99, 261
Mox20I TGGCCA 2 cut(s) 669, 1235
Mph1103I ATGCAT 2 cut(s) 440, 1204
MroI TCCGGA 1 cut(s) 132
MroXI GAANNNNTTC 1 cut(s) 192
MscI TGGCCA 2 cut(s) 669, 1235
MseI TTAA 6 cut(s) 213, 369, 512, 633, 789, 1278
MslI CAYNNNNRTG 1 cut(s) 675
Msp20I TGGCCA 2 cut(s) 669, 1235
MspA1I CMGCKG 3 cut(s) 205, 424, 1507
MspI CCGG 4 cut(s) 133, 746, 1409, 1662
MspR9I CCNGG 4 cut(s) 551, 746, 1237, 1310
MunI CAATTG 1 cut(s) 985
Mva1269I GAATGC 2 cut(s) 1204, 1412
MvaI CCWGG 3 cut(s) 551, 1237, 1310
MvnI CGCG 1 cut(s) 93
MwoI GCNNNNNNNGC 7 cut(s) 99, 164, 331, 682, 1026, 1397, 1409
NciI CCSGG 1 cut(s) 746
NlaIV GGNNCC 5 cut(s) 34, 89, 766, 896, 1502
NsiI ATGCAT 2 cut(s) 440, 1204
NspI RCATGY 3 cut(s) 401, 680, 909
PaeI GCATGC 1 cut(s) 680
PciI ACATGT 1 cut(s) 905
PcsI WCGNNNNNNNCGW 3 cut(s) 181, 1630, 1753
PctI GAATGC 2 cut(s) 1204, 1412
PdmI GAANNNNTTC 1 cut(s) 192
PfeI GAWTC 6 cut(s) 119, 224, 695, 817, 833, 1007
PfoI TCCNGGA 1 cut(s) 744
PinAI ACCGGT 1 cut(s) 1661
PkrI GCNGC 5 cut(s) 101, 207, 687, 713, 1402
Ppu21I YACGTR 1 cut(s) 431
PscI ACATGT 1 cut(s) 905
PshBI ATTAAT 1 cut(s) 633
Psp6I CCWGG 3 cut(s) 549, 1235, 1308
PspFI CCCAGC 4 cut(s) 19, 152, 158, 1709
PspGI CCWGG 3 cut(s) 549, 1235, 1308
PspN4I GGNNCC 5 cut(s) 34, 89, 766, 896, 1502
PspPI GGNCC 3 cut(s) 46, 392, 547
PstNI CAGNNNCTG 1 cut(s) 820
PsuI RGATCY 4 cut(s) 350, 764, 894, 1500
PvuII CAGCTG 1 cut(s) 424
RsaI GTAC 4 cut(s) 1241, 1555, 1755, 1763
RsaNI GTAC 4 cut(s) 1240, 1554, 1754, 1762
RseI CAYNNNNRTG 1 cut(s) 675
SaqAI TTAA 6 cut(s) 213, 369, 512, 633, 789, 1278
SatI GCNGC 5 cut(s) 100, 206, 686, 712, 1401
Sau96I GGNCC 3 cut(s) 46, 392, 547
ScrFI CCNGG 4 cut(s) 551, 746, 1237, 1310
SfaNI GCATC 7 cut(s) 257, 425, 488, 668, 784, 1211, 1335
SmiMI CAYNNNNRTG 1 cut(s) 675
SmlI CTYRAG 1 cut(s) 520
SmoI CTYRAG 1 cut(s) 520
SphI GCATGC 1 cut(s) 680
SspI AATATT 1 cut(s) 890
SspMI CTAG 5 cut(s) 252, 339, 516, 653, 1470
StyD4I CCNGG 4 cut(s) 549, 744, 1235, 1308
StyI CCWWGG 2 cut(s) 42, 872
TaaI ACNGT 6 cut(s) 80, 782, 1015, 1565, 1634, 1769
TaiI ACGT 1 cut(s) 433
TaqI TCGA 3 cut(s) 239, 831, 1624
TauI GCSGC 3 cut(s) 102, 688, 1403
TfiI GAWTC 6 cut(s) 119, 224, 695, 817, 833, 1007
Tru1I TTAA 6 cut(s) 213, 369, 512, 633, 789, 1278
Tru9I TTAA 6 cut(s) 213, 369, 512, 633, 789, 1278
TscAI CASTG 3 cut(s) 225, 776, 1595
TseI GCWGC 2 cut(s) 205, 711
TspDTI ATGAA 3 cut(s) 597, 1080, 1153
TspGWI ACGGA 3 cut(s) 190, 514, 887
TspRI CASTG 3 cut(s) 225, 776, 1595
VspI ATTAAT 1 cut(s) 633
XapI RAATTY 4 cut(s) 138, 371, 604, 1362
XbaI TCTAGA 1 cut(s) 251
XceI RCATGY 3 cut(s) 401, 680, 909
XmnI GAANNNNTTC 1 cut(s) 192
XspI CTAG 5 cut(s) 252, 339, 516, 653, 1470
Zsp2I ATGCAT 2 cut(s) 440, 1204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.