MD03G1086200.v1.1

Transcription initiation factor IIA large

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
Physical Location & Seq
Forward (+)
7050185 .. 7056253
6069 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1086200.v1.1.491

Sequence Viewer

Length: 1164 bp
ATGGCGGCCTCCACGAGCGGTGTCTACGTCAGTGTTATTGAGGATGTCATCAACAAGGTCCGCGAGGAGTTCTTGAACAACGGCCCCGGGGAAGACGTTCTGAAGGAGCTTCAAGGAACTTGGGAGGCGAAGACGGTGCAGGCTGGTGTAGTAAATAATCCTATAGAGAGGTCGGCGGCAAAGGGAACGCCTGGCAGTGGGGTTACTCCAGTTCACGATCTCAATGTACCGTATGAAGGGACCGAGGAGTACGAAACTCCCACTGCCGAGATGCTCTTCCCTCCAACGCCGTTGCAAACCCCAATTCCTGCAACCCCAATTCCAACACCTCTACCTGGAACTGGTGACAACATGTATAACATCCCTACCGGAGGTAGTGAATATTCTGCAAATGAGTCTGGTAGCAGCAATGGTGGTGTCAATGCAGAGTTGAAAGCTGGAAGATCTGGCCCCTACATGCAACCTTCATCTACTTGGATGAACCACCGCCCCCCTCTTGATGTTAATATTGCTTACGTGGAAGGGCGGGATGAGGCAGATAGAGGGGCCTCTCATCAACCCCCAACACAGGATTTTTTCCAGATGAATTCTGGAAAGCGAAAACGTGAAGATTTTCCTGCACAGTATCAAGCTGGTGGATATTTACCCCAGCAAGATGGAGCTGGAGATGCTGCACCTGAGATTTTTGAGATTGAGGTCAGTGAAGGGAGCTCATCCATTGCCAGCCGTGCATGGAGTGAGATGTTAACACGTGTACGAAGTTCTACTCTCAAGATTCCTCAACTTGATGGACCAATCCCTGATCCTTATGATGAGCTTTCTACTCCCAATATATACAATTATCAAGGAGCTTTCAATGAAGACTACAATGTTGCCAGCACACCTGCTCCTCATGATATACCAGTGAGCACTCCAGCTCCGGTTGTTCAAAATGATGTTGGAGATGATGATGATGATGAACCCCCATTGAATGAAAATGATGACGATGAGTTGGATGATGTGGACCAAGGTGATGAGCTAAACACAGCACATTTGGTTTTGGCCCAGTTTGACAAGGTAACACGCACCAAGAGCAGGTGGAAGTGCACATTGAAGGACGGCATTATGCACATAAACAACAAGGATATTCTCTTCAACAAGGCGACGGGAGAATTTGAATTCTGA

Protein Analysis

388

Amino Acids

42.06

Weight (kDa)

4.29

Isoelectric Point (pI)

49.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIA PF03153 8 - 387 5.7e-48 Transcription factor IIA, alpha/beta subunit
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 2 cut(s) 892, 1065
Acc36I ACCTGC 2 cut(s) 892, 1065
AccBSI CCGCTC 1 cut(s) 18
AccI GTMKAC 1 cut(s) 24
AccII CGCG 1 cut(s) 63
AciI CCGC 6 cut(s) 5, 18, 61, 176, 487, 526
AclWI GGATC 1 cut(s) 797
AcsI RAATTY 3 cut(s) 586, 1151, 1157
AcuI CTGAAG 1 cut(s) 122
AcvI CACGTG 1 cut(s) 752
AfaI GTAC 3 cut(s) 228, 251, 756
AfiI CCNNNNNNNGG 7 cut(s) 197, 236, 335, 341, 371, 568, 1074
AflIII ACRYGT 3 cut(s) 351, 749, 751
AgsI TTSAA 9 cut(s) 76, 113, 433, 856, 929, 970, 1093, 1135, 1157
AjnI CCWGG 2 cut(s) 190, 334
AluBI AGCT 9 cut(s) 109, 437, 632, 662, 711, 817, 851, 917, 1018
AluI AGCT 9 cut(s) 109, 437, 632, 662, 711, 817, 851, 917, 1018
Alw21I GWGCWC 3 cut(s) 713, 911, 1088
Alw44I GTGCAC 1 cut(s) 1084
AlwI GGATC 1 cut(s) 797
Ama87I CYCGRG 1 cut(s) 86
AoxI GGCC 5 cut(s) 6, 82, 448, 546, 1041
ApaLI GTGCAC 1 cut(s) 1084
ApeKI GCWGC 2 cut(s) 405, 671
ApoI RAATTY 3 cut(s) 586, 1151, 1157
Asp700I GAANNNNTTC 2 cut(s) 96, 612
AspS9I GGNCC 8 cut(s) 58, 83, 240, 449, 546, 791, 1003, 1042
AsuC2I CCSGG 2 cut(s) 87, 88
AsuHPI GGTGA 2 cut(s) 356, 1022
AvaI CYCGRG 1 cut(s) 86
AvaII GGWCC 4 cut(s) 58, 240, 791, 1003
BaeGI GKGCMC 1 cut(s) 1088
BanII GRGCYC 1 cut(s) 713
BauI CACGAG 1 cut(s) 13
BbrPI CACGTG 1 cut(s) 752
BbsI GAAGAC 3 cut(s) 99, 137, 867
Bbv12I GWGCWC 3 cut(s) 713, 911, 1088
BbvI GCAGC 2 cut(s) 417, 658
BccI CCATC 2 cut(s) 650, 782
BceAI ACGGC 4 cut(s) 97, 274, 711, 1114
BcgI CGANNNNNNTGC 2 cut(s) 118, 152
BciT130I CCWGG 2 cut(s) 192, 336
BcnI CCSGG 2 cut(s) 87, 88
BfmI CTRYAG 1 cut(s) 162
BfuAI ACCTGC 2 cut(s) 892, 1065
BglII AGATCT 1 cut(s) 443
BisI GCNGC 4 cut(s) 6, 177, 406, 672
BlsI GCNGC 4 cut(s) 7, 178, 407, 673
Bme1390I CCNGG 4 cut(s) 87, 88, 192, 336
Bme18I GGWCC 4 cut(s) 58, 240, 791, 1003
BmeT110I CYCGRG 1 cut(s) 86
BmgT120I GGNCC 8 cut(s) 58, 83, 240, 449, 546, 791, 1003, 1042
BmiI GGNNCC 4 cut(s) 85, 241, 451, 547
BmrFI CCNGG 4 cut(s) 87, 88, 192, 336
BmrI ACTGGG 1 cut(s) 1039
BmsI GCATC 2 cut(s) 261, 658
BmuI ACTGGG 1 cut(s) 1039
BpiI GAAGAC 3 cut(s) 99, 137, 867
BpmI CTGGAG 3 cut(s) 192, 684, 897
BpuEI CTTGAG 1 cut(s) 755
BpuMI CCSGG 2 cut(s) 87, 88
BsaAI YACGTR 2 cut(s) 517, 752
BsaJI CCNNGG 5 cut(s) 85, 86, 87, 243, 1006
BsaWI WCCGGW 2 cut(s) 368, 919
BsaXI ACNNNNNCTCC 4 cut(s) 871, 901, 901, 931
Bsc4I CCNNNNNNNGG 7 cut(s) 197, 236, 335, 341, 371, 568, 1074
Bse1I ACTGG 4 cut(s) 209, 346, 902, 1045
Bse3DI GCAATG 2 cut(s) 415, 717
BseBI CCWGG 2 cut(s) 192, 336
BseDI CCNNGG 5 cut(s) 85, 86, 87, 243, 1006
BseGI GGATG 6 cut(s) 49, 360, 483, 535, 713, 1000
BseLI CCNNNNNNNGG 7 cut(s) 197, 236, 335, 341, 371, 568, 1074
BseMI GCAATG 2 cut(s) 415, 717
BseMII CTCAG 1 cut(s) 669
BseNI ACTGG 4 cut(s) 209, 346, 902, 1045
BseRI GAGGAG 3 cut(s) 80, 260, 879
BseSI GKGCMC 1 cut(s) 1088
BseXI GCAGC 2 cut(s) 417, 658
BseYI CCCAGC 1 cut(s) 648
BsgI GTGCAG 3 cut(s) 158, 603, 657
Bsh1236I CGCG 1 cut(s) 63
BshFI GGCC 5 cut(s) 8, 84, 450, 548, 1043
BsiHKAI GWGCWC 3 cut(s) 713, 911, 1088
BsiHKCI CYCGRG 1 cut(s) 86
BsiSI CCGG 3 cut(s) 87, 369, 920
BslFI GGGAC 1 cut(s) 253
BslI CCNNNNNNNGG 7 cut(s) 197, 236, 335, 341, 371, 568, 1074
BsmFI GGGAC 1 cut(s) 253
BsnI GGCC 5 cut(s) 8, 84, 450, 548, 1043
BsoBI CYCGRG 1 cut(s) 86
Bsp1286I GDGCHC 3 cut(s) 713, 911, 1088
Bsp143I GATC 3 cut(s) 217, 443, 802
BspACI CCGC 6 cut(s) 5, 18, 61, 176, 487, 526
BspANI GGCC 5 cut(s) 8, 84, 450, 548, 1043
BspCNI CTCAG 1 cut(s) 670
BspFNI CGCG 1 cut(s) 63
BspHI TCATGA 1 cut(s) 892
BspLI GGNNCC 4 cut(s) 85, 241, 451, 547
BspMI ACCTGC 2 cut(s) 892, 1065
BspPI GGATC 1 cut(s) 797
BspQI GCTCTTC 1 cut(s) 281
BsrBI CCGCTC 1 cut(s) 18
BsrDI GCAATG 2 cut(s) 415, 717
BsrI ACTGG 4 cut(s) 209, 346, 902, 1045
BssECI CCNNGG 5 cut(s) 85, 86, 87, 243, 1006
BssMI GATC 3 cut(s) 217, 443, 802
BssSI CACGAG 1 cut(s) 13
BssT1I CCWWGG 1 cut(s) 1006
Bst2BI CACGAG 1 cut(s) 13
Bst2UI CCWGG 2 cut(s) 192, 336
Bst4CI ACNGT 3 cut(s) 136, 231, 624
Bst6I CTCTTC 2 cut(s) 281, 1136
BstBAI YACGTR 2 cut(s) 517, 752
BstC8I GCNNGC 3 cut(s) 141, 724, 877
BstDEI CTNAG 1 cut(s) 678
BstENI CCTNNNNNAGG 1 cut(s) 369
BstF5I GGATG 6 cut(s) 49, 360, 483, 535, 713, 1000
BstFNI CGCG 1 cut(s) 63
BstKTI GATC 3 cut(s) 220, 446, 805
BstMBI GATC 3 cut(s) 217, 443, 802
BstMWI GCNNNNNNNGC 3 cut(s) 668, 728, 1071
BstNI CCWGG 2 cut(s) 192, 336
BstNSI RCATGY 2 cut(s) 355, 460
BstSCI CCNGG 4 cut(s) 85, 86, 190, 334
BstSFI CTRYAG 1 cut(s) 162
BstSLI GKGCMC 1 cut(s) 1088
BstUI CGCG 1 cut(s) 63
BstV1I GCAGC 2 cut(s) 417, 658
BstV2I GAAGAC 3 cut(s) 99, 137, 867
BstX2I RGATCY 1 cut(s) 443
BstXI CCANNNNNNTGG 1 cut(s) 656
BstYI RGATCY 1 cut(s) 443
BsuRI GGCC 5 cut(s) 8, 84, 450, 548, 1043
BtsCI GGATG 6 cut(s) 49, 360, 483, 535, 713, 1000
BtsI GCAGTG 2 cut(s) 202, 261
BtsIMutI CAGTG 5 cut(s) 37, 202, 261, 706, 909
BveI ACCTGC 2 cut(s) 892, 1065
Cac8I GCNNGC 3 cut(s) 141, 724, 877
CciI TCATGA 1 cut(s) 892
Cfr13I GGNCC 8 cut(s) 58, 83, 240, 449, 546, 791, 1003, 1042
Cfr9I CCCGGG 1 cut(s) 86
Csp6I GTAC 3 cut(s) 227, 250, 755
CviAII CATG 4 cut(s) 352, 457, 732, 893
CviQI GTAC 3 cut(s) 227, 250, 755
DdeI CTNAG 1 cut(s) 678
DpnI GATC 3 cut(s) 219, 445, 804
DpnII GATC 3 cut(s) 217, 443, 802
Eam1104I CTCTTC 2 cut(s) 281, 1136
EarI CTCTTC 2 cut(s) 281, 1136
Ecl136II GAGCTC 1 cut(s) 711
Eco130I CCWWGG 1 cut(s) 1006
Eco24I GRGCYC 1 cut(s) 713
Eco47I GGWCC 4 cut(s) 58, 240, 791, 1003
Eco53kI GAGCTC 1 cut(s) 711
Eco57I CTGAAG 1 cut(s) 122
Eco72I CACGTG 1 cut(s) 752
Eco88I CYCGRG 1 cut(s) 86
EcoICRI GAGCTC 1 cut(s) 711
EcoNI CCTNNNNNAGG 1 cut(s) 369
EcoO109I RGGNCCY 1 cut(s) 546
EcoRI GAATTC 2 cut(s) 586, 1157
EcoRII CCWGG 2 cut(s) 190, 334
EcoT14I CCWWGG 1 cut(s) 1006
EcoT38I GRGCYC 1 cut(s) 713
ErhI CCWWGG 1 cut(s) 1006
FaeI CATG 4 cut(s) 355, 460, 735, 896
FaqI GGGAC 1 cut(s) 253
FatI CATG 4 cut(s) 351, 456, 731, 892
FauI CCCGC 1 cut(s) 519
FblI GTMKAC 1 cut(s) 24
Fnu4HI GCNGC 4 cut(s) 6, 177, 406, 672
FokI GGATG 6 cut(s) 56, 347, 490, 542, 700, 1007
FriOI GRGCYC 1 cut(s) 713
Fsp4HI GCNGC 4 cut(s) 6, 177, 406, 672
GluI GCNGC 4 cut(s) 6, 177, 406, 672
GsaI CCCAGC 1 cut(s) 652
GsuI CTGGAG 3 cut(s) 192, 684, 897
HaeIII GGCC 5 cut(s) 8, 84, 450, 548, 1043
HapII CCGG 3 cut(s) 87, 369, 920
Hin1II CATG 4 cut(s) 355, 460, 735, 896
HincII GTYRAC 1 cut(s) 747
HindII GTYRAC 1 cut(s) 747
HinfI GANTC 2 cut(s) 395, 775
HpaI GTTAAC 1 cut(s) 747
HpaII CCGG 3 cut(s) 87, 369, 920
HphI GGTGA 2 cut(s) 356, 1022
Hpy166II GTNNAC 6 cut(s) 25, 214, 747, 755, 1003, 1086
Hpy188I TCNGA 2 cut(s) 102, 1163
Hpy188III TCNNGA 7 cut(s) 73, 215, 497, 580, 591, 772, 893
Hpy8I GTNNAC 6 cut(s) 25, 214, 747, 755, 1003, 1086
Hpy99I CGWCG 1 cut(s) 1147
HpyAV CCTTC 6 cut(s) 97, 230, 474, 515, 698, 1087
HpyCH4III ACNGT 3 cut(s) 136, 231, 624
HpyCH4IV ACGT 5 cut(s) 27, 96, 516, 604, 751
HpyF10VI GCNNNNNNNGC 3 cut(s) 668, 728, 1071
HpyF3I CTNAG 1 cut(s) 678
HpySE526I ACGT 5 cut(s) 27, 96, 516, 604, 751
Hsp92II CATG 4 cut(s) 355, 460, 735, 896
KspAI GTTAAC 1 cut(s) 747
Kzo9I GATC 3 cut(s) 217, 443, 802
LguI GCTCTTC 1 cut(s) 281
LmnI GCTCC 6 cut(s) 106, 659, 708, 848, 892, 922
Lsp1109I GCAGC 2 cut(s) 417, 658
LweI GCATC 2 cut(s) 261, 658
MaeII ACGT 5 cut(s) 27, 96, 516, 604, 751
MaeIII GTNAC 3 cut(s) 202, 344, 1057
MalI GATC 3 cut(s) 219, 445, 804
MbiI CCGCTC 1 cut(s) 18
MboI GATC 3 cut(s) 217, 443, 802
MboII GAAGA 7 cut(s) 104, 142, 268, 453, 620, 872, 1123
MflI RGATCY 1 cut(s) 443
MhlI GDGCHC 3 cut(s) 713, 911, 1088
MluCI AATT 6 cut(s) 303, 318, 586, 838, 1151, 1157
MlyI GAGTC 1 cut(s) 404
MmeI TCCRAC 4 cut(s) 308, 347, 919, 972
MroXI GAANNNNTTC 2 cut(s) 96, 612
MseI TTAA 2 cut(s) 504, 746
MspI CCGG 3 cut(s) 87, 369, 920
MspR9I CCNGG 4 cut(s) 87, 88, 192, 336
MvaI CCWGG 2 cut(s) 192, 336
MvnI CGCG 1 cut(s) 63
MwoI GCNNNNNNNGC 3 cut(s) 668, 728, 1071
NciI CCSGG 2 cut(s) 87, 88
NdeII GATC 3 cut(s) 217, 443, 802
NlaIII CATG 4 cut(s) 355, 460, 735, 896
NlaIV GGNNCC 4 cut(s) 85, 241, 451, 547
NmeAIII GCCGAG 1 cut(s) 292
NmuCI GTSAC 1 cut(s) 344
NspI RCATGY 2 cut(s) 355, 460
PagI TCATGA 1 cut(s) 892
PaqCI CACCTGC 2 cut(s) 892, 1065
PciI ACATGT 1 cut(s) 351
PciSI GCTCTTC 1 cut(s) 281
PdmI GAANNNNTTC 2 cut(s) 96, 612
PfeI GAWTC 1 cut(s) 775
PkrI GCNGC 4 cut(s) 7, 178, 407, 673
PleI GAGTC 1 cut(s) 403
PmaCI CACGTG 1 cut(s) 752
PmlI CACGTG 1 cut(s) 752
PpsI GAGTC 1 cut(s) 403
Ppu21I YACGTR 2 cut(s) 517, 752
PscI ACATGT 1 cut(s) 351
Psp124BI GAGCTC 1 cut(s) 713
Psp6I CCWGG 2 cut(s) 190, 334
PspCI CACGTG 1 cut(s) 752
PspFI CCCAGC 1 cut(s) 648
PspGI CCWGG 2 cut(s) 190, 334
PspN4I GGNNCC 4 cut(s) 85, 241, 451, 547
PspPI GGNCC 8 cut(s) 58, 83, 240, 449, 546, 791, 1003, 1042
PsuI RGATCY 1 cut(s) 443
RsaI GTAC 3 cut(s) 228, 251, 756
RsaNI GTAC 3 cut(s) 227, 250, 755
SacI GAGCTC 1 cut(s) 713
SapI GCTCTTC 1 cut(s) 281
SaqAI TTAA 2 cut(s) 504, 746
SatI GCNGC 4 cut(s) 6, 177, 406, 672
Sau3AI GATC 3 cut(s) 217, 443, 802
Sau96I GGNCC 8 cut(s) 58, 83, 240, 449, 546, 791, 1003, 1042
SchI GAGTC 1 cut(s) 404
ScrFI CCNGG 4 cut(s) 87, 88, 192, 336
SduI GDGCHC 3 cut(s) 713, 911, 1088
SfaNI GCATC 2 cut(s) 261, 658
SfcI CTRYAG 1 cut(s) 162
SinI GGWCC 4 cut(s) 58, 240, 791, 1003
SmaI CCCGGG 1 cut(s) 88
SmlI CTYRAG 1 cut(s) 770
SmoI CTYRAG 1 cut(s) 770
Sse9I AATT 6 cut(s) 303, 318, 586, 838, 1151, 1157
SsiI CCGC 6 cut(s) 5, 18, 61, 176, 487, 526
SspI AATATT 2 cut(s) 383, 508
SstI GAGCTC 1 cut(s) 713
StyD4I CCNGG 4 cut(s) 85, 86, 190, 334
StyI CCWWGG 1 cut(s) 1006
TaaI ACNGT 3 cut(s) 136, 231, 624
TaiI ACGT 5 cut(s) 30, 99, 519, 607, 754
TaqII GACCGA 1 cut(s) 257
TasI AATT 6 cut(s) 303, 318, 586, 838, 1151, 1157
TauI GCSGC 2 cut(s) 8, 179
TfiI GAWTC 1 cut(s) 775
Tru1I TTAA 2 cut(s) 504, 746
Tru9I TTAA 2 cut(s) 504, 746
TscAI CASTG 5 cut(s) 37, 202, 268, 706, 909
TseFI GTSAC 1 cut(s) 344
TseI GCWGC 2 cut(s) 405, 671
Tsp45I GTSAC 1 cut(s) 344
TspDTI ATGAA 7 cut(s) 249, 456, 494, 599, 873, 972, 987
TspMI CCCGGG 1 cut(s) 86
TspRI CASTG 5 cut(s) 37, 202, 268, 706, 909
VneI GTGCAC 1 cut(s) 1084
VpaK11BI GGWCC 4 cut(s) 58, 240, 791, 1003
XagI CCTNNNNNAGG 1 cut(s) 369
XapI RAATTY 3 cut(s) 586, 1151, 1157
XceI RCATGY 2 cut(s) 355, 460
XcmI CCANNNNNNNNNTGG 1 cut(s) 587
XmaI CCCGGG 1 cut(s) 86
XmiI GTMKAC 1 cut(s) 24
XmnI GAANNNNTTC 2 cut(s) 96, 612
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.