MD05G1357300.v1.1

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0001724
Physical Location & Seq
Reverse (-)
47264863 .. 47269483
4621 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1357300.v1.1.491

Sequence Viewer

Length: 1641 bp
ATGTCGACGGCCGATTTGATACTGAGACCTGAGTGTGGTGGATGTAAAACGACCAAGGATTTATACGGAAGCAATTGCAAGCACTTGACTCTGTGCGACGACTGTGGCAAACAAATGGCTCTCAACCGCGCCAAGTGCAACGAGTGCGGCGCCGTCGTCACTCGCTTAATTCGAGAATATAATGTTCGAGCGAGTACTGTCAATGACAAGAATTACTTCATTGGGAGATTTGTGACGGGGTTGCCGAGTTTTTCGAAGACGAAGAATTCTGAAAATAAATGGTCTCTCCACAAGGATGGACTACAAGGACGCCAACTTAGTGATGCCATGCGGGAGAAGTACAAGAATAAACCCTGGGTTTTGGAGGACGAAAGTGGCCGGTCTCAGTACCAGGGTCATCTTGAAGGTGCACAGACTGCAACCTACTACTTGCTAATAAAGCATCCCTCTGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCTTGGTTCAATTTCAACAAGGTTGCACAGTACAAACAACTTACATTAGAGGAAGCCGAAGAGAAGATTAGTAATAGGAAAAAGACTGCAGATGGATATGAAAGATGGATGATGAAAGCTGCAAATAATGGAGCTGCTTTATTTGGTGAAGTGGAGAGGTTTGACAACTATAATGGTGTGGCTGGTGGGAAGGGACGAAAAAAGACAGCTGCTGGTGGTGATGATGAAGAAGGAAATGGTTCAGATAGAGGAGATGAGGATGATGAAGAAGAGTTGGAAAGGAAGAAAAGATTGAACAAAAGAGGTGGTGATGGTGATGGTGATGATGATGATGAAGGCGCAAGGGGAGGTGATGCAGACATGGATGACGATGATATCGAGAAGGGTGATGACTGGGAGCACGAAGAAATTTTCACTGATGATGATGAAGCTGTTGGCAACAATCCTGAGGAAAGGGAAGATTTGGAACCAGAGATTCCAGCTCCTCCAGAAATTAAGCAGGATGATGAGGACGAGGATGAAGATGACAAAGAGGGTGGACTGAGCAAATCAGGAAAAGAGTTGAAGAAGCTACTTGGGCGAAGTGGTGGGCTGAATGATTCAGATGTGGAGGATGACGACGATGACGATGATGATATGGATGATGATATTGGCTTACCTTCAGAGCTGGCTCCAAAGCAGAAGGATGCACCCAAAGAGGAACCATCTGACAACAGTCCCTCAAAACCAACACCTTCTGCGTCCAGTCGAGGAACTACATCAACCTCCAAGTCCTCAAAGGGAAAGAGAAAATCAAGTGGCGATGATGCTAAGGCATCTAACAGTGCACCTCCCAAGAAGGTCAAGACTGAAAATGAACAAAAATCCATCAAAGAGGAGCCTGTGTCTGTACCTGCTTCTAAAAGTAGTGCGCCTCCAAAAGGTACTCCACCGGTGAAAACGGAGCCATCATCATCTGGTGGACGCGTCACCGAGGAAGAAATCAGGGCCGTGTTGATGCAGAGAACACCACTCACCACGAATGATCTTGTTTCTAAATTTAAGGGAAGACTCAAATCGTCTGAGGAAAAGGCTGCTTTTTCGAGTATTCTAAGGAGAATCTCTAAGATAAAGAAGGGCAACAACGGAACCAGCAGCTTTATAGTACTGAAAGAACGATGA
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

547

Amino Acids

59.95

Weight (kDa)

4.93

Isoelectric Point (pI)

47.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 48 - 543 4.2e-138 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1381
AccB1I GGYRCC 1 cut(s) 149
AccI GTMKAC 1 cut(s) 5
AccII CGCG 2 cut(s) 129, 1446
AciI CCGC 3 cut(s) 127, 147, 331
AcoI YGGCCR 2 cut(s) 9, 376
AcsI RAATTY 3 cut(s) 265, 888, 1517
AcuI CTGAAG 1 cut(s) 1125
AcyI GRCGYC 2 cut(s) 150, 310
AfaI GTAC 7 cut(s) 196, 341, 389, 512, 1371, 1405, 1626
AfiI CCNNNNNNNGG 2 cut(s) 35, 1400
AflIII ACRYGT 1 cut(s) 1444
AgeI ACCGGT 1 cut(s) 1411
AgsI TTSAA 5 cut(s) 404, 490, 496, 775, 1045
AjnI CCWGG 2 cut(s) 353, 390
AluBI AGCT 8 cut(s) 599, 614, 689, 911, 962, 1051, 1147, 1617
AluI AGCT 8 cut(s) 599, 614, 689, 911, 962, 1051, 1147, 1617
Alw21I GWGCWC 3 cut(s) 412, 882, 1309
Alw26I GTCTC 3 cut(s) 19, 288, 387
Alw44I GTGCAC 2 cut(s) 408, 1305
AlwNI CAGNNNCTG 1 cut(s) 692
AoxI GGCC 3 cut(s) 9, 376, 1467
ApaLI GTGCAC 2 cut(s) 408, 1305
ApeKI GCWGC 5 cut(s) 599, 614, 689, 1553, 1614
ApoI RAATTY 3 cut(s) 265, 888, 1517
ArsI GACNNNNNNTTYG 1 cut(s) 30
AsiGI ACCGGT 1 cut(s) 1411
Asp700I GAANNNNTTC 2 cut(s) 215, 718
AspLEI GCGC 4 cut(s) 131, 152, 821, 1393
AspS9I GGNCC 1 cut(s) 1467
AsuII TTCGAA 1 cut(s) 254
AxyI CCTNAGG 1 cut(s) 927
BaeGI GKGCMC 2 cut(s) 412, 1309
BanI GGYRCC 1 cut(s) 149
BbsI GAAGAC 2 cut(s) 263, 1534
Bbv12I GWGCWC 3 cut(s) 412, 882, 1309
BbvI GCAGC 5 cut(s) 586, 601, 676, 1540, 1626
BccI CCATC 8 cut(s) 290, 566, 579, 785, 791, 1192, 1355, 1435
BceAI ACGGC 3 cut(s) 24, 137, 1454
BciT130I CCWGG 2 cut(s) 355, 392
BcoDI GTCTC 3 cut(s) 19, 288, 387
BfmI CTRYAG 1 cut(s) 567
BfoI RGCGCY 1 cut(s) 153
BfuAI ACCTGC 1 cut(s) 1381
BisI GCNGC 6 cut(s) 148, 600, 615, 690, 1554, 1615
BlsI GCNGC 6 cut(s) 149, 601, 616, 691, 1555, 1616
BmcAI AGTACT 2 cut(s) 196, 1626
Bme1390I CCNGG 2 cut(s) 355, 392
BmgT120I GGNCC 1 cut(s) 1467
BmiI GGNNCC 7 cut(s) 151, 948, 1152, 1182, 1359, 1425, 1609
BmrFI CCNGG 2 cut(s) 355, 392
BmrI ACTGGG 1 cut(s) 883
BmsI GCATC 7 cut(s) 313, 451, 823, 1156, 1276, 1304, 1467
BmuI ACTGGG 1 cut(s) 883
BoxI GACNNNNGTC 1 cut(s) 1194
BpiI GAAGAC 2 cut(s) 263, 1534
BpmI CTGGAG 1 cut(s) 951
Bpu10I CCTNAGC 1 cut(s) 1290
Bpu14I TTCGAA 1 cut(s) 254
BsaHI GRCGYC 2 cut(s) 150, 310
BsaI GGTCTC 3 cut(s) 19, 288, 387
BsaJI CCNNGG 5 cut(s) 54, 353, 354, 391, 1452
BsaWI WCCGGW 1 cut(s) 1411
BsaXI ACNNNNNCTCC 2 cut(s) 1349, 1379
Bsc4I CCNNNNNNNGG 2 cut(s) 35, 1400
Bse118I RCCGGY 2 cut(s) 378, 1411
Bse1I ACTGG 2 cut(s) 878, 1224
Bse21I CCTNAGG 1 cut(s) 927
BseBI CCWGG 2 cut(s) 355, 392
BseDI CCNNGG 5 cut(s) 54, 353, 354, 391, 1452
BseLI CCNNNNNNNGG 2 cut(s) 35, 1400
BseMII CTCAG 6 cut(s) 14, 21, 398, 918, 1013, 1533
BseNI ACTGG 2 cut(s) 878, 1224
BseRI GAGGAG 3 cut(s) 744, 954, 1370
BseSI GKGCMC 2 cut(s) 412, 1309
BseX3I CGGCCG 1 cut(s) 9
BseXI GCAGC 5 cut(s) 586, 601, 676, 1540, 1626
Bsh1236I CGCG 2 cut(s) 129, 1446
Bsh1285I CGRYCG 1 cut(s) 12
BshFI GGCC 3 cut(s) 11, 378, 1469
BshNI GGYRCC 1 cut(s) 149
BshTI ACCGGT 1 cut(s) 1411
BsiEI CGRYCG 1 cut(s) 12
BsiHKAI GWGCWC 3 cut(s) 412, 882, 1309
BsiSI CCGG 2 cut(s) 379, 1412
BslFI GGGAC 2 cut(s) 687, 1182
BslI CCNNNNNNNGG 2 cut(s) 35, 1400
BsmAI GTCTC 3 cut(s) 19, 288, 387
BsmFI GGGAC 2 cut(s) 687, 1182
BsnI GGCC 3 cut(s) 11, 378, 1469
Bso31I GGTCTC 3 cut(s) 19, 288, 387
Bsp119I TTCGAA 1 cut(s) 254
Bsp1286I GDGCHC 3 cut(s) 412, 882, 1309
Bsp143I GATC 1 cut(s) 1504
BspACI CCGC 3 cut(s) 127, 147, 331
BspANI GGCC 3 cut(s) 11, 378, 1469
BspCNI CTCAG 6 cut(s) 15, 22, 397, 919, 1014, 1534
BspFNI CGCG 2 cut(s) 129, 1446
BspLI GGNNCC 7 cut(s) 151, 948, 1152, 1182, 1359, 1425, 1609
BspMAI CTGCAG 1 cut(s) 571
BspMI ACCTGC 1 cut(s) 1381
BspT104I TTCGAA 1 cut(s) 254
BspT107I GGYRCC 1 cut(s) 149
BspTNI GGTCTC 3 cut(s) 19, 288, 387
BsrFI RCCGGY 2 cut(s) 378, 1411
BsrI ACTGG 2 cut(s) 878, 1224
BssAI RCCGGY 2 cut(s) 378, 1411
BssECI CCNNGG 5 cut(s) 54, 353, 354, 391, 1452
BssMI GATC 1 cut(s) 1504
BssNI GRCGYC 2 cut(s) 150, 310
BssT1I CCWWGG 1 cut(s) 54
Bst2UI CCWGG 2 cut(s) 355, 392
Bst4CI ACNGT 5 cut(s) 104, 199, 510, 1196, 1304
Bst6I CTCTTC 2 cut(s) 534, 744
BstACI GRCGYC 2 cut(s) 150, 310
BstAPI GCANNNNNTGC 2 cut(s) 144, 416
BstBI TTCGAA 1 cut(s) 254
BstC8I GCNNGC 2 cut(s) 80, 1149
BstENI CCTNNNNNAGG 1 cut(s) 1398
BstFNI CGCG 2 cut(s) 129, 1446
BstH2I RGCGCY 1 cut(s) 153
BstHHI GCGC 4 cut(s) 131, 152, 821, 1393
BstKTI GATC 1 cut(s) 1507
BstMAI GTCTC 3 cut(s) 19, 288, 387
BstMBI GATC 1 cut(s) 1504
BstMCI CGRYCG 1 cut(s) 12
BstMWI GCNNNNNNNGC 6 cut(s) 135, 144, 416, 439, 473, 1057
BstNI CCWGG 2 cut(s) 355, 392
BstPAI GACNNNNGTC 1 cut(s) 1194
BstSCI CCNGG 2 cut(s) 353, 390
BstSFI CTRYAG 1 cut(s) 567
BstSLI GKGCMC 2 cut(s) 412, 1309
BstUI CGCG 2 cut(s) 129, 1446
BstV1I GCAGC 5 cut(s) 586, 601, 676, 1540, 1626
BstV2I GAAGAC 2 cut(s) 263, 1534
BstXI CCANNNNNNTGG 1 cut(s) 296
BstZI CGGCCG 1 cut(s) 9
Bsu36I CCTNAGG 1 cut(s) 927
BsuRI GGCC 3 cut(s) 11, 378, 1469
BtgZI GCGATG 1 cut(s) 1296
BtsIMutI CAGTG 2 cut(s) 894, 1309
BveI ACCTGC 1 cut(s) 1381
Cac8I GCNNGC 2 cut(s) 80, 1149
CaiI CAGNNNCTG 1 cut(s) 692
CfoI GCGC 4 cut(s) 131, 152, 821, 1393
Cfr10I RCCGGY 2 cut(s) 378, 1411
Cfr13I GGNCC 1 cut(s) 1467
CseI GACGC 4 cut(s) 318, 1209, 1435, 1452
Csp6I GTAC 7 cut(s) 195, 340, 388, 511, 1370, 1404, 1625
CspAI ACCGGT 1 cut(s) 1411
CspCI CAANNNNNGTGG 4 cut(s) 766, 801, 997, 1032
CviAII CATG 2 cut(s) 328, 841
CviQI GTAC 7 cut(s) 195, 340, 388, 511, 1370, 1404, 1625
DinI GGCGCC 1 cut(s) 151
DpnI GATC 1 cut(s) 1506
DpnII GATC 1 cut(s) 1504
EaeI YGGCCR 2 cut(s) 9, 376
EagI CGGCCG 1 cut(s) 9
Eam1104I CTCTTC 2 cut(s) 534, 744
EarI CTCTTC 2 cut(s) 534, 744
EclXI CGGCCG 1 cut(s) 9
Eco130I CCWWGG 1 cut(s) 54
Eco31I GGTCTC 3 cut(s) 19, 288, 387
Eco32I GATATC 1 cut(s) 856
Eco52I CGGCCG 1 cut(s) 9
Eco57I CTGAAG 1 cut(s) 1125
Eco81I CCTNAGG 1 cut(s) 927
EcoNI CCTNNNNNAGG 1 cut(s) 1398
EcoRI GAATTC 1 cut(s) 265
EcoRII CCWGG 2 cut(s) 353, 390
EcoRV GATATC 1 cut(s) 856
EcoT14I CCWWGG 1 cut(s) 54
EgeI GGCGCC 1 cut(s) 151
EheI GGCGCC 1 cut(s) 151
ErhI CCWWGG 1 cut(s) 54
FaeI CATG 2 cut(s) 331, 844
FaiI YATR 8 cut(s) 64, 180, 329, 579, 651, 842, 1118, 1622
FalI AAGNNNNNCTT 2 cut(s) 200, 232
FaqI GGGAC 2 cut(s) 687, 1182
FatI CATG 2 cut(s) 327, 840
FauI CCCGC 1 cut(s) 324
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 6 cut(s) 148, 600, 615, 690, 1554, 1615
Fsp4HI GCNGC 6 cut(s) 148, 600, 615, 690, 1554, 1615
GlaI GCGC 4 cut(s) 130, 151, 820, 1392
GluI GCNGC 6 cut(s) 148, 600, 615, 690, 1554, 1615
GsuI CTGGAG 1 cut(s) 951
HaeII RGCGCY 1 cut(s) 153
HaeIII GGCC 3 cut(s) 11, 378, 1469
HapII CCGG 2 cut(s) 379, 1412
HgaI GACGC 4 cut(s) 318, 1209, 1435, 1452
HhaI GCGC 4 cut(s) 131, 152, 821, 1393
Hin1I GRCGYC 2 cut(s) 150, 310
Hin1II CATG 2 cut(s) 331, 844
Hin6I GCGC 4 cut(s) 129, 150, 819, 1391
HinP1I GCGC 4 cut(s) 129, 150, 819, 1391
HincII GTYRAC 1 cut(s) 6
HindII GTYRAC 1 cut(s) 6
HinfI GANTC 5 cut(s) 88, 955, 1079, 1530, 1578
HpaII CCGG 2 cut(s) 379, 1412
Hpy166II GTNNAC 5 cut(s) 6, 410, 1019, 1307, 1442
Hpy188I TCNGA 6 cut(s) 271, 724, 1084, 1144, 1189, 1543
Hpy188III TCNNGA 8 cut(s) 173, 401, 450, 859, 926, 968, 1032, 1324
Hpy8I GTNNAC 5 cut(s) 6, 410, 1019, 1307, 1442
Hpy99I CGWCG 4 cut(s) 10, 101, 158, 1103
HpyCH4III ACNGT 5 cut(s) 104, 199, 510, 1196, 1304
HpyF10VI GCNNNNNNNGC 6 cut(s) 135, 144, 416, 439, 473, 1057
Hsp92I GRCGYC 2 cut(s) 150, 310
Hsp92II CATG 2 cut(s) 331, 844
HspAI GCGC 4 cut(s) 129, 150, 819, 1391
KasI GGCGCC 1 cut(s) 149
Kzo9I GATC 1 cut(s) 1504
LmnI GCTCC 6 cut(s) 611, 877, 967, 1156, 1357, 1423
Lsp1109I GCAGC 5 cut(s) 586, 601, 676, 1540, 1626
LweI GCATC 7 cut(s) 313, 451, 823, 1156, 1276, 1304, 1467
MaeIII GTNAC 3 cut(s) 157, 232, 1447
MalI GATC 1 cut(s) 1506
MboI GATC 1 cut(s) 1504
MfeI CAATTG 1 cut(s) 73
MhlI GDGCHC 3 cut(s) 412, 882, 1309
MluCI AATT 8 cut(s) 73, 168, 211, 265, 490, 888, 972, 1517
MluI ACGCGT 1 cut(s) 1444
Mly113I GGCGCC 1 cut(s) 150
MlyI GAGTC 2 cut(s) 82, 1524
MmeI TCCRAC 1 cut(s) 735
MroXI GAANNNNTTC 2 cut(s) 215, 718
MseI TTAA 3 cut(s) 167, 975, 1521
MslI CAYNNNNRTG 1 cut(s) 294
MspA1I CMGCKG 1 cut(s) 689
MspI CCGG 2 cut(s) 379, 1412
MspR9I CCNGG 2 cut(s) 355, 392
MunI CAATTG 1 cut(s) 73
MvaI CCWGG 2 cut(s) 355, 392
MvnI CGCG 2 cut(s) 129, 1446
MwoI GCNNNNNNNGC 6 cut(s) 135, 144, 416, 439, 473, 1057
NarI GGCGCC 1 cut(s) 150
NdeII GATC 1 cut(s) 1504
NlaIII CATG 2 cut(s) 331, 844
NlaIV GGNNCC 7 cut(s) 151, 948, 1152, 1182, 1359, 1425, 1609
NmeAIII GCCGAG 1 cut(s) 270
NmuCI GTSAC 3 cut(s) 157, 232, 1447
NspV TTCGAA 1 cut(s) 254
PasI CCCWGGG 1 cut(s) 354
PcsI WCGNNNNNNNCGW 4 cut(s) 169, 242, 855, 1104
PdmI GAANNNNTTC 2 cut(s) 215, 718
PfeI GAWTC 3 cut(s) 955, 1079, 1578
PinAI ACCGGT 1 cut(s) 1411
PkrI GCNGC 6 cut(s) 149, 601, 616, 691, 1555, 1616
PleI GAGTC 2 cut(s) 82, 1524
PluTI GGCGCC 1 cut(s) 153
PpsI GAGTC 2 cut(s) 82, 1524
PshAI GACNNNNGTC 1 cut(s) 1194
Psp6I CCWGG 2 cut(s) 353, 390
PspGI CCWGG 2 cut(s) 353, 390
PspN4I GGNNCC 7 cut(s) 151, 948, 1152, 1182, 1359, 1425, 1609
PspPI GGNCC 1 cut(s) 1467
PstI CTGCAG 1 cut(s) 571
PstNI CAGNNNCTG 1 cut(s) 692
PvuII CAGCTG 1 cut(s) 689
RsaI GTAC 7 cut(s) 196, 341, 389, 512, 1371, 1405, 1626
RsaNI GTAC 7 cut(s) 195, 340, 388, 511, 1370, 1404, 1625
RseI CAYNNNNRTG 1 cut(s) 294
SalI GTCGAC 1 cut(s) 4
SaqAI TTAA 3 cut(s) 167, 975, 1521
SatI GCNGC 6 cut(s) 148, 600, 615, 690, 1554, 1615
Sau3AI GATC 1 cut(s) 1504
Sau96I GGNCC 1 cut(s) 1467
ScaI AGTACT 2 cut(s) 196, 1626
SchI GAGTC 2 cut(s) 82, 1524
ScrFI CCNGG 2 cut(s) 355, 392
SduI GDGCHC 3 cut(s) 412, 882, 1309
SfaNI GCATC 7 cut(s) 313, 451, 823, 1156, 1276, 1304, 1467
SfcI CTRYAG 1 cut(s) 567
SfoI GGCGCC 1 cut(s) 151
SfuI TTCGAA 1 cut(s) 254
SgrAI CRCCGGYG 1 cut(s) 1411
SmiMI CAYNNNNRTG 1 cut(s) 294
Sse9I AATT 8 cut(s) 73, 168, 211, 265, 490, 888, 972, 1517
SsiI CCGC 3 cut(s) 127, 147, 331
SspDI GGCGCC 1 cut(s) 149
StyD4I CCNGG 2 cut(s) 353, 390
StyI CCWWGG 1 cut(s) 54
TaaI ACNGT 5 cut(s) 104, 199, 510, 1196, 1304
TaqI TCGA 7 cut(s) 5, 172, 187, 254, 858, 1228, 1562
TasI AATT 8 cut(s) 73, 168, 211, 265, 490, 888, 972, 1517
TatI WGTACW 4 cut(s) 194, 339, 510, 1624
TauI GCSGC 1 cut(s) 150
TfiI GAWTC 3 cut(s) 955, 1079, 1578
Tru1I TTAA 3 cut(s) 167, 975, 1521
Tru9I TTAA 3 cut(s) 167, 975, 1521
TscAI CASTG 2 cut(s) 901, 1309
TseFI GTSAC 3 cut(s) 157, 232, 1447
TseI GCWGC 5 cut(s) 599, 614, 689, 1553, 1614
Tsp45I GTSAC 3 cut(s) 157, 232, 1447
TspDTI ATGAA 9 cut(s) 208, 594, 608, 720, 759, 828, 921, 1014, 1350
TspGWI ACGGA 3 cut(s) 81, 1436, 1620
TspRI CASTG 2 cut(s) 901, 1309
VneI GTGCAC 2 cut(s) 408, 1305
XagI CCTNNNNNAGG 1 cut(s) 1398
XapI RAATTY 3 cut(s) 265, 888, 1517
XmiI GTMKAC 1 cut(s) 5
XmnI GAANNNNTTC 2 cut(s) 215, 718
ZrmI AGTACT 2 cut(s) 196, 1626
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.