MD10G1331000.v1.1

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0001724
Physical Location & Seq
Reverse (-)
40911396 .. 40915788
4393 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1331000.v1.1.491

Sequence Viewer

Length: 1527 bp
ATGGCTCTCAACCGCGCCAAGTGCAACGAGTGCGGCACCGTCGTCACTCGCTTAATTCGAGAGTATAATGTTCGAGCGAGTACTGCCACCGATAAGAACTACTTCATTGGGAGATTTGTGACGGGGTTGCCGAGTTTTTCGAAGAACAAGAATTCTGAAAATAAATGGTCTCTCCACAAGGATGGACTACAAGGACGCCAACTTAGTGATGCCATGCGGGAGAAGTACAAGAACAAACCATGGGTTTTGGAGGACGAAAGTGGCCGGTCTCAGTACCAGGGTCATCTTGAAGGTGCACAGACTGCAACTTACTACTTACTAATAAAACATCCCTCTGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCTTGGTTCAATTTCAACAAGGTTGCGCAATACAAGCAACTTACATTGGAAGAAGCTGAAGAGAAGATTAGTAATAGGAAAAAGACTGCAGATGGGTATGAAAGATGGATGATGAAAGCTGCAAATAATGGAGCTGCTTTATTTGGTGAAGTGGAGAGGCTTGACAAGGATAATGGTGGGGCTGGTGGGAAGGGACGAAAAAAGACGGCTGGTGGTGATGATGATGAAGAAGGAAATGGCTCAGATAGAGGGGATGAGGATGATGATGAAGAGTTGGAAAGGAAAAAAAGATTGAATAAAAGAGGTGGTGATGGTGGTGATGGTGATGATGATAACGAAGGTGTAGGGGGAGGTGATGTGGACATGGATGATGATGATATCGAGAAGGGTGATGACTGGGAGCACGAAGAAATTTTCACTGATGATGATGAAGCAGTTGGAAACAATCCTGAGGAAAGGGAAGATTTGGAACCAGAGATTCCAGCTCCTCCAGAAATTAAGCAGGATGATGAGGACGAGGATGAAGATGACAAAGAGGGTGGACTGAGCAAATCAGGAAAAGAGTTGAAGAAGCTACTTGGGCGAAGTGGTGGACTGAATGATTCAGATGTAGAGGATGACGACGATGACGATGATGACCTGGATGATGATATTGGCTTTCCTCCAGCGCTGGCTCCAAAGCAGAAGGATGCACCCAAAGAGGAACCATCTGACAACAGTCCCTCAAAACCAACACCTTCTGCGTCCAGTCGAGGAACTACACCAACCTCCAAATCCTCAAAGGGAAAGAGAAAATCAAGTGGCGATGATTCTAAGGCAACGAACAGTGCACCTCCCAAGAAGGTCAAGACTGAAAATGAACAAAAATCCATCAAAGAGGAGCCTGTGTCTGTGTCTGCTTCTAAAAGTAGCGCGCCTCCAAAAGGTACTCCACCGGTGAAAACGGAGCCACCGTCATCTGGTGGACGCGTCACCGAGGAAGAAATCAGGGCTGTGTTGATGCAGAGAACACCACTCACCACAAATGATCTTGTTTCTAAATTTAAGGGAAGACTCAAATCTTCTGAGGAAAAGACCGCTTTTTCGAATATTCTAAGGAGAATTTCAAAGATAAAGAAGGGGAACGGAACCAGCAGCTATATAGTACTGAAAGAGCGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0008022
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_alpha

Protein Analysis

509

Amino Acids

55.75

Weight (kDa)

4.88

Isoelectric Point (pI)

46.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 10 - 507 4.5e-140 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
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)
Acc16I TGCGCA 1 cut(s) 393
AccB1I GGYRCC 1 cut(s) 35
AccII CGCG 3 cut(s) 15, 1280, 1335
AciI CCGC 4 cut(s) 13, 33, 217, 1443
AcoI YGGCCR 1 cut(s) 262
AcsI RAATTY 4 cut(s) 151, 777, 1406, 1467
AcuI CTGAAG 1 cut(s) 444
AcyI GRCGYC 1 cut(s) 196
AfaI GTAC 5 cut(s) 82, 227, 275, 1294, 1512
AfeI AGCGCT 1 cut(s) 1035
AfiI CCNNNNNNNGG 2 cut(s) 1289, 1325
AflIII ACRYGT 1 cut(s) 1333
AgeI ACCGGT 1 cut(s) 1300
AgsI TTSAA 6 cut(s) 290, 376, 382, 661, 934, 1473
AjnI CCWGG 2 cut(s) 276, 1005
AluBI AGCT 6 cut(s) 422, 485, 500, 851, 940, 1503
AluI AGCT 6 cut(s) 422, 485, 500, 851, 940, 1503
Alw21I GWGCWC 3 cut(s) 298, 771, 1198
Alw26I GTCTC 2 cut(s) 174, 273
Alw44I GTGCAC 2 cut(s) 294, 1194
Aor51HI AGCGCT 1 cut(s) 1035
AoxI GGCC 1 cut(s) 262
ApaLI GTGCAC 2 cut(s) 294, 1194
ApeKI GCWGC 3 cut(s) 485, 500, 1500
ApoI RAATTY 4 cut(s) 151, 777, 1406, 1467
ArsI GACNNNNNNTTYG 2 cut(s) 1432, 1464
AsiGI ACCGGT 1 cut(s) 1300
Asp700I GAANNNNTTC 1 cut(s) 101
AspLEI GCGC 5 cut(s) 17, 394, 1036, 1280, 1282
AsuII TTCGAA 2 cut(s) 140, 1451
AxyI CCTNAGG 1 cut(s) 816
BaeGI GKGCMC 2 cut(s) 298, 1198
BanI GGYRCC 1 cut(s) 35
BbsI GAAGAC 1 cut(s) 1423
Bbv12I GWGCWC 3 cut(s) 298, 771, 1198
BbvI GCAGC 3 cut(s) 472, 487, 1512
BccI CCATC 7 cut(s) 176, 452, 465, 671, 680, 1081, 1244
BceAI ACGGC 1 cut(s) 588
BciT130I CCWGG 2 cut(s) 278, 1007
BcoDI GTCTC 2 cut(s) 174, 273
BfmI CTRYAG 1 cut(s) 453
BfoI RGCGCY 1 cut(s) 1037
BisI GCNGC 4 cut(s) 34, 486, 501, 1501
BlsI GCNGC 4 cut(s) 35, 487, 502, 1502
BmcAI AGTACT 2 cut(s) 82, 1512
Bme1390I CCNGG 2 cut(s) 278, 1007
BmiI GGNNCC 7 cut(s) 37, 837, 1041, 1071, 1248, 1314, 1495
BmrFI CCNGG 2 cut(s) 278, 1007
BmrI ACTGGG 1 cut(s) 772
BmsI GCATC 3 cut(s) 199, 1045, 1356
BmuI ACTGGG 1 cut(s) 772
BoxI GACNNNNGTC 1 cut(s) 1083
BpiI GAAGAC 1 cut(s) 1423
BpmI CTGGAG 2 cut(s) 840, 1014
Bpu14I TTCGAA 2 cut(s) 140, 1451
BsaHI GRCGYC 1 cut(s) 196
BsaI GGTCTC 2 cut(s) 174, 273
BsaJI CCNNGG 3 cut(s) 239, 277, 1341
BsaWI WCCGGW 1 cut(s) 1300
BsaXI ACNNNNNCTCC 6 cut(s) 708, 738, 1238, 1268, 1304, 1334
Bsc4I CCNNNNNNNGG 2 cut(s) 1289, 1325
Bse118I RCCGGY 2 cut(s) 264, 1300
Bse1I ACTGG 2 cut(s) 767, 1113
Bse21I CCTNAGG 1 cut(s) 816
BseBI CCWGG 2 cut(s) 278, 1007
BseDI CCNNGG 3 cut(s) 239, 277, 1341
BseLI CCNNNNNNNGG 2 cut(s) 1289, 1325
BseMII CTCAG 5 cut(s) 284, 621, 807, 902, 1422
BseNI ACTGG 2 cut(s) 767, 1113
BsePI GCGCGC 1 cut(s) 1278
BseRI GAGGAG 2 cut(s) 843, 1259
BseSI GKGCMC 2 cut(s) 298, 1198
BseXI GCAGC 3 cut(s) 472, 487, 1512
Bsh1236I CGCG 3 cut(s) 15, 1280, 1335
BshFI GGCC 1 cut(s) 264
BshNI GGYRCC 1 cut(s) 35
BshTI ACCGGT 1 cut(s) 1300
BsiHKAI GWGCWC 3 cut(s) 298, 771, 1198
BsiSI CCGG 2 cut(s) 265, 1301
BslFI GGGAC 2 cut(s) 573, 1071
BslI CCNNNNNNNGG 2 cut(s) 1289, 1325
BsmAI GTCTC 2 cut(s) 174, 273
BsmFI GGGAC 2 cut(s) 573, 1071
BsnI GGCC 1 cut(s) 264
Bso31I GGTCTC 2 cut(s) 174, 273
Bsp119I TTCGAA 2 cut(s) 140, 1451
Bsp1286I GDGCHC 3 cut(s) 298, 771, 1198
Bsp143I GATC 1 cut(s) 1393
Bsp19I CCATGG 1 cut(s) 239
BspACI CCGC 4 cut(s) 13, 33, 217, 1443
BspANI GGCC 1 cut(s) 264
BspCNI CTCAG 5 cut(s) 283, 620, 808, 903, 1423
BspFNI CGCG 3 cut(s) 15, 1280, 1335
BspLI GGNNCC 7 cut(s) 37, 837, 1041, 1071, 1248, 1314, 1495
BspMAI CTGCAG 1 cut(s) 457
BspT104I TTCGAA 2 cut(s) 140, 1451
BspT107I GGYRCC 1 cut(s) 35
BspTNI GGTCTC 2 cut(s) 174, 273
BsrFI RCCGGY 2 cut(s) 264, 1300
BsrI ACTGG 2 cut(s) 767, 1113
BssAI RCCGGY 2 cut(s) 264, 1300
BssECI CCNNGG 3 cut(s) 239, 277, 1341
BssHII GCGCGC 1 cut(s) 1278
BssMI GATC 1 cut(s) 1393
BssNI GRCGYC 1 cut(s) 196
BssT1I CCWWGG 1 cut(s) 239
Bst2UI CCWGG 2 cut(s) 278, 1007
Bst4CI ACNGT 4 cut(s) 40, 1085, 1193, 1320
Bst6I CTCTTC 2 cut(s) 420, 630
BstACI GRCGYC 1 cut(s) 196
BstAPI GCANNNNNTGC 2 cut(s) 30, 302
BstBI TTCGAA 2 cut(s) 140, 1451
BstC8I GCNNGC 2 cut(s) 1038, 1280
BstDEI CTNAG 8 cut(s) 203, 270, 607, 816, 911, 1179, 1431, 1460
BstDSI CCRYGG 1 cut(s) 239
BstENI CCTNNNNNAGG 1 cut(s) 1287
BstFNI CGCG 3 cut(s) 15, 1280, 1335
BstH2I RGCGCY 1 cut(s) 1037
BstHHI GCGC 5 cut(s) 17, 394, 1036, 1280, 1282
BstKTI GATC 1 cut(s) 1396
BstMAI GTCTC 2 cut(s) 174, 273
BstMBI GATC 1 cut(s) 1393
BstMWI GCNNNNNNNGC 7 cut(s) 21, 30, 83, 302, 359, 400, 946
BstNI CCWGG 2 cut(s) 278, 1007
BstPAI GACNNNNGTC 1 cut(s) 1083
BstSCI CCNGG 2 cut(s) 276, 1005
BstSFI CTRYAG 1 cut(s) 453
BstSLI GKGCMC 2 cut(s) 298, 1198
BstUI CGCG 3 cut(s) 15, 1280, 1335
BstV1I GCAGC 3 cut(s) 472, 487, 1512
BstV2I GAAGAC 1 cut(s) 1423
BstXI CCANNNNNNTGG 1 cut(s) 182
Bsu36I CCTNAGG 1 cut(s) 816
BsuRI GGCC 1 cut(s) 264
BtgI CCRYGG 1 cut(s) 239
BtgZI GCGATG 1 cut(s) 1185
BtsIMutI CAGTG 2 cut(s) 783, 1198
Cac8I GCNNGC 2 cut(s) 1038, 1280
CfoI GCGC 5 cut(s) 17, 394, 1036, 1280, 1282
Cfr10I RCCGGY 2 cut(s) 264, 1300
CseI GACGC 4 cut(s) 204, 1098, 1324, 1341
Csp6I GTAC 5 cut(s) 81, 226, 274, 1293, 1511
CspAI ACCGGT 1 cut(s) 1300
CspCI CAANNNNNGTGG 2 cut(s) 886, 921
CviAII CATG 3 cut(s) 214, 240, 730
CviQI GTAC 5 cut(s) 81, 226, 274, 1293, 1511
DdeI CTNAG 8 cut(s) 203, 270, 607, 816, 911, 1179, 1431, 1460
DpnI GATC 1 cut(s) 1395
DpnII GATC 1 cut(s) 1393
EaeI YGGCCR 1 cut(s) 262
Eam1104I CTCTTC 2 cut(s) 420, 630
EarI CTCTTC 2 cut(s) 420, 630
Eco130I CCWWGG 1 cut(s) 239
Eco31I GGTCTC 2 cut(s) 174, 273
Eco32I GATATC 1 cut(s) 745
Eco47III AGCGCT 1 cut(s) 1035
Eco57I CTGAAG 1 cut(s) 444
Eco81I CCTNAGG 1 cut(s) 816
EcoNI CCTNNNNNAGG 1 cut(s) 1287
EcoRI GAATTC 1 cut(s) 151
EcoRII CCWGG 2 cut(s) 276, 1005
EcoRV GATATC 1 cut(s) 745
EcoT14I CCWWGG 1 cut(s) 239
ErhI CCWWGG 1 cut(s) 239
FaeI CATG 3 cut(s) 217, 243, 733
FaiI YATR 7 cut(s) 66, 215, 241, 465, 731, 1506, 1508
FalI AAGNNNNNCTT 2 cut(s) 86, 118
FaqI GGGAC 2 cut(s) 573, 1071
FatI CATG 3 cut(s) 213, 239, 729
FauI CCCGC 1 cut(s) 210
Fnu4HI GCNGC 4 cut(s) 34, 486, 501, 1501
Fsp4HI GCNGC 4 cut(s) 34, 486, 501, 1501
FspI TGCGCA 1 cut(s) 393
GlaI GCGC 5 cut(s) 16, 393, 1035, 1279, 1281
GluI GCNGC 4 cut(s) 34, 486, 501, 1501
GsuI CTGGAG 2 cut(s) 840, 1014
HaeII RGCGCY 1 cut(s) 1037
HaeIII GGCC 1 cut(s) 264
HapII CCGG 2 cut(s) 265, 1301
HgaI GACGC 4 cut(s) 204, 1098, 1324, 1341
HhaI GCGC 5 cut(s) 17, 394, 1036, 1280, 1282
Hin1I GRCGYC 1 cut(s) 196
Hin1II CATG 3 cut(s) 217, 243, 733
Hin6I GCGC 5 cut(s) 15, 392, 1034, 1278, 1280
HinP1I GCGC 5 cut(s) 15, 392, 1034, 1278, 1280
HinfI GANTC 4 cut(s) 844, 968, 1175, 1419
HpaII CCGG 2 cut(s) 265, 1301
Hpy166II GTNNAC 6 cut(s) 296, 727, 908, 959, 1196, 1331
Hpy188I TCNGA 5 cut(s) 157, 610, 973, 1078, 1432
Hpy188III TCNNGA 8 cut(s) 59, 287, 336, 748, 815, 857, 921, 1213
Hpy8I GTNNAC 6 cut(s) 296, 727, 908, 959, 1196, 1331
Hpy99I CGWCG 2 cut(s) 44, 992
HpyAV CCTTC 9 cut(s) 284, 550, 590, 698, 745, 1045, 1113, 1201, 1477
HpyCH4III ACNGT 4 cut(s) 40, 1085, 1193, 1320
HpyCH4V TGCA 8 cut(s) 24, 296, 305, 455, 488, 1058, 1196, 1369
HpyF10VI GCNNNNNNNGC 7 cut(s) 21, 30, 83, 302, 359, 400, 946
HpyF3I CTNAG 8 cut(s) 203, 270, 607, 816, 911, 1179, 1431, 1460
Hsp92I GRCGYC 1 cut(s) 196
Hsp92II CATG 3 cut(s) 217, 243, 733
HspAI GCGC 5 cut(s) 15, 392, 1034, 1278, 1280
Kzo9I GATC 1 cut(s) 1393
LmnI GCTCC 6 cut(s) 497, 766, 856, 1045, 1246, 1312
Lsp1109I GCAGC 3 cut(s) 472, 487, 1512
LweI GCATC 3 cut(s) 199, 1045, 1356
MaeIII GTNAC 3 cut(s) 43, 118, 1336
MalI GATC 1 cut(s) 1395
MboI GATC 1 cut(s) 1393
MhlI GDGCHC 3 cut(s) 298, 771, 1198
MluCI AATT 7 cut(s) 54, 151, 376, 777, 861, 1406, 1467
MluI ACGCGT 1 cut(s) 1333
MlyI GAGTC 1 cut(s) 1413
MmeI TCCRAC 2 cut(s) 621, 784
MroXI GAANNNNTTC 1 cut(s) 101
MseI TTAA 3 cut(s) 53, 864, 1410
MslI CAYNNNNRTG 1 cut(s) 180
MspI CCGG 2 cut(s) 265, 1301
MspR9I CCNGG 2 cut(s) 278, 1007
MvaI CCWGG 2 cut(s) 278, 1007
MvnI CGCG 3 cut(s) 15, 1280, 1335
MwoI GCNNNNNNNGC 7 cut(s) 21, 30, 83, 302, 359, 400, 946
NcoI CCATGG 1 cut(s) 239
NdeII GATC 1 cut(s) 1393
NlaIII CATG 3 cut(s) 217, 243, 733
NlaIV GGNNCC 7 cut(s) 37, 837, 1041, 1071, 1248, 1314, 1495
NmeAIII GCCGAG 1 cut(s) 156
NmuCI GTSAC 3 cut(s) 43, 118, 1336
NsbI TGCGCA 1 cut(s) 393
NspV TTCGAA 2 cut(s) 140, 1451
PauI GCGCGC 1 cut(s) 1278
PcsI WCGNNNNNNNCGW 4 cut(s) 55, 128, 993, 1316
PdmI GAANNNNTTC 1 cut(s) 101
PfeI GAWTC 3 cut(s) 844, 968, 1175
PinAI ACCGGT 1 cut(s) 1300
PkrI GCNGC 4 cut(s) 35, 487, 502, 1502
PleI GAGTC 1 cut(s) 1413
PpsI GAGTC 1 cut(s) 1413
PshAI GACNNNNGTC 1 cut(s) 1083
Psp6I CCWGG 2 cut(s) 276, 1005
PspGI CCWGG 2 cut(s) 276, 1005
PspN4I GGNNCC 7 cut(s) 37, 837, 1041, 1071, 1248, 1314, 1495
PstI CTGCAG 1 cut(s) 457
PteI GCGCGC 1 cut(s) 1278
RsaI GTAC 5 cut(s) 82, 227, 275, 1294, 1512
RsaNI GTAC 5 cut(s) 81, 226, 274, 1293, 1511
RseI CAYNNNNRTG 1 cut(s) 180
SaqAI TTAA 3 cut(s) 53, 864, 1410
SatI GCNGC 4 cut(s) 34, 486, 501, 1501
Sau3AI GATC 1 cut(s) 1393
ScaI AGTACT 2 cut(s) 82, 1512
SchI GAGTC 1 cut(s) 1413
ScrFI CCNGG 2 cut(s) 278, 1007
SduI GDGCHC 3 cut(s) 298, 771, 1198
SfaNI GCATC 3 cut(s) 199, 1045, 1356
SfcI CTRYAG 1 cut(s) 453
SfuI TTCGAA 2 cut(s) 140, 1451
SgrAI CRCCGGYG 1 cut(s) 1300
SmiMI CAYNNNNRTG 1 cut(s) 180
Sse9I AATT 7 cut(s) 54, 151, 376, 777, 861, 1406, 1467
SsiI CCGC 4 cut(s) 13, 33, 217, 1443
SspI AATATT 1 cut(s) 1456
StyD4I CCNGG 2 cut(s) 276, 1005
StyI CCWWGG 1 cut(s) 239
TaaI ACNGT 4 cut(s) 40, 1085, 1193, 1320
TaqI TCGA 6 cut(s) 58, 73, 140, 747, 1117, 1451
TasI AATT 7 cut(s) 54, 151, 376, 777, 861, 1406, 1467
TatI WGTACW 3 cut(s) 80, 225, 1510
TauI GCSGC 1 cut(s) 36
TfiI GAWTC 3 cut(s) 844, 968, 1175
Tru1I TTAA 3 cut(s) 53, 864, 1410
Tru9I TTAA 3 cut(s) 53, 864, 1410
TscAI CASTG 2 cut(s) 790, 1198
TseFI GTSAC 3 cut(s) 43, 118, 1336
TseI GCWGC 3 cut(s) 485, 500, 1500
Tsp45I GTSAC 3 cut(s) 43, 118, 1336
TspDTI ATGAA 8 cut(s) 94, 480, 494, 606, 648, 810, 903, 1239
TspGWI ACGGA 2 cut(s) 1325, 1506
TspRI CASTG 2 cut(s) 790, 1198
VneI GTGCAC 2 cut(s) 294, 1194
XagI CCTNNNNNAGG 1 cut(s) 1287
XapI RAATTY 4 cut(s) 151, 777, 1406, 1467
XmnI GAANNNNTTC 1 cut(s) 101
ZrmI AGTACT 2 cut(s) 82, 1512
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.