pycom07g01650

RNA polymerase sigma factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr7
OG0005329
Physical Location & Seq
Reverse (-)
1297717 .. 1300662
2946 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 981 bp
ATGACTCACACTTCGACTCGACTCTCCACGGCTGAGGCGCTGGCACTGGCCCGGGCTGCCGTGGTGGCGGCCAGAGACGCTGCAGCGGTGAGGGATGAGATTGTGGAGGCTTGGAGTTGTAGGGAGAGTGGGAATGGGAGTGGTGGGTTGGTGGTGAGGAGGAAGAGGAGGAGGAAAAGGAGAAAAGGGTTGGAGGGTTTGGATGAGGAGAGGGGGAGGGGTGTTGGAGATGGAAAGTTGTCGTTTGGGTTTGTGAGATGTGGGCATCTGAACCCAAAAGAAGAAGCTGAATGCTGTCTCAATCTCAAGGTACTAATTTTCCTTGGTTCTTTTATGGCAAATTTGTACTGGTGCTTTGTAAGAAAAGAGTCACAAGAAAGGATCATCAGGAGCTACAGGGGACTCATTGTCTCTGTTTCCAGCAGTTATCAAGGCAAATGTCTAAGCTTTCAAGACCTCATTCAGGTTCCTACACCTTTTTACTCCTGTCCAACACTTTCCGTAAGTGGATGGAAATTATCAATGTACATCGACTGGTGGATCAGGCAAGCTATTATCAGAGCCCTAGACAACAAGTCTAGAATAATCAGATTACCAGTAAACATATGCGGTATGATGGCAAAAATTACAAAAGCTAAAAATTCCTTCAATCAAAGATTCAAGCGGCTGCCTACTCATGATGAAATTGCTGAAGTGGTCAATGTGCCTGCCACAACTGTAAATCTTGTTTGCGACAGGAGCAGACCGCTGATTTCATTGGATCGAGTGGTAACTTTTCGAGGTTGCATGTCACTGCAGGAGATGATACCTGAAAAGATGCTTACAAAACAGCTAATGAAGCAGGAGGTCGAGAAGCTTCTGAAGAAGCTGAGCAATAGAGAAGCATATAAGGTTCGACAGATTAATCAGATTAATGGAATTGCGTTATCAAAGTTAAAGCATACTAGTACTTTCAACAATCTAAAATTGTATATTGTATAA

Protein Analysis

327

Amino Acids

37.02

Weight (kDa)

10.01

Isoelectric Point (pI)

45.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sigma70_r3 PF04539 208 - 272 1.5e-07 Sigma-70 region 3
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 5 cut(s) 68, 86, 609, 664, 746
AclWI GGATC 3 cut(s) 389, 548, 768
AcoI YGGCCR 1 cut(s) 69
AcsI RAATTY 2 cut(s) 340, 640
AcuI CTGAAG 2 cut(s) 711, 881
AfaI GTAC 4 cut(s) 312, 347, 527, 949
AfiI CCNNNNNNNGG 1 cut(s) 463
AgsI TTSAA 4 cut(s) 452, 649, 661, 955
AhdI GACNNNNNGTC 2 cut(s) 407, 574
AhlI ACTAGT 1 cut(s) 944
AluBI AGCT 8 cut(s) 287, 393, 447, 551, 635, 832, 856, 868
AluI AGCT 8 cut(s) 287, 393, 447, 551, 635, 832, 856, 868
Alw26I GTCTC 3 cut(s) 69, 302, 415
AlwI GGATC 3 cut(s) 389, 548, 768
Ama87I CYCGRG 1 cut(s) 51
AoxI GGCC 2 cut(s) 48, 69
ApeKI GCWGC 4 cut(s) 56, 80, 83, 667
ApoI RAATTY 2 cut(s) 340, 640
ArsI GACNNNNNNTTYG 1 cut(s) 27
AseI ATTAAT 2 cut(s) 903, 912
AspLEI GCGC 1 cut(s) 40
AspS9I GGNCC 1 cut(s) 49
AsuC2I CCSGG 2 cut(s) 52, 53
AsuHPI GGTGA 2 cut(s) 100, 166
AvaI CYCGRG 1 cut(s) 51
BanII GRGCYC 1 cut(s) 565
BbvCI CCTCAGC 1 cut(s) 33
BbvI GCAGC 4 cut(s) 43, 67, 95, 654
BccI CCATC 3 cut(s) 224, 504, 610
BceAI ACGGC 2 cut(s) 44, 45
BcnI CCSGG 2 cut(s) 52, 53
BcoDI GTCTC 3 cut(s) 69, 302, 415
BcuI ACTAGT 1 cut(s) 944
BfaI CTAG 3 cut(s) 566, 579, 945
BfmI CTRYAG 3 cut(s) 81, 394, 794
BfoI RGCGCY 1 cut(s) 41
BglI GCCNNNNNGGC 1 cut(s) 65
BisI GCNGC 6 cut(s) 57, 69, 81, 84, 665, 668
BlpI GCTNAGC 1 cut(s) 869
BlsI GCNGC 6 cut(s) 58, 70, 82, 85, 666, 669
BmcAI AGTACT 1 cut(s) 949
Bme1390I CCNGG 2 cut(s) 52, 53
BmeRI GACNNNNNGTC 2 cut(s) 407, 574
BmeT110I CYCGRG 1 cut(s) 51
BmgT120I GGNCC 1 cut(s) 49
BmiI GGNNCC 1 cut(s) 468
BmrFI CCNGG 2 cut(s) 52, 53
BmsI GCATC 2 cut(s) 274, 807
Bpu10I CCTNAGC 1 cut(s) 33
Bpu1102I GCTNAGC 1 cut(s) 869
BpuEI CTTGAG 1 cut(s) 290
BpuMI CCSGG 2 cut(s) 52, 53
BsaJI CCNNGG 4 cut(s) 27, 51, 60, 322
Bsc4I CCNNNNNNNGG 1 cut(s) 463
Bse1I ACTGG 4 cut(s) 51, 353, 539, 596
BseDI CCNNGG 4 cut(s) 27, 51, 60, 322
BseGI GGATG 3 cut(s) 100, 208, 515
BseLI CCNNNNNNNGG 1 cut(s) 463
BseMII CTCAG 2 cut(s) 24, 860
BseNI ACTGG 4 cut(s) 51, 353, 539, 596
BseRI GAGGAG 4 cut(s) 172, 181, 184, 221
BseXI GCAGC 4 cut(s) 43, 67, 95, 654
BshFI GGCC 2 cut(s) 50, 71
BsiHKCI CYCGRG 1 cut(s) 51
BsiSI CCGG 1 cut(s) 52
BslFI GGGAC 1 cut(s) 414
BslI CCNNNNNNNGG 1 cut(s) 463
BsmAI GTCTC 3 cut(s) 69, 302, 415
BsmBI CGTCTC 1 cut(s) 69
BsmFI GGGAC 1 cut(s) 414
BsmI GAATGC 1 cut(s) 296
BsnI GGCC 2 cut(s) 50, 71
BsoBI CYCGRG 1 cut(s) 51
Bsp1286I GDGCHC 1 cut(s) 565
Bsp1407I TGTACA 1 cut(s) 525
Bsp143I GATC 3 cut(s) 381, 540, 760
Bsp1720I GCTNAGC 1 cut(s) 869
BspACI CCGC 5 cut(s) 68, 86, 609, 664, 746
BspANI GGCC 2 cut(s) 50, 71
BspCNI CTCAG 2 cut(s) 25, 861
BspHI TCATGA 1 cut(s) 676
BspLI GGNNCC 1 cut(s) 468
BspMAI CTGCAG 2 cut(s) 85, 798
BspPI GGATC 3 cut(s) 389, 548, 768
BsrGI TGTACA 1 cut(s) 525
BsrI ACTGG 4 cut(s) 51, 353, 539, 596
BssECI CCNNGG 4 cut(s) 27, 51, 60, 322
BssMI GATC 3 cut(s) 381, 540, 760
BssT1I CCWWGG 1 cut(s) 322
Bst4CI ACNGT 1 cut(s) 718
Bst6I CTCTTC 1 cut(s) 158
BstAUI TGTACA 1 cut(s) 525
BstC8I GCNNGC 3 cut(s) 42, 549, 708
BstDEI CTNAG 3 cut(s) 33, 443, 869
BstDSI CCRYGG 2 cut(s) 27, 60
BstENI CCTNNNNNAGG 1 cut(s) 461
BstF5I GGATG 3 cut(s) 100, 208, 515
BstH2I RGCGCY 1 cut(s) 41
BstHHI GCGC 1 cut(s) 40
BstKTI GATC 3 cut(s) 384, 543, 763
BstMAI GTCTC 3 cut(s) 69, 302, 415
BstMBI GATC 3 cut(s) 381, 540, 760
BstMWI GCNNNNNNNGC 5 cut(s) 56, 65, 77, 738, 838
BstNSI RCATGY 1 cut(s) 790
BstSCI CCNGG 2 cut(s) 50, 51
BstSFI CTRYAG 3 cut(s) 81, 394, 794
BstV1I GCAGC 4 cut(s) 43, 67, 95, 654
BsuRI GGCC 2 cut(s) 50, 71
BtgI CCRYGG 2 cut(s) 27, 60
BtsCI GGATG 3 cut(s) 100, 208, 515
BtsI GCAGTG 1 cut(s) 791
BtsIMutI CAGTG 2 cut(s) 44, 791
Cac8I GCNNGC 3 cut(s) 42, 549, 708
CciI TCATGA 1 cut(s) 676
CfoI GCGC 1 cut(s) 40
Cfr13I GGNCC 1 cut(s) 49
Cfr9I CCCGGG 1 cut(s) 51
CseI GACGC 1 cut(s) 86
Csp6I GTAC 4 cut(s) 311, 346, 526, 948
CviAII CATG 2 cut(s) 677, 787
CviQI GTAC 4 cut(s) 311, 346, 526, 948
DdeI CTNAG 3 cut(s) 33, 443, 869
DpnI GATC 3 cut(s) 383, 542, 762
DpnII GATC 3 cut(s) 381, 540, 760
DriI GACNNNNNGTC 2 cut(s) 407, 574
EaeI YGGCCR 1 cut(s) 69
Eam1104I CTCTTC 1 cut(s) 158
Eam1105I GACNNNNNGTC 2 cut(s) 407, 574
EarI CTCTTC 1 cut(s) 158
Eco130I CCWWGG 1 cut(s) 322
Eco24I GRGCYC 1 cut(s) 565
Eco57I CTGAAG 2 cut(s) 711, 881
Eco88I CYCGRG 1 cut(s) 51
EcoNI CCTNNNNNAGG 1 cut(s) 461
EcoT14I CCWWGG 1 cut(s) 322
EcoT38I GRGCYC 1 cut(s) 565
ErhI CCWWGG 1 cut(s) 322
Esp3I CGTCTC 1 cut(s) 69
FaeI CATG 2 cut(s) 680, 790
FaqI GGGAC 1 cut(s) 414
FatI CATG 2 cut(s) 676, 786
FauNDI CATATG 1 cut(s) 605
Fnu4HI GCNGC 6 cut(s) 57, 69, 81, 84, 665, 668
FokI GGATG 3 cut(s) 107, 215, 522
FriOI GRGCYC 1 cut(s) 565
Fsp4HI GCNGC 6 cut(s) 57, 69, 81, 84, 665, 668
FspBI CTAG 3 cut(s) 566, 579, 945
GlaI GCGC 1 cut(s) 39
GluI GCNGC 6 cut(s) 57, 69, 81, 84, 665, 668
HaeII RGCGCY 1 cut(s) 41
HaeIII GGCC 2 cut(s) 50, 71
HapII CCGG 1 cut(s) 52
HgaI GACGC 1 cut(s) 86
HhaI GCGC 1 cut(s) 40
Hin1II CATG 2 cut(s) 680, 790
Hin6I GCGC 1 cut(s) 38
HinP1I GCGC 1 cut(s) 38
HindIII AAGCTT 2 cut(s) 445, 854
HinfI GANTC 6 cut(s) 4, 16, 21, 368, 402, 657
HpaII CCGG 1 cut(s) 52
HphI GGTGA 2 cut(s) 100, 166
Hpy166II GTNNAC 1 cut(s) 601
Hpy188I TCNGA 5 cut(s) 270, 560, 590, 861, 909
Hpy188III TCNNGA 5 cut(s) 388, 452, 579, 677, 850
Hpy8I GTNNAC 1 cut(s) 601
HpyAV CCTTC 1 cut(s) 655
HpyCH4III ACNGT 1 cut(s) 718
HpyCH4V TGCA 3 cut(s) 83, 786, 796
HpyF10VI GCNNNNNNNGC 5 cut(s) 56, 65, 77, 738, 838
HpyF3I CTNAG 3 cut(s) 33, 443, 869
Hsp92II CATG 2 cut(s) 680, 790
HspAI GCGC 1 cut(s) 38
Kzo9I GATC 3 cut(s) 381, 540, 760
LmnI GCTCC 2 cut(s) 390, 738
Lsp1109I GCAGC 4 cut(s) 43, 67, 95, 654
LweI GCATC 2 cut(s) 274, 807
MaeI CTAG 3 cut(s) 566, 579, 945
MaeIII GTNAC 3 cut(s) 369, 769, 789
MalI GATC 3 cut(s) 383, 542, 762
MboI GATC 3 cut(s) 381, 540, 760
MboII GAAGA 3 cut(s) 175, 293, 874
MhlI GDGCHC 1 cut(s) 565
MluCI AATT 8 cut(s) 315, 340, 515, 624, 640, 684, 918, 965
MlyI GAGTC 4 cut(s) 10, 15, 377, 396
MmeI TCCRAC 3 cut(s) 171, 205, 515
MseI TTAA 3 cut(s) 903, 912, 935
MspA1I CMGCKG 2 cut(s) 86, 748
MspI CCGG 1 cut(s) 52
MspR9I CCNGG 2 cut(s) 52, 53
Mva1269I GAATGC 1 cut(s) 296
MwoI GCNNNNNNNGC 5 cut(s) 56, 65, 77, 738, 838
NciI CCSGG 2 cut(s) 52, 53
NdeI CATATG 1 cut(s) 605
NdeII GATC 3 cut(s) 381, 540, 760
NlaIII CATG 2 cut(s) 680, 790
NlaIV GGNNCC 1 cut(s) 468
NmuCI GTSAC 2 cut(s) 369, 789
NspI RCATGY 1 cut(s) 790
PagI TCATGA 1 cut(s) 676
PctI GAATGC 1 cut(s) 296
PfeI GAWTC 1 cut(s) 657
PkrI GCNGC 6 cut(s) 58, 70, 82, 85, 666, 669
PleI GAGTC 4 cut(s) 10, 15, 376, 396
PpsI GAGTC 4 cut(s) 10, 15, 376, 396
PshBI ATTAAT 2 cut(s) 903, 912
PspN4I GGNNCC 1 cut(s) 468
PspPI GGNCC 1 cut(s) 49
PstI CTGCAG 2 cut(s) 85, 798
RsaI GTAC 4 cut(s) 312, 347, 527, 949
RsaNI GTAC 4 cut(s) 311, 346, 526, 948
SaqAI TTAA 3 cut(s) 903, 912, 935
SatI GCNGC 6 cut(s) 57, 69, 81, 84, 665, 668
Sau3AI GATC 3 cut(s) 381, 540, 760
Sau96I GGNCC 1 cut(s) 49
ScaI AGTACT 1 cut(s) 949
SchI GAGTC 4 cut(s) 10, 15, 377, 396
ScrFI CCNGG 2 cut(s) 52, 53
SduI GDGCHC 1 cut(s) 565
SfaNI GCATC 2 cut(s) 274, 807
SfcI CTRYAG 3 cut(s) 81, 394, 794
SmaI CCCGGG 1 cut(s) 53
SmlI CTYRAG 1 cut(s) 305
SmoI CTYRAG 1 cut(s) 305
SpeI ACTAGT 1 cut(s) 944
SrfI GCCCGGGC 1 cut(s) 53
Sse9I AATT 8 cut(s) 315, 340, 515, 624, 640, 684, 918, 965
SsiI CCGC 5 cut(s) 68, 86, 609, 664, 746
SspMI CTAG 3 cut(s) 566, 579, 945
StyD4I CCNGG 2 cut(s) 50, 51
StyI CCWWGG 1 cut(s) 322
TaaI ACNGT 1 cut(s) 718
TaqI TCGA 7 cut(s) 14, 19, 531, 763, 778, 849, 895
TasI AATT 8 cut(s) 315, 340, 515, 624, 640, 684, 918, 965
TatI WGTACW 3 cut(s) 345, 525, 947
TauI GCSGC 2 cut(s) 71, 667
TfiI GAWTC 1 cut(s) 657
Tru1I TTAA 3 cut(s) 903, 912, 935
Tru9I TTAA 3 cut(s) 903, 912, 935
TscAI CASTG 2 cut(s) 51, 798
TseFI GTSAC 2 cut(s) 369, 789
TseI GCWGC 4 cut(s) 56, 80, 83, 667
Tsp45I GTSAC 2 cut(s) 369, 789
TspDTI ATGAA 3 cut(s) 696, 744, 851
TspGWI ACGGA 1 cut(s) 490
TspMI CCCGGG 1 cut(s) 51
TspRI CASTG 2 cut(s) 51, 798
VspI ATTAAT 2 cut(s) 903, 912
XagI CCTNNNNNAGG 1 cut(s) 461
XapI RAATTY 2 cut(s) 340, 640
XbaI TCTAGA 1 cut(s) 578
XceI RCATGY 1 cut(s) 790
XmaI CCCGGG 1 cut(s) 51
XspI CTAG 3 cut(s) 566, 579, 945
ZrmI AGTACT 1 cut(s) 949
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.