FvH4_3g07100

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0006661
Physical Location & Seq
Forward (+)
4227364 .. 4228401
1038 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g07100.t1

Sequence Viewer

Length: 1038 bp
ATGAAGAACTGTCACGGCAAAAGGCGGCACCACCGCCGCAACTCCTCTGTCAAAAAGGCAGCCGCCGCCTCCAAGTTCATGCTTTCCGGCATTGGCACCGACAAAGGCAGCTTAGAGATCCTAACCCAAACCCAAGCTCCAGACCATGCCTGGCCCGAACCCGGACCTCCAACTACAAGCCCCTCACTCCCGCCGTTAACTTCACCGGAGAAGAGTACCGTGTTTCTCGATCTAGACGAAACACTGGTGCACACTTCGGCCACTTTGCCCAATCGCTTCGACTTCATCGTCCGGCCCATTATTCGTGGCACCGAGATGACCTTCTACGTGATCAAACGTCCCGGAGTTGACCAGTTTCTGCAAAAGCTGGCGGAAAAGTACGAGGTTGTGGCGTTCACGGCGGGGATGAGAGAGTACGCTTCGCTGGTGCTGGACCGATTGGACAGCCAGGGCTTCATATCCCACCGCCTCTACCGTGACTCATGCAAAGAGGTGTACGGGAAGTTCGTGAAGGACCTGTCCGGTTTGGGACGTGACTTGCGTCGAGTGGTGATCGTGGACGATAACCCTAACTCGTATTTCCTCCAACCGGATAATGGGATTCCGGTCCGGCCGTTCGTTTATGACGACATGGAGGACTGGGAGCTGGGGAGGTTGTTAAAGTTTTTTGAGGGCGAGGGGTCTGAGGACATTAGGGATGCTGTGAGAGAGTATGTTAATGACGAAGGATGGATTACCGTTGATGATGACGATGACGACGATGACGATGATAGCGGTGGTAGTGATGATGATGATGAGGAGGAGGAAGAGGAGAAGGAGTTGGAGAAGGGGAATGGATCCAGAAAGTTTACTAATGTTCCGGTATTAACAACGGTTAATTCATCAACACCATGCTGCTTGATTAGTCTGCATGAATATTATCCAACGGAAAAACCAGCAGCTATGGAGTATTGGATCAAGATAGTGATCTTGAGTATTGTGATTTTGATCATTATGAATGTAATCTTATGCTTAGAACTTGCATTCTGGAAACCATAG

Protein Analysis

346

Amino Acids

39.15

Weight (kDa)

4.74

Isoelectric Point (pI)

41.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 73 - 225 4.5e-52 NLI interacting factor-like phosphatase
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)
AasI GACNNNNNNGTC 1 cut(s) 287
AccB1I GGYRCC 3 cut(s) 27, 95, 308
AclWI GGATC 4 cut(s) 112, 831, 844, 962
AcoI YGGCCR 2 cut(s) 258, 611
AfaI GTAC 4 cut(s) 217, 380, 416, 497
AfiI CCNNNNNNNGG 3 cut(s) 161, 589, 596
AjiI CACGTC 1 cut(s) 533
AjnI CCWGG 2 cut(s) 149, 447
AluBI AGCT 5 cut(s) 111, 137, 367, 646, 941
AluI AGCT 5 cut(s) 111, 137, 367, 646, 941
Alw21I GWGCWC 1 cut(s) 252
Alw44I GTGCAC 1 cut(s) 248
AlwI GGATC 4 cut(s) 112, 831, 844, 962
AlwNI CAGNNNCTG 1 cut(s) 358
AoxI GGCC 4 cut(s) 152, 258, 293, 611
ApaLI GTGCAC 1 cut(s) 248
ApeKI GCWGC 4 cut(s) 59, 108, 894, 938
AspS9I GGNCC 6 cut(s) 153, 164, 294, 433, 514, 607
AsuC2I CCSGG 2 cut(s) 162, 342
AsuHPI GGTGA 2 cut(s) 195, 562
AvaII GGWCC 4 cut(s) 164, 433, 514, 607
BaeGI GKGCMC 1 cut(s) 252
BamHI GGATCC 1 cut(s) 836
BanI GGYRCC 3 cut(s) 27, 95, 308
Bbv12I GWGCWC 1 cut(s) 252
BbvI GCAGC 4 cut(s) 71, 120, 881, 950
BccI CCATC 1 cut(s) 723
BceAI ACGGC 4 cut(s) 31, 178, 414, 598
BciT130I CCWGG 2 cut(s) 151, 449
BclI TGATCA 2 cut(s) 330, 987
BcnI CCSGG 2 cut(s) 162, 342
BfaI CTAG 1 cut(s) 233
BisI GCNGC 8 cut(s) 26, 37, 60, 63, 66, 109, 895, 939
BlsI GCNGC 8 cut(s) 27, 38, 61, 64, 67, 110, 896, 940
Bme1390I CCNGG 4 cut(s) 151, 162, 342, 449
Bme18I GGWCC 4 cut(s) 164, 433, 514, 607
BmgBI CACGTC 1 cut(s) 533
BmgT120I GGNCC 6 cut(s) 153, 164, 294, 433, 514, 607
BmiI GGNNCC 4 cut(s) 29, 97, 310, 838
BmrFI CCNGG 4 cut(s) 151, 162, 342, 449
BmrI ACTGGG 1 cut(s) 649
BmsI GCATC 1 cut(s) 688
BmuI ACTGGG 1 cut(s) 649
BoxI GACNNNNGTC 1 cut(s) 540
BpmI CTGGAG 1 cut(s) 123
BpuEI CTTGAG 1 cut(s) 991
BpuMI CCSGG 2 cut(s) 162, 342
BsaAI YACGTR 1 cut(s) 328
BsaBI GATNNNNATC 2 cut(s) 965, 986
BsaJI CCNNGG 1 cut(s) 448
BsaWI WCCGGW 5 cut(s) 205, 521, 589, 604, 859
BsaXI ACNNNNNCTCC 4 cut(s) 121, 151, 803, 833
Bsc4I CCNNNNNNNGG 3 cut(s) 161, 589, 596
Bse1I ACTGG 3 cut(s) 249, 352, 644
Bse8I GATNNNNATC 2 cut(s) 965, 986
BseBI CCWGG 2 cut(s) 151, 449
BseDI CCNNGG 1 cut(s) 448
BseGI GGATG 3 cut(s) 411, 703, 734
BseJI GATNNNNATC 2 cut(s) 965, 986
BseLI CCNNNNNNNGG 3 cut(s) 161, 589, 596
BseMII CTCAG 1 cut(s) 675
BseNI ACTGG 3 cut(s) 249, 352, 644
BseRI GAGGAG 4 cut(s) 34, 812, 815, 824
BseSI GKGCMC 1 cut(s) 252
BseX3I CGGCCG 1 cut(s) 611
BseXI GCAGC 4 cut(s) 71, 120, 881, 950
BseYI CCCAGC 1 cut(s) 646
Bsh1285I CGRYCG 1 cut(s) 614
BshFI GGCC 4 cut(s) 154, 260, 295, 613
BshNI GGYRCC 3 cut(s) 27, 95, 308
BsiEI CGRYCG 1 cut(s) 614
BsiHKAI GWGCWC 1 cut(s) 252
BslFI GGGAC 2 cut(s) 324, 543
BslI CCNNNNNNNGG 3 cut(s) 161, 589, 596
BsmFI GGGAC 2 cut(s) 324, 543
BsmI GAATGC 1 cut(s) 1022
BsnI GGCC 4 cut(s) 154, 260, 295, 613
Bsp1286I GDGCHC 1 cut(s) 252
Bsp143I GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
BspANI GGCC 4 cut(s) 154, 260, 295, 613
BspCNI CTCAG 1 cut(s) 676
BspLI GGNNCC 4 cut(s) 29, 97, 310, 838
BspPI GGATC 4 cut(s) 112, 831, 844, 962
BspT107I GGYRCC 3 cut(s) 27, 95, 308
BsrI ACTGG 3 cut(s) 249, 352, 644
BssECI CCNNGG 1 cut(s) 448
BssMI GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
Bst2UI CCWGG 2 cut(s) 151, 449
Bst4CI ACNGT 5 cut(s) 11, 220, 476, 739, 874
Bst6I CTCTTC 2 cut(s) 206, 801
BstBAI YACGTR 1 cut(s) 328
BstC8I GCNNGC 1 cut(s) 369
BstDEI CTNAG 3 cut(s) 112, 684, 1012
BstF5I GGATG 3 cut(s) 411, 703, 734
BstKTI GATC 8 cut(s) 120, 232, 333, 555, 839, 957, 969, 990
BstMBI GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
BstMCI CGRYCG 1 cut(s) 614
BstMWI GCNNNNNNNGC 2 cut(s) 65, 398
BstNI CCWGG 2 cut(s) 151, 449
BstPAI GACNNNNGTC 1 cut(s) 540
BstSCI CCNGG 4 cut(s) 149, 160, 340, 447
BstSLI GKGCMC 1 cut(s) 252
BstV1I GCAGC 4 cut(s) 71, 120, 881, 950
BstX2I RGATCY 2 cut(s) 117, 836
BstYI RGATCY 2 cut(s) 117, 836
BstZI CGGCCG 1 cut(s) 611
BsuRI GGCC 4 cut(s) 154, 260, 295, 613
BtrI CACGTC 1 cut(s) 533
BtsCI GGATG 3 cut(s) 411, 703, 734
BtsIMutI CAGTG 1 cut(s) 242
Cac8I GCNNGC 1 cut(s) 369
CaiI CAGNNNCTG 1 cut(s) 358
Cfr13I GGNCC 6 cut(s) 153, 164, 294, 433, 514, 607
CpoI CGGWCCG 1 cut(s) 607
CseI GACGC 1 cut(s) 530
Csp6I GTAC 4 cut(s) 216, 379, 415, 496
CspI CGGWCCG 1 cut(s) 607
CviAII CATG 6 cut(s) 79, 146, 483, 631, 891, 911
CviQI GTAC 4 cut(s) 216, 379, 415, 496
DdeI CTNAG 3 cut(s) 112, 684, 1012
DpnI GATC 8 cut(s) 119, 231, 332, 554, 838, 956, 968, 989
DpnII GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
DrdI GACNNNNNNGTC 1 cut(s) 287
DseDI GACNNNNNNGTC 1 cut(s) 287
EaeI YGGCCR 2 cut(s) 258, 611
EagI CGGCCG 1 cut(s) 611
Eam1104I CTCTTC 2 cut(s) 206, 801
EarI CTCTTC 2 cut(s) 206, 801
EciI GGCGGA 1 cut(s) 386
EclXI CGGCCG 1 cut(s) 611
Eco47I GGWCC 4 cut(s) 164, 433, 514, 607
Eco52I CGGCCG 1 cut(s) 611
EcoO109I RGGNCCY 1 cut(s) 514
EcoRII CCWGG 2 cut(s) 149, 447
FaeI CATG 6 cut(s) 82, 149, 486, 634, 894, 914
FaqI GGGAC 2 cut(s) 324, 543
FatI CATG 6 cut(s) 78, 145, 482, 630, 890, 910
FauI CCCGC 2 cut(s) 198, 394
FbaI TGATCA 2 cut(s) 330, 987
Fnu4HI GCNGC 8 cut(s) 26, 37, 60, 63, 66, 109, 895, 939
FokI GGATG 3 cut(s) 418, 710, 741
Fsp4HI GCNGC 8 cut(s) 26, 37, 60, 63, 66, 109, 895, 939
FspBI CTAG 1 cut(s) 233
GluI GCNGC 8 cut(s) 26, 37, 60, 63, 66, 109, 895, 939
GsaI CCCAGC 1 cut(s) 650
GsuI CTGGAG 1 cut(s) 123
HaeIII GGCC 4 cut(s) 154, 260, 295, 613
HgaI GACGC 1 cut(s) 530
Hin1II CATG 6 cut(s) 82, 149, 486, 634, 894, 914
HincII GTYRAC 2 cut(s) 198, 349
HindII GTYRAC 2 cut(s) 198, 349
HinfI GANTC 2 cut(s) 479, 601
HpaI GTTAAC 1 cut(s) 198
HphI GGTGA 2 cut(s) 195, 562
Hpy166II GTNNAC 7 cut(s) 198, 250, 349, 396, 496, 559, 849
Hpy188I TCNGA 1 cut(s) 685
Hpy188III TCNNGA 8 cut(s) 140, 227, 233, 508, 840, 958, 970, 1027
Hpy8I GTNNAC 7 cut(s) 198, 250, 349, 396, 496, 559, 849
Hpy99I CGWCG 2 cut(s) 546, 761
HpyAV CCTTC 5 cut(s) 331, 505, 719, 808, 820
HpyCH4III ACNGT 5 cut(s) 11, 220, 476, 739, 874
HpyCH4IV ACGT 3 cut(s) 327, 337, 532
HpyCH4V TGCA 5 cut(s) 250, 361, 486, 910, 1022
HpyF10VI GCNNNNNNNGC 2 cut(s) 65, 398
HpyF3I CTNAG 3 cut(s) 112, 684, 1012
HpySE526I ACGT 3 cut(s) 327, 337, 532
Hsp92II CATG 6 cut(s) 82, 149, 486, 634, 894, 914
Ksp22I TGATCA 2 cut(s) 330, 987
KspAI GTTAAC 1 cut(s) 198
Kzo9I GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
LmnI GCTCC 2 cut(s) 142, 643
Lsp1109I GCAGC 4 cut(s) 71, 120, 881, 950
LweI GCATC 1 cut(s) 688
MaeI CTAG 1 cut(s) 233
MaeII ACGT 3 cut(s) 327, 337, 532
MaeIII GTNAC 3 cut(s) 11, 476, 533
MalI GATC 8 cut(s) 119, 231, 332, 554, 838, 956, 968, 989
MboI GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
MboII GAAGA 3 cut(s) 16, 223, 818
MflI RGATCY 2 cut(s) 117, 836
MhlI GDGCHC 1 cut(s) 252
MluCI AATT 1 cut(s) 877
MlyI GAGTC 1 cut(s) 473
MmeI TCCRAC 4 cut(s) 194, 610, 801, 947
MseI TTAA 5 cut(s) 197, 659, 717, 866, 876
MslI CAYNNNNRTG 1 cut(s) 314
MspR9I CCNGG 4 cut(s) 151, 162, 342, 449
Mva1269I GAATGC 1 cut(s) 1022
MvaI CCWGG 2 cut(s) 151, 449
MwoI GCNNNNNNNGC 2 cut(s) 65, 398
NciI CCSGG 2 cut(s) 162, 342
NdeII GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
NlaIII CATG 6 cut(s) 82, 149, 486, 634, 894, 914
NlaIV GGNNCC 4 cut(s) 29, 97, 310, 838
NmuCI GTSAC 3 cut(s) 11, 476, 533
PcsI WCGNNNNNNNCGW 7 cut(s) 234, 285, 504, 538, 624, 756, 762
PctI GAATGC 1 cut(s) 1022
PfeI GAWTC 1 cut(s) 601
PfoI TCCNGGA 1 cut(s) 340
PkrI GCNGC 8 cut(s) 27, 38, 61, 64, 67, 110, 896, 940
PleI GAGTC 1 cut(s) 473
PpsI GAGTC 1 cut(s) 473
Ppu21I YACGTR 1 cut(s) 328
PpuMI RGGWCCY 1 cut(s) 514
PshAI GACNNNNGTC 1 cut(s) 540
Psp5II RGGWCCY 1 cut(s) 514
Psp6I CCWGG 2 cut(s) 149, 447
PspFI CCCAGC 1 cut(s) 646
PspGI CCWGG 2 cut(s) 149, 447
PspN4I GGNNCC 4 cut(s) 29, 97, 310, 838
PspPI GGNCC 6 cut(s) 153, 164, 294, 433, 514, 607
PspPPI RGGWCCY 1 cut(s) 514
PsrI GAACNNNNNNTAC 2 cut(s) 488, 520
PstNI CAGNNNCTG 1 cut(s) 358
PsuI RGATCY 2 cut(s) 117, 836
RsaI GTAC 4 cut(s) 217, 380, 416, 497
RsaNI GTAC 4 cut(s) 216, 379, 415, 496
RseI CAYNNNNRTG 1 cut(s) 314
Rsr2I CGGWCCG 1 cut(s) 607
RsrII CGGWCCG 1 cut(s) 607
SaqAI TTAA 5 cut(s) 197, 659, 717, 866, 876
SatI GCNGC 8 cut(s) 26, 37, 60, 63, 66, 109, 895, 939
Sau3AI GATC 8 cut(s) 117, 229, 330, 552, 836, 954, 966, 987
Sau96I GGNCC 6 cut(s) 153, 164, 294, 433, 514, 607
SchI GAGTC 1 cut(s) 473
ScrFI CCNGG 4 cut(s) 151, 162, 342, 449
SduI GDGCHC 1 cut(s) 252
SfaNI GCATC 1 cut(s) 688
SinI GGWCC 4 cut(s) 164, 433, 514, 607
SmiMI CAYNNNNRTG 1 cut(s) 314
SmlI CTYRAG 1 cut(s) 970
SmoI CTYRAG 1 cut(s) 970
Sse9I AATT 1 cut(s) 877
SspI AATATT 1 cut(s) 917
SspMI CTAG 1 cut(s) 233
StyD4I CCNGG 4 cut(s) 149, 160, 340, 447
TaaI ACNGT 5 cut(s) 11, 220, 476, 739, 874
TaiI ACGT 3 cut(s) 330, 340, 535
TaqI TCGA 3 cut(s) 228, 279, 544
TaqII GACCGA 1 cut(s) 450
TasI AATT 1 cut(s) 877
TauI GCSGC 4 cut(s) 28, 39, 65, 68
TfiI GAWTC 1 cut(s) 601
Tru1I TTAA 5 cut(s) 197, 659, 717, 866, 876
Tru9I TTAA 5 cut(s) 197, 659, 717, 866, 876
TscAI CASTG 1 cut(s) 249
TseFI GTSAC 3 cut(s) 11, 476, 533
TseI GCWGC 4 cut(s) 59, 108, 894, 938
Tsp45I GTSAC 3 cut(s) 11, 476, 533
TspDTI ATGAA 7 cut(s) 17, 67, 274, 445, 870, 927, 1010
TspGWI ACGGA 1 cut(s) 941
TspRI CASTG 1 cut(s) 249
VneI GTGCAC 1 cut(s) 248
VpaK11BI GGWCC 4 cut(s) 164, 433, 514, 607
XbaI TCTAGA 1 cut(s) 232
XcmI CCANNNNNNNNNTGG 2 cut(s) 147, 593
XspI CTAG 1 cut(s) 233
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.