MD11G1094800.v1.1

Transcription initiation factor IIA large

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
Physical Location & Seq
Forward (+)
7918082 .. 7923838
5757 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1094800.v1.1.491

Sequence Viewer

Length: 1170 bp
ATGGCGGCCTCCACGAGCAGTGTCTACGTTAGTGTTATTGAGGATGTCATCAACAAGGTCCGCGAGGAATTCATGAACAACGGCCCCGGGGAAGACGTTCTGAAGGAGCTTCAAGGAATATGGGAAGCGAAAACCATGCAGGCTGGTGTAGTAAATAATCCTATAGAGAGGTCGGCAGCAAAGGGAACACCTGGCAGTGGTGTTACTCCAGTTCACGATCTCAATGTACCGTATGAAGGGACCGAGGAGTACGAAACTCCCACTGCTGAGATACTCTTCCCTCCAACGCCGTTGCAAACCCCAATTCCTGCAACCCCAATTCAAACGCCTCTACCTGGAACTGGGGACAACTTGTATAACATCCCTACTGGAGGTAGTGACTATTCTGCAAACGAGTCCGGTAGCAGTAATGGTGGTGTCAATGCAGAGACGAAAGGTGGAAGACCTAGCGCCTACATGCAACCCCCTTCTACTTGGATGAACCACCGCCCCCCTCTTGATGTTAATATTGCTTACGTGGAAGGGCGGGATGAGGTAGATAGAGGGGCCTCTCATCAACCCCCAACACAGGACTTTCTCCAGATGAATTCTGCAAAGCGAAAGCGTGAAGATTTTCCTGCACAGTATCAAGCTGGTGGCTTTATACCCCAGCAAGATGGAGCTGGAGATGCTGCACCTGAGAAGTTTGAGATTGAGTCATATGTCAGTGGAGGGAGCACTTCTATTGCCAGTCGTGCATGGAGTGAGATGTTAACTCGTGTACGAAGTTCAACTCCCAAGATTCCTCAACTTGATGGTCCAATTCCTGATCCTTATGATGAGCTTTCTACTCCCAATATATACAATTATCAAGGAACTTTCAATGAAGACTACAATGTTGCCAGCACACCTGCTCCCCATGATATACCTGTGAGCACTCCAGCTCCGGTTGTTCAAAATGATTTGGGAGATGATGACGACGATGAGCCCCCATTGAATGAAAATGATGACGATGAGTTGGATGATGTGGACCAAGGAGATGAGCTTAACACAGCACATTTGGTTTTGGCCCAGTTTGACAAGGTAACGCGCACCAAGAGCAAGTGGAAGTGCACATTGAAGGACGGCATTATGCACATAAACAACAAGGATATTCTCTTCAATAAGGCAACCGGAGAATTTGACTTCTGA

Protein Analysis

390

Amino Acids

42.31

Weight (kDa)

4.32

Isoelectric Point (pI)

48.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIA PF03153 8 - 176 8.8e-15 Transcription factor IIA, alpha/beta subunit
TFIIA PF03153 243 - 388 6.4e-33 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 1 cut(s) 898
Acc36I ACCTGC 1 cut(s) 898
AccI GTMKAC 1 cut(s) 24
AccII CGCG 2 cut(s) 63, 1069
AciI CCGC 4 cut(s) 5, 61, 487, 526
AclWI GGATC 1 cut(s) 803
AcsI RAATTY 3 cut(s) 68, 586, 1157
AcuI CTGAAG 1 cut(s) 122
AfaI GTAC 3 cut(s) 228, 251, 762
AfiI CCNNNNNNNGG 6 cut(s) 197, 236, 335, 341, 371, 568
AgsI TTSAA 8 cut(s) 113, 323, 771, 862, 935, 976, 1099, 1141
AjnI CCWGG 2 cut(s) 190, 334
AluBI AGCT 6 cut(s) 109, 632, 662, 823, 923, 1024
AluI AGCT 6 cut(s) 109, 632, 662, 823, 923, 1024
Alw21I GWGCWC 3 cut(s) 719, 917, 1094
Alw26I GTCTC 1 cut(s) 422
Alw44I GTGCAC 1 cut(s) 1090
AlwI GGATC 1 cut(s) 803
Ama87I CYCGRG 1 cut(s) 86
AoxI GGCC 4 cut(s) 6, 82, 546, 1047
ApaLI GTGCAC 1 cut(s) 1090
ApeKI GCWGC 2 cut(s) 176, 671
ApoI RAATTY 3 cut(s) 68, 586, 1157
Asp700I GAANNNNTTC 2 cut(s) 96, 612
AspLEI GCGC 2 cut(s) 452, 1071
AspS9I GGNCC 7 cut(s) 58, 83, 240, 546, 797, 1009, 1048
AsuC2I CCSGG 2 cut(s) 87, 88
AvaI CYCGRG 1 cut(s) 86
AvaII GGWCC 4 cut(s) 58, 240, 797, 1009
BaeGI GKGCMC 1 cut(s) 1094
BanII GRGCYC 1 cut(s) 969
BauI CACGAG 2 cut(s) 13, 756
BbsI GAAGAC 3 cut(s) 99, 448, 873
Bbv12I GWGCWC 3 cut(s) 719, 917, 1094
BbvI GCAGC 2 cut(s) 188, 658
BccI CCATC 2 cut(s) 650, 788
BceAI ACGGC 3 cut(s) 97, 274, 1120
BcgI CGANNNNNNTGC 2 cut(s) 118, 152
BciT130I CCWGG 2 cut(s) 192, 336
BcnI CCSGG 2 cut(s) 87, 88
BcoDI GTCTC 1 cut(s) 422
BfaI CTAG 1 cut(s) 447
BfmI CTRYAG 1 cut(s) 162
BfoI RGCGCY 1 cut(s) 453
BfuAI ACCTGC 1 cut(s) 898
BisI GCNGC 3 cut(s) 6, 177, 672
BlsI GCNGC 3 cut(s) 7, 178, 673
Bme1390I CCNGG 4 cut(s) 87, 88, 192, 336
Bme18I GGWCC 4 cut(s) 58, 240, 797, 1009
BmeT110I CYCGRG 1 cut(s) 86
BmgT120I GGNCC 7 cut(s) 58, 83, 240, 546, 797, 1009, 1048
BmiI GGNNCC 3 cut(s) 85, 241, 547
BmrFI CCNGG 4 cut(s) 87, 88, 192, 336
BmrI ACTGGG 2 cut(s) 351, 1045
BmsI GCATC 1 cut(s) 658
BmuI ACTGGG 2 cut(s) 351, 1045
BpiI GAAGAC 3 cut(s) 99, 448, 873
BpmI CTGGAG 5 cut(s) 192, 390, 563, 684, 903
BpuMI CCSGG 2 cut(s) 87, 88
BsaAI YACGTR 1 cut(s) 517
BsaJI CCNNGG 5 cut(s) 85, 86, 87, 243, 1012
BsaWI WCCGGW 3 cut(s) 398, 925, 1151
BsaXI ACNNNNNCTCC 4 cut(s) 877, 907, 907, 937
Bsc4I CCNNNNNNNGG 6 cut(s) 197, 236, 335, 341, 371, 568
Bse1I ACTGG 5 cut(s) 209, 346, 373, 729, 1051
BseBI CCWGG 2 cut(s) 192, 336
BseDI CCNNGG 5 cut(s) 85, 86, 87, 243, 1012
BseGI GGATG 5 cut(s) 49, 360, 483, 535, 1006
BseLI CCNNNNNNNGG 6 cut(s) 197, 236, 335, 341, 371, 568
BseMII CTCAG 2 cut(s) 258, 669
BseNI ACTGG 5 cut(s) 209, 346, 373, 729, 1051
BseRI GAGGAG 1 cut(s) 260
BseSI GKGCMC 1 cut(s) 1094
BseXI GCAGC 2 cut(s) 188, 658
BseYI CCCAGC 1 cut(s) 648
BsgI GTGCAG 2 cut(s) 603, 657
Bsh1236I CGCG 2 cut(s) 63, 1069
BshFI GGCC 4 cut(s) 8, 84, 548, 1049
BsiHKAI GWGCWC 3 cut(s) 719, 917, 1094
BsiHKCI CYCGRG 1 cut(s) 86
BsiSI CCGG 4 cut(s) 87, 399, 926, 1152
BslFI GGGAC 2 cut(s) 253, 359
BslI CCNNNNNNNGG 6 cut(s) 197, 236, 335, 341, 371, 568
BsmAI GTCTC 1 cut(s) 422
BsmBI CGTCTC 1 cut(s) 422
BsmFI GGGAC 2 cut(s) 253, 359
BsnI GGCC 4 cut(s) 8, 84, 548, 1049
BsoBI CYCGRG 1 cut(s) 86
Bsp1286I GDGCHC 4 cut(s) 719, 917, 969, 1094
Bsp143I GATC 2 cut(s) 217, 808
BspACI CCGC 4 cut(s) 5, 61, 487, 526
BspANI GGCC 4 cut(s) 8, 84, 548, 1049
BspCNI CTCAG 2 cut(s) 259, 670
BspFNI CGCG 2 cut(s) 63, 1069
BspHI TCATGA 1 cut(s) 72
BspLI GGNNCC 3 cut(s) 85, 241, 547
BspMI ACCTGC 1 cut(s) 898
BspPI GGATC 1 cut(s) 803
BsrI ACTGG 5 cut(s) 209, 346, 373, 729, 1051
BssECI CCNNGG 5 cut(s) 85, 86, 87, 243, 1012
BssMI GATC 2 cut(s) 217, 808
BssSI CACGAG 2 cut(s) 13, 756
BssT1I CCWWGG 1 cut(s) 1012
Bst2BI CACGAG 2 cut(s) 13, 756
Bst2UI CCWGG 2 cut(s) 192, 336
Bst4CI ACNGT 2 cut(s) 231, 624
Bst6I CTCTTC 2 cut(s) 281, 1142
BstBAI YACGTR 1 cut(s) 517
BstC8I GCNNGC 2 cut(s) 141, 883
BstDEI CTNAG 2 cut(s) 267, 678
BstENI CCTNNNNNAGG 1 cut(s) 369
BstF5I GGATG 5 cut(s) 49, 360, 483, 535, 1006
BstFNI CGCG 2 cut(s) 63, 1069
BstH2I RGCGCY 1 cut(s) 453
BstHHI GCGC 2 cut(s) 452, 1071
BstKTI GATC 2 cut(s) 220, 811
BstMAI GTCTC 1 cut(s) 422
BstMBI GATC 2 cut(s) 217, 808
BstMWI GCNNNNNNNGC 3 cut(s) 668, 734, 1077
BstNI CCWGG 2 cut(s) 192, 336
BstNSI RCATGY 1 cut(s) 460
BstSCI CCNGG 4 cut(s) 85, 86, 190, 334
BstSFI CTRYAG 1 cut(s) 162
BstSLI GKGCMC 1 cut(s) 1094
BstUI CGCG 2 cut(s) 63, 1069
BstV1I GCAGC 2 cut(s) 188, 658
BstV2I GAAGAC 3 cut(s) 99, 448, 873
BstXI CCANNNNNNTGG 1 cut(s) 656
BsuRI GGCC 4 cut(s) 8, 84, 548, 1049
BtsCI GGATG 5 cut(s) 49, 360, 483, 535, 1006
BtsI GCAGTG 3 cut(s) 25, 202, 261
BtsIMutI CAGTG 4 cut(s) 25, 202, 261, 712
BveI ACCTGC 1 cut(s) 898
Cac8I GCNNGC 2 cut(s) 141, 883
CciI TCATGA 1 cut(s) 72
CfoI GCGC 2 cut(s) 452, 1071
Cfr13I GGNCC 7 cut(s) 58, 83, 240, 546, 797, 1009, 1048
Cfr9I CCCGGG 1 cut(s) 86
Csp6I GTAC 3 cut(s) 227, 250, 761
CviAII CATG 5 cut(s) 73, 136, 457, 738, 899
CviQI GTAC 3 cut(s) 227, 250, 761
DdeI CTNAG 2 cut(s) 267, 678
DpnI GATC 2 cut(s) 219, 810
DpnII GATC 2 cut(s) 217, 808
Eam1104I CTCTTC 2 cut(s) 281, 1142
EarI CTCTTC 2 cut(s) 281, 1142
Eco130I CCWWGG 1 cut(s) 1012
Eco24I GRGCYC 1 cut(s) 969
Eco47I GGWCC 4 cut(s) 58, 240, 797, 1009
Eco57I CTGAAG 1 cut(s) 122
Eco88I CYCGRG 1 cut(s) 86
EcoNI CCTNNNNNAGG 1 cut(s) 369
EcoO109I RGGNCCY 1 cut(s) 546
EcoRI GAATTC 2 cut(s) 68, 586
EcoRII CCWGG 2 cut(s) 190, 334
EcoT14I CCWWGG 1 cut(s) 1012
EcoT38I GRGCYC 1 cut(s) 969
ErhI CCWWGG 1 cut(s) 1012
Esp3I CGTCTC 1 cut(s) 422
FaeI CATG 5 cut(s) 76, 139, 460, 741, 902
FaqI GGGAC 2 cut(s) 253, 359
FatI CATG 5 cut(s) 72, 135, 456, 737, 898
FauI CCCGC 1 cut(s) 519
FauNDI CATATG 1 cut(s) 700
FblI GTMKAC 1 cut(s) 24
Fnu4HI GCNGC 3 cut(s) 6, 177, 672
FokI GGATG 5 cut(s) 56, 347, 490, 542, 1013
FriOI GRGCYC 1 cut(s) 969
Fsp4HI GCNGC 3 cut(s) 6, 177, 672
FspBI CTAG 1 cut(s) 447
GlaI GCGC 2 cut(s) 451, 1070
GluI GCNGC 3 cut(s) 6, 177, 672
GsaI CCCAGC 1 cut(s) 652
GsuI CTGGAG 5 cut(s) 192, 390, 563, 684, 903
HaeII RGCGCY 1 cut(s) 453
HaeIII GGCC 4 cut(s) 8, 84, 548, 1049
HapII CCGG 4 cut(s) 87, 399, 926, 1152
HhaI GCGC 2 cut(s) 452, 1071
Hin1II CATG 5 cut(s) 76, 139, 460, 741, 902
Hin6I GCGC 2 cut(s) 450, 1069
HinP1I GCGC 2 cut(s) 450, 1069
HincII GTYRAC 1 cut(s) 753
HindII GTYRAC 1 cut(s) 753
HinfI GANTC 3 cut(s) 395, 695, 781
HpaI GTTAAC 1 cut(s) 753
HpaII CCGG 4 cut(s) 87, 399, 926, 1152
Hpy166II GTNNAC 6 cut(s) 25, 214, 753, 761, 1009, 1092
Hpy188I TCNGA 2 cut(s) 102, 1169
Hpy188III TCNNGA 5 cut(s) 73, 215, 497, 580, 806
Hpy8I GTNNAC 6 cut(s) 25, 214, 753, 761, 1009, 1092
Hpy99I CGWCG 1 cut(s) 962
HpyAV CCTTC 5 cut(s) 97, 230, 477, 515, 1093
HpyCH4III ACNGT 2 cut(s) 231, 624
HpyCH4IV ACGT 3 cut(s) 27, 96, 516
HpyF10VI GCNNNNNNNGC 3 cut(s) 668, 734, 1077
HpyF3I CTNAG 2 cut(s) 267, 678
HpySE526I ACGT 3 cut(s) 27, 96, 516
Hsp92II CATG 5 cut(s) 76, 139, 460, 741, 902
HspAI GCGC 2 cut(s) 450, 1069
KspAI GTTAAC 1 cut(s) 753
Kzo9I GATC 2 cut(s) 217, 808
LmnI GCTCC 5 cut(s) 106, 659, 714, 898, 928
Lsp1109I GCAGC 2 cut(s) 188, 658
LweI GCATC 1 cut(s) 658
MaeI CTAG 1 cut(s) 447
MaeII ACGT 3 cut(s) 27, 96, 516
MaeIII GTNAC 3 cut(s) 202, 377, 1063
MalI GATC 2 cut(s) 219, 810
MboI GATC 2 cut(s) 217, 808
MboII GAAGA 6 cut(s) 104, 268, 453, 620, 878, 1129
MhlI GDGCHC 4 cut(s) 719, 917, 969, 1094
MluCI AATT 7 cut(s) 68, 303, 318, 586, 801, 844, 1157
MlyI GAGTC 2 cut(s) 404, 704
MmeI TCCRAC 2 cut(s) 308, 978
MroXI GAANNNNTTC 2 cut(s) 96, 612
MseI TTAA 3 cut(s) 504, 752, 1026
MspI CCGG 4 cut(s) 87, 399, 926, 1152
MspR9I CCNGG 4 cut(s) 87, 88, 192, 336
MvaI CCWGG 2 cut(s) 192, 336
MvnI CGCG 2 cut(s) 63, 1069
MwoI GCNNNNNNNGC 3 cut(s) 668, 734, 1077
NciI CCSGG 2 cut(s) 87, 88
NdeI CATATG 1 cut(s) 700
NdeII GATC 2 cut(s) 217, 808
NlaIII CATG 5 cut(s) 76, 139, 460, 741, 902
NlaIV GGNNCC 3 cut(s) 85, 241, 547
NmuCI GTSAC 1 cut(s) 377
NspI RCATGY 1 cut(s) 460
PagI TCATGA 1 cut(s) 72
PaqCI CACCTGC 1 cut(s) 898
PdmI GAANNNNTTC 2 cut(s) 96, 612
PfeI GAWTC 1 cut(s) 781
PkrI GCNGC 3 cut(s) 7, 178, 673
PleI GAGTC 2 cut(s) 403, 703
PpsI GAGTC 2 cut(s) 403, 703
Ppu21I YACGTR 1 cut(s) 517
Psp6I CCWGG 2 cut(s) 190, 334
PspFI CCCAGC 1 cut(s) 648
PspGI CCWGG 2 cut(s) 190, 334
PspN4I GGNNCC 3 cut(s) 85, 241, 547
PspPI GGNCC 7 cut(s) 58, 83, 240, 546, 797, 1009, 1048
RsaI GTAC 3 cut(s) 228, 251, 762
RsaNI GTAC 3 cut(s) 227, 250, 761
SaqAI TTAA 3 cut(s) 504, 752, 1026
SatI GCNGC 3 cut(s) 6, 177, 672
Sau3AI GATC 2 cut(s) 217, 808
Sau96I GGNCC 7 cut(s) 58, 83, 240, 546, 797, 1009, 1048
SchI GAGTC 2 cut(s) 404, 704
ScrFI CCNGG 4 cut(s) 87, 88, 192, 336
SduI GDGCHC 4 cut(s) 719, 917, 969, 1094
SfaNI GCATC 1 cut(s) 658
SfcI CTRYAG 1 cut(s) 162
SinI GGWCC 4 cut(s) 58, 240, 797, 1009
SmaI CCCGGG 1 cut(s) 88
Sse9I AATT 7 cut(s) 68, 303, 318, 586, 801, 844, 1157
SsiI CCGC 4 cut(s) 5, 61, 487, 526
SspI AATATT 1 cut(s) 508
SspMI CTAG 1 cut(s) 447
StyD4I CCNGG 4 cut(s) 85, 86, 190, 334
StyI CCWWGG 1 cut(s) 1012
TaaI ACNGT 2 cut(s) 231, 624
TaiI ACGT 3 cut(s) 30, 99, 519
TaqII GACCGA 1 cut(s) 257
TasI AATT 7 cut(s) 68, 303, 318, 586, 801, 844, 1157
TauI GCSGC 1 cut(s) 8
TfiI GAWTC 1 cut(s) 781
Tru1I TTAA 3 cut(s) 504, 752, 1026
Tru9I TTAA 3 cut(s) 504, 752, 1026
TscAI CASTG 4 cut(s) 25, 202, 268, 712
TseFI GTSAC 1 cut(s) 377
TseI GCWGC 2 cut(s) 176, 671
Tsp45I GTSAC 1 cut(s) 377
TspDTI ATGAA 7 cut(s) 61, 89, 249, 494, 599, 879, 993
TspMI CCCGGG 1 cut(s) 86
TspRI CASTG 4 cut(s) 25, 202, 268, 712
VneI GTGCAC 1 cut(s) 1090
VpaK11BI GGWCC 4 cut(s) 58, 240, 797, 1009
XagI CCTNNNNNAGG 1 cut(s) 369
XapI RAATTY 3 cut(s) 68, 586, 1157
XceI RCATGY 1 cut(s) 460
XmaI CCCGGG 1 cut(s) 86
XmiI GTMKAC 1 cut(s) 24
XmnI GAANNNNTTC 2 cut(s) 96, 612
XspI CTAG 1 cut(s) 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.