pycom111g05250

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
SuperScaffold_111
OG0022351
Physical Location & Seq
Forward (+)
3384480 .. 3385013
534 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom111g05250.1

Sequence Viewer

Length: 534 bp
ATGTCTCTCGCAAAAGCTACAGAATACCTGGAAGCCATGGCTCACCACCTAGACAAGCATGGCCTTCCCAAAAGCGTACTATATGATGCCAAAGTGTTATACAAGAAGGCCGTTGACAAGAAGATCTGCAGGGGGAGAAAGTTTGGTGCTATGATGGCCGCTTGCCTGTTCCTTGCTTGCCAAGAAAACCATAGTTCGCGAACACCAAAGGAAATCGCCGGGGCTGCCAACGGACCCTCAATGAAAGAAATTACCAAGATGGTAAAAGTGTTGAAAGAAGAGCTAGAGCTCGGTTCCAAAGCTACAGACGCCGGGGACCTATGGCGGCGATACTGCTCAAATCTTGGCATGAACAGTATTCAGGATCGGAAGGCTGTGGAAGAGACTTTGAAGAACTTGGCGAAGCTTGACATAAGAAGCCCTACATCTGTTGTGGCAGCGGTTTTGTACATGATAGTGAAGCTTGCTTCCAATGGAAACAGTGTTGATCGAAGATGTCCAGCAAGAAACTGGTGCTGCCGTGGGGACGATTAA

Protein Analysis

178

Amino Acids

19.59

Weight (kDa)

9.33

Isoelectric Point (pI)

40.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIB PF00382 2 - 75 1e-14 Transcription factor TFIIB repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0022351)

Species Orthologous Gene IDs
malus_domestica MD09G1062100.v1.1 MD09G1062200.v1.1
pyrus_communis pycom111g05240 pycom111g05250

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 199
AciI CCGC 3 cut(s) 159, 325, 440
AclWI GGATC 1 cut(s) 372
AcoI YGGCCR 1 cut(s) 156
AcyI GRCGYC 1 cut(s) 309
AfaI GTAC 2 cut(s) 78, 449
AgsI TTSAA 2 cut(s) 274, 391
AjnI CCWGG 1 cut(s) 27
AluBI AGCT 6 cut(s) 17, 283, 289, 302, 406, 463
AluI AGCT 6 cut(s) 17, 283, 289, 302, 406, 463
Alw21I GWGCWC 1 cut(s) 291
Alw26I GTCTC 2 cut(s) 9, 377
AlwI GGATC 1 cut(s) 372
AoxI GGCC 3 cut(s) 61, 108, 156
ApeKI GCWGC 3 cut(s) 224, 437, 516
AspS9I GGNCC 2 cut(s) 233, 316
AsuC2I CCSGG 2 cut(s) 220, 313
AsuHPI GGTGA 1 cut(s) 35
AvaII GGWCC 2 cut(s) 233, 316
BanII GRGCYC 1 cut(s) 291
Bbv12I GWGCWC 1 cut(s) 291
BbvI GCAGC 3 cut(s) 211, 449, 503
BccI CCATC 2 cut(s) 148, 253
BceAI ACGGC 2 cut(s) 95, 504
BciT130I CCWGG 1 cut(s) 29
BcnI CCSGG 2 cut(s) 220, 313
BcoDI GTCTC 2 cut(s) 9, 377
BfaI CTAG 2 cut(s) 50, 284
BfmI CTRYAG 3 cut(s) 18, 127, 303
BglII AGATCT 1 cut(s) 123
BisI GCNGC 5 cut(s) 159, 225, 326, 438, 517
BlsI GCNGC 5 cut(s) 160, 226, 327, 439, 518
Bme1390I CCNGG 3 cut(s) 29, 220, 313
Bme18I GGWCC 2 cut(s) 233, 316
BmgT120I GGNCC 2 cut(s) 233, 316
BmiI GGNNCC 3 cut(s) 235, 295, 317
BmrFI CCNGG 3 cut(s) 29, 220, 313
BmsI GCATC 1 cut(s) 76
BpuMI CCSGG 2 cut(s) 220, 313
BsaHI GRCGYC 1 cut(s) 309
BsaJI CCNNGG 4 cut(s) 36, 219, 312, 520
Bse1I ACTGG 1 cut(s) 515
BseBI CCWGG 1 cut(s) 29
BseDI CCNNGG 4 cut(s) 36, 219, 312, 520
BseNI ACTGG 1 cut(s) 515
BseXI GCAGC 3 cut(s) 211, 449, 503
Bsh1236I CGCG 1 cut(s) 199
BshFI GGCC 3 cut(s) 63, 110, 158
BsiHKAI GWGCWC 1 cut(s) 291
BsiSI CCGG 2 cut(s) 219, 312
BslFI GGGAC 1 cut(s) 329
BsmAI GTCTC 2 cut(s) 9, 377
BsmFI GGGAC 1 cut(s) 329
BsnI GGCC 3 cut(s) 63, 110, 158
Bsp1286I GDGCHC 1 cut(s) 291
Bsp1407I TGTACA 1 cut(s) 447
Bsp143I GATC 3 cut(s) 123, 364, 487
Bsp19I CCATGG 1 cut(s) 36
Bsp68I TCGCGA 1 cut(s) 199
BspACI CCGC 3 cut(s) 159, 325, 440
BspANI GGCC 3 cut(s) 63, 110, 158
BspFNI CGCG 1 cut(s) 199
BspLI GGNNCC 3 cut(s) 235, 295, 317
BspMAI CTGCAG 1 cut(s) 131
BspPI GGATC 1 cut(s) 372
BspQI GCTCTTC 1 cut(s) 273
BsrGI TGTACA 1 cut(s) 447
BsrI ACTGG 1 cut(s) 515
BssECI CCNNGG 4 cut(s) 36, 219, 312, 520
BssMI GATC 3 cut(s) 123, 364, 487
BssNI GRCGYC 1 cut(s) 309
BssT1I CCWWGG 1 cut(s) 36
Bst2UI CCWGG 1 cut(s) 29
Bst4CI ACNGT 2 cut(s) 356, 482
Bst6I CTCTTC 2 cut(s) 273, 375
BstACI GRCGYC 1 cut(s) 309
BstAUI TGTACA 1 cut(s) 447
BstC8I GCNNGC 3 cut(s) 163, 178, 465
BstDSI CCRYGG 2 cut(s) 36, 520
BstFNI CGCG 1 cut(s) 199
BstKTI GATC 3 cut(s) 126, 367, 490
BstMAI GTCTC 2 cut(s) 9, 377
BstMBI GATC 3 cut(s) 123, 364, 487
BstMWI GCNNNNNNNGC 3 cut(s) 155, 224, 308
BstNI CCWGG 1 cut(s) 29
BstSCI CCNGG 3 cut(s) 27, 218, 311
BstSFI CTRYAG 3 cut(s) 18, 127, 303
BstUI CGCG 1 cut(s) 199
BstV1I GCAGC 3 cut(s) 211, 449, 503
BstX2I RGATCY 1 cut(s) 123
BstYI RGATCY 1 cut(s) 123
BsuRI GGCC 3 cut(s) 63, 110, 158
BtgI CCRYGG 2 cut(s) 36, 520
BtsIMutI CAGTG 1 cut(s) 487
BtuMI TCGCGA 1 cut(s) 199
Cac8I GCNNGC 3 cut(s) 163, 178, 465
Cfr13I GGNCC 2 cut(s) 233, 316
CseI GACGC 1 cut(s) 317
Csp6I GTAC 2 cut(s) 77, 448
CviAII CATG 4 cut(s) 37, 59, 349, 451
CviQI GTAC 2 cut(s) 77, 448
DpnI GATC 3 cut(s) 125, 366, 489
DpnII GATC 3 cut(s) 123, 364, 487
EaeI YGGCCR 1 cut(s) 156
Eam1104I CTCTTC 2 cut(s) 273, 375
EarI CTCTTC 2 cut(s) 273, 375
Ecl136II GAGCTC 1 cut(s) 289
Eco130I CCWWGG 1 cut(s) 36
Eco24I GRGCYC 1 cut(s) 291
Eco47I GGWCC 2 cut(s) 233, 316
Eco53kI GAGCTC 1 cut(s) 289
EcoICRI GAGCTC 1 cut(s) 289
EcoO109I RGGNCCY 1 cut(s) 316
EcoRII CCWGG 1 cut(s) 27
EcoT14I CCWWGG 1 cut(s) 36
EcoT38I GRGCYC 1 cut(s) 291
ErhI CCWWGG 1 cut(s) 36
FaeI CATG 4 cut(s) 40, 62, 352, 454
FaqI GGGAC 1 cut(s) 329
FatI CATG 4 cut(s) 36, 58, 348, 450
Fnu4HI GCNGC 5 cut(s) 159, 225, 326, 438, 517
FriOI GRGCYC 1 cut(s) 291
Fsp4HI GCNGC 5 cut(s) 159, 225, 326, 438, 517
FspBI CTAG 2 cut(s) 50, 284
GluI GCNGC 5 cut(s) 159, 225, 326, 438, 517
HaeIII GGCC 3 cut(s) 63, 110, 158
HapII CCGG 2 cut(s) 219, 312
HgaI GACGC 1 cut(s) 317
Hin1I GRCGYC 1 cut(s) 309
Hin1II CATG 4 cut(s) 40, 62, 352, 454
HincII GTYRAC 1 cut(s) 115
HindII GTYRAC 1 cut(s) 115
HindIII AAGCTT 2 cut(s) 404, 461
HpaII CCGG 2 cut(s) 219, 312
HphI GGTGA 1 cut(s) 35
Hpy166II GTNNAC 1 cut(s) 115
Hpy188I TCNGA 1 cut(s) 369
Hpy188III TCNNGA 2 cut(s) 198, 362
Hpy8I GTNNAC 1 cut(s) 115
HpyAV CCTTC 3 cut(s) 74, 100, 364
HpyCH4III ACNGT 2 cut(s) 356, 482
HpyCH4V TGCA 1 cut(s) 129
HpyF10VI GCNNNNNNNGC 3 cut(s) 155, 224, 308
Hsp92I GRCGYC 1 cut(s) 309
Hsp92II CATG 4 cut(s) 40, 62, 352, 454
Kzo9I GATC 3 cut(s) 123, 364, 487
LguI GCTCTTC 1 cut(s) 273
LpnPI CCDG 9 cut(s) 14, 41, 115, 179, 232, 325, 347, 496, 513
Lsp1109I GCAGC 3 cut(s) 211, 449, 503
LweI GCATC 1 cut(s) 76
MaeI CTAG 2 cut(s) 50, 284
MalI GATC 3 cut(s) 125, 366, 489
MboI GATC 3 cut(s) 123, 364, 487
MboII GAAGA 5 cut(s) 133, 290, 392, 403, 504
MflI RGATCY 1 cut(s) 123
MhlI GDGCHC 1 cut(s) 291
MluCI AATT 1 cut(s) 249
MnlI CCTC 1 cut(s) 247
MseI TTAA 1 cut(s) 532
MslI CAYNNNNRTG 1 cut(s) 455
MspA1I CMGCKG 1 cut(s) 440
MspI CCGG 2 cut(s) 219, 312
MspR9I CCNGG 3 cut(s) 29, 220, 313
MvaI CCWGG 1 cut(s) 29
MvnI CGCG 1 cut(s) 199
MwoI GCNNNNNNNGC 3 cut(s) 155, 224, 308
NciI CCSGG 2 cut(s) 220, 313
NcoI CCATGG 1 cut(s) 36
NdeII GATC 3 cut(s) 123, 364, 487
NlaIII CATG 4 cut(s) 40, 62, 352, 454
NlaIV GGNNCC 3 cut(s) 235, 295, 317
NruI TCGCGA 1 cut(s) 199
PciSI GCTCTTC 1 cut(s) 273
PkrI GCNGC 5 cut(s) 160, 226, 327, 439, 518
PpuMI RGGWCCY 1 cut(s) 316
Psp124BI GAGCTC 1 cut(s) 291
Psp5II RGGWCCY 1 cut(s) 316
Psp6I CCWGG 1 cut(s) 27
PspGI CCWGG 1 cut(s) 27
PspN4I GGNNCC 3 cut(s) 235, 295, 317
PspPI GGNCC 2 cut(s) 233, 316
PspPPI RGGWCCY 1 cut(s) 316
PstI CTGCAG 1 cut(s) 131
PsuI RGATCY 1 cut(s) 123
RruI TCGCGA 1 cut(s) 199
RsaI GTAC 2 cut(s) 78, 449
RsaNI GTAC 2 cut(s) 77, 448
RseI CAYNNNNRTG 1 cut(s) 455
SacI GAGCTC 1 cut(s) 291
SapI GCTCTTC 1 cut(s) 273
SaqAI TTAA 1 cut(s) 532
SatI GCNGC 5 cut(s) 159, 225, 326, 438, 517
Sau3AI GATC 3 cut(s) 123, 364, 487
Sau96I GGNCC 2 cut(s) 233, 316
ScrFI CCNGG 3 cut(s) 29, 220, 313
SduI GDGCHC 1 cut(s) 291
SetI ASST 9 cut(s) 19, 30, 51, 285, 291, 304, 321, 408, 465
SfaNI GCATC 1 cut(s) 76
SfcI CTRYAG 3 cut(s) 18, 127, 303
SinI GGWCC 2 cut(s) 233, 316
SmiMI CAYNNNNRTG 1 cut(s) 455
Sse9I AATT 1 cut(s) 249
SsiI CCGC 3 cut(s) 159, 325, 440
SspMI CTAG 2 cut(s) 50, 284
SstI GAGCTC 1 cut(s) 291
StyD4I CCNGG 3 cut(s) 27, 218, 311
StyI CCWWGG 1 cut(s) 36
TaaI ACNGT 2 cut(s) 356, 482
TaqI TCGA 1 cut(s) 490
TasI AATT 1 cut(s) 249
TatI WGTACW 1 cut(s) 447
TauI GCSGC 2 cut(s) 161, 328
Tru1I TTAA 1 cut(s) 532
Tru9I TTAA 1 cut(s) 532
TscAI CASTG 1 cut(s) 487
TseI GCWGC 3 cut(s) 224, 437, 516
TspDTI ATGAA 2 cut(s) 257, 365
TspGWI ACGGA 1 cut(s) 246
TspRI CASTG 1 cut(s) 487
VpaK11BI GGWCC 2 cut(s) 233, 316
XcmI CCANNNNNNNNNTGG 1 cut(s) 507
XspI CTAG 2 cut(s) 50, 284
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.