FvH4_3g07110

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 (+)
4229353 .. 4230464
1112 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g07110.t1

Sequence Viewer

Length: 882 bp
ATGGTGTCCAAATTCATGAAGAAAAGCCCAAGCAAGTCGATCGCCACCAAGCGCCGTCACCACCGCCGCTCCTCCGCGAAGAAAGCCGCGACCGCCGCCTCCACCGCCGTCCTGTCCTCGCTGATCACGTGCCAGCGCCGCCTCATCAAGCTCTTCAACAAGCTCGCGCGTGTCGGCACGCCCAACCGCCACAAAGGCTTCAAGATCCTCAAGAAGACCGCCGCCCACGACCCGACCCGACCCGAACCCACCGCCCCGGTTCGCCGCGAGCTCTTCCTCGCCGGCGGCCCGCTCCCGCCGCAGGAGTCGCCGGAGAAGAAGACGATCGTGCTCGATCTCGACGAGACCATGATCCACTCGCAGGCCGGAGCGCCGCCGGAGAATTACGACTTCGTCGTCCGGCCGAGGATCGATGGCATGGTGCTGGACTTCTACGTCCTGAAGCGGCCCGGAGTCGACGAGATGCTGGAGAAGCTCGGGGAGAAGTATGAGGTGGTGGTGTTCACGGCGGGGCTGAGAGAGTACGCTTCGTTGGTGCTGGACCGGTTGGACCGGAAGCGCGTGATCTCCCACCGCCTGTTCCGCGACTCGTGCAAGGAGGTGGATGGGAAGTTTGTGAAGGACTTGTCCGGTTTGGGGAGGGACTTGAGGCGCGTGGTGATTGTGGATGACAATCCGAACTCGTATTCGCTTCAGCCGGAGAATGGGGTGCCGGTCCGGCCGTTTTTGGATGACATGGCGGACCGGGAGCTGGGGAAGTTAGTGGAGTTTTTTGAAGGGGAGCAATGTGAGGATATGAGGGATGCTGTGAAGGACTATGTTGCTGCTGCTGGGGATTGTGGAACCGAAAATGGCAATGAATTCGAAACTTTGCAGACTTGA

Protein Analysis

294

Amino Acids

32.95

Weight (kDa)

9.14

Isoelectric Point (pI)

47.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 107 - 260 3.6e-53 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 2 cut(s) 395, 434
AccB1I GGYRCC 1 cut(s) 709
AccBSI CCGCTC 2 cut(s) 69, 292
AccI GTMKAC 1 cut(s) 456
AccII CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
AclWI GGATC 3 cut(s) 199, 346, 416
AcoI YGGCCR 2 cut(s) 401, 719
AcsI RAATTY 2 cut(s) 11, 860
AcuI CTGAAG 2 cut(s) 461, 677
AcvI CACGTG 1 cut(s) 129
AfaI GTAC 1 cut(s) 524
AfiI CCNNNNNNNGG 5 cut(s) 301, 361, 636, 704, 751
AgeI ACCGGT 1 cut(s) 543
AgsI TTSAA 3 cut(s) 157, 202, 776
AluBI AGCT 5 cut(s) 151, 163, 271, 475, 751
AluI AGCT 5 cut(s) 151, 163, 271, 475, 751
Alw21I GWGCWC 2 cut(s) 273, 333
Alw26I GTCTC 1 cut(s) 338
AlwI GGATC 3 cut(s) 199, 346, 416
Ama87I CYCGRG 1 cut(s) 476
AoxI GGCC 5 cut(s) 286, 363, 401, 446, 719
ApeKI GCWGC 2 cut(s) 824, 827
ApoI RAATTY 2 cut(s) 11, 860
AsiGI ACCGGT 1 cut(s) 543
AspLEI GCGC 6 cut(s) 54, 138, 169, 373, 561, 654
AspS9I GGNCC 6 cut(s) 287, 447, 541, 550, 715, 742
AsuC2I CCSGG 3 cut(s) 257, 450, 746
AsuHPI GGTGA 2 cut(s) 50, 670
AsuII TTCGAA 1 cut(s) 864
AvaI CYCGRG 1 cut(s) 476
AvaII GGWCC 4 cut(s) 541, 550, 715, 742
BanI GGYRCC 1 cut(s) 709
BanII GRGCYC 1 cut(s) 273
BauI CACGAG 1 cut(s) 589
BbrPI CACGTG 1 cut(s) 129
BbsI GAAGAC 2 cut(s) 221, 326
Bbv12I GWGCWC 2 cut(s) 273, 333
BbvI GCAGC 2 cut(s) 811, 814
BccI CCATC 2 cut(s) 407, 599
BceAI ACGGC 4 cut(s) 39, 92, 522, 706
BcgI CGANNNNNNTGC 4 cut(s) 22, 56, 844, 878
BclI TGATCA 1 cut(s) 123
BcnI CCSGG 3 cut(s) 257, 450, 746
BcoDI GTCTC 1 cut(s) 338
BfoI RGCGCY 3 cut(s) 55, 139, 374
BglI GCCNNNNNGGC 2 cut(s) 195, 718
Bme1390I CCNGG 3 cut(s) 257, 450, 746
Bme18I GGWCC 4 cut(s) 541, 550, 715, 742
BmeT110I CYCGRG 1 cut(s) 476
BmgT120I GGNCC 6 cut(s) 287, 447, 541, 550, 715, 742
BmiI GGNNCC 2 cut(s) 711, 844
BmrFI CCNGG 3 cut(s) 257, 450, 746
BmsI GCATC 2 cut(s) 453, 793
BpiI GAAGAC 2 cut(s) 221, 326
BpmI CTGGAG 1 cut(s) 488
Bpu14I TTCGAA 1 cut(s) 864
BpuEI CTTGAG 2 cut(s) 194, 667
BpuMI CCSGG 3 cut(s) 257, 450, 746
Bsa29I ATCGAT 1 cut(s) 411
BsaAI YACGTR 1 cut(s) 129
BsaBI GATNNNNATC 1 cut(s) 672
BsaI GGTCTC 1 cut(s) 338
BsaJI CCNNGG 2 cut(s) 255, 404
BsaWI WCCGGW 3 cut(s) 543, 552, 629
BsaXI ACNNNNNCTCC 2 cut(s) 53, 83
Bsc4I CCNNNNNNNGG 5 cut(s) 301, 361, 636, 704, 751
Bse118I RCCGGY 3 cut(s) 281, 543, 712
Bse3DI GCAATG 2 cut(s) 791, 862
Bse8I GATNNNNATC 1 cut(s) 672
BseCI ATCGAT 1 cut(s) 411
BseDI CCNNGG 2 cut(s) 255, 404
BseGI GGATG 4 cut(s) 610, 673, 736, 808
BseJI GATNNNNATC 1 cut(s) 672
BseLI CCNNNNNNNGG 5 cut(s) 301, 361, 636, 704, 751
BseMI GCAATG 2 cut(s) 791, 862
BseMII CTCAG 1 cut(s) 506
BseRI GAGGAG 1 cut(s) 61
BseX3I CGGCCG 2 cut(s) 401, 719
BseXI GCAGC 2 cut(s) 811, 814
BseYI CCCAGC 2 cut(s) 751, 830
Bsh1236I CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
Bsh1285I CGRYCG 5 cut(s) 42, 93, 327, 404, 722
BshFI GGCC 5 cut(s) 288, 365, 403, 448, 721
BshNI GGYRCC 1 cut(s) 709
BshTI ACCGGT 1 cut(s) 543
BshVI ATCGAT 1 cut(s) 411
BsiEI CGRYCG 5 cut(s) 42, 93, 327, 404, 722
BsiHKAI GWGCWC 2 cut(s) 273, 333
BsiHKCI CYCGRG 1 cut(s) 476
BslFI GGGAC 1 cut(s) 656
BslI CCNNNNNNNGG 5 cut(s) 301, 361, 636, 704, 751
BsmAI GTCTC 1 cut(s) 338
BsmFI GGGAC 1 cut(s) 656
BsnI GGCC 5 cut(s) 288, 365, 403, 448, 721
Bso31I GGTCTC 1 cut(s) 338
BsoBI CYCGRG 1 cut(s) 476
Bsp119I TTCGAA 1 cut(s) 864
Bsp1286I GDGCHC 2 cut(s) 273, 333
Bsp143I GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
BspANI GGCC 5 cut(s) 288, 365, 403, 448, 721
BspCNI CTCAG 1 cut(s) 507
BspDI ATCGAT 1 cut(s) 411
BspFNI CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
BspHI TCATGA 1 cut(s) 15
BspLI GGNNCC 2 cut(s) 711, 844
BspPI GGATC 3 cut(s) 199, 346, 416
BspQI GCTCTTC 2 cut(s) 158, 278
BspT104I TTCGAA 1 cut(s) 864
BspT107I GGYRCC 1 cut(s) 709
BspTNI GGTCTC 1 cut(s) 338
BsrBI CCGCTC 2 cut(s) 69, 292
BsrDI GCAATG 2 cut(s) 791, 862
BsrFI RCCGGY 3 cut(s) 281, 543, 712
BssAI RCCGGY 3 cut(s) 281, 543, 712
BssECI CCNNGG 2 cut(s) 255, 404
BssMI GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
BssSI CACGAG 1 cut(s) 589
Bst2BI CACGAG 1 cut(s) 589
Bst6I CTCTTC 2 cut(s) 158, 278
BstBAI YACGTR 1 cut(s) 129
BstBI TTCGAA 1 cut(s) 864
BstC8I GCNNGC 7 cut(s) 134, 165, 179, 269, 283, 290, 363
BstDEI CTNAG 1 cut(s) 515
BstF5I GGATG 4 cut(s) 610, 673, 736, 808
BstFNI CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
BstH2I RGCGCY 3 cut(s) 55, 139, 374
BstHHI GCGC 6 cut(s) 54, 138, 169, 373, 561, 654
BstKTI GATC 8 cut(s) 42, 126, 207, 327, 337, 354, 411, 567
BstMAI GTCTC 1 cut(s) 338
BstMBI GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
BstMCI CGRYCG 5 cut(s) 42, 93, 327, 404, 722
BstSCI CCNGG 3 cut(s) 255, 448, 744
BstUI CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
BstV1I GCAGC 2 cut(s) 811, 814
BstV2I GAAGAC 2 cut(s) 221, 326
BstX2I RGATCY 1 cut(s) 204
BstYI RGATCY 1 cut(s) 204
BstZI CGGCCG 2 cut(s) 401, 719
Bsu15I ATCGAT 1 cut(s) 411
BsuRI GGCC 5 cut(s) 288, 365, 403, 448, 721
BsuTUI ATCGAT 1 cut(s) 411
BtsCI GGATG 4 cut(s) 610, 673, 736, 808
Cac8I GCNNGC 7 cut(s) 134, 165, 179, 269, 283, 290, 363
CciI TCATGA 1 cut(s) 15
CfoI GCGC 6 cut(s) 54, 138, 169, 373, 561, 654
Cfr10I RCCGGY 3 cut(s) 281, 543, 712
Cfr13I GGNCC 6 cut(s) 287, 447, 541, 550, 715, 742
ClaI ATCGAT 1 cut(s) 411
CpoI CGGWCCG 2 cut(s) 715, 742
Csp6I GTAC 1 cut(s) 523
CspAI ACCGGT 1 cut(s) 543
CspI CGGWCCG 2 cut(s) 715, 742
CviAII CATG 4 cut(s) 16, 349, 418, 736
CviQI GTAC 1 cut(s) 523
DdeI CTNAG 1 cut(s) 515
DpnI GATC 8 cut(s) 41, 125, 206, 326, 336, 353, 410, 566
DpnII GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
DrdI GACNNNNNNGTC 2 cut(s) 395, 434
DseDI GACNNNNNNGTC 2 cut(s) 395, 434
EaeI YGGCCR 2 cut(s) 401, 719
EagI CGGCCG 2 cut(s) 401, 719
Eam1104I CTCTTC 2 cut(s) 158, 278
EarI CTCTTC 2 cut(s) 158, 278
EciI GGCGGA 1 cut(s) 755
Ecl136II GAGCTC 1 cut(s) 271
EclXI CGGCCG 2 cut(s) 401, 719
Eco24I GRGCYC 1 cut(s) 273
Eco31I GGTCTC 1 cut(s) 338
Eco47I GGWCC 4 cut(s) 541, 550, 715, 742
Eco52I CGGCCG 2 cut(s) 401, 719
Eco53kI GAGCTC 1 cut(s) 271
Eco57I CTGAAG 2 cut(s) 461, 677
Eco72I CACGTG 1 cut(s) 129
Eco88I CYCGRG 1 cut(s) 476
EcoICRI GAGCTC 1 cut(s) 271
EcoRI GAATTC 1 cut(s) 860
EcoT38I GRGCYC 1 cut(s) 273
FaeI CATG 4 cut(s) 19, 352, 421, 739
FaiI YATR 7 cut(s) 17, 350, 419, 489, 737, 797, 819
FaqI GGGAC 1 cut(s) 656
FatI CATG 4 cut(s) 15, 348, 417, 735
FauI CCCGC 3 cut(s) 297, 303, 502
FbaI TGATCA 1 cut(s) 123
FblI GTMKAC 1 cut(s) 456
FokI GGATG 4 cut(s) 617, 680, 743, 815
FriOI GRGCYC 1 cut(s) 273
GlaI GCGC 6 cut(s) 53, 137, 168, 372, 560, 653
GsaI CCCAGC 2 cut(s) 755, 834
GsuI CTGGAG 1 cut(s) 488
HaeII RGCGCY 3 cut(s) 55, 139, 374
HaeIII GGCC 5 cut(s) 288, 365, 403, 448, 721
HhaI GCGC 6 cut(s) 54, 138, 169, 373, 561, 654
Hin1II CATG 4 cut(s) 19, 352, 421, 739
Hin6I GCGC 6 cut(s) 52, 136, 167, 371, 559, 652
HinP1I GCGC 6 cut(s) 52, 136, 167, 371, 559, 652
HincII GTYRAC 1 cut(s) 457
HindII GTYRAC 1 cut(s) 457
HinfI GANTC 3 cut(s) 305, 453, 587
HphI GGTGA 2 cut(s) 50, 670
Hpy166II GTNNAC 2 cut(s) 457, 504
Hpy188I TCNGA 1 cut(s) 678
Hpy188III TCNNGA 5 cut(s) 16, 202, 211, 338, 439
Hpy8I GTNNAC 2 cut(s) 457, 504
Hpy99I CGWCG 3 cut(s) 344, 398, 461
HpyAV CCTTC 3 cut(s) 613, 770, 805
HpyCH4IV ACGT 2 cut(s) 128, 435
HpyCH4V TGCA 2 cut(s) 594, 874
HpyF3I CTNAG 1 cut(s) 515
HpySE526I ACGT 2 cut(s) 128, 435
Hsp92II CATG 4 cut(s) 19, 352, 421, 739
HspAI GCGC 6 cut(s) 52, 136, 167, 371, 559, 652
KroI GCCGGC 1 cut(s) 281
KroNI GCCGGC 1 cut(s) 283
Ksp22I TGATCA 1 cut(s) 123
Kzo9I GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
LguI GCTCTTC 2 cut(s) 158, 278
LmnI GCTCC 5 cut(s) 74, 297, 368, 748, 781
Lsp1109I GCAGC 2 cut(s) 811, 814
LweI GCATC 2 cut(s) 453, 793
MaeII ACGT 2 cut(s) 128, 435
MaeIII GTNAC 1 cut(s) 56
MalI GATC 8 cut(s) 41, 125, 206, 326, 336, 353, 410, 566
MbiI CCGCTC 2 cut(s) 69, 292
MboI GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
MboII GAAGA 7 cut(s) 31, 91, 145, 226, 265, 328, 331
MflI RGATCY 1 cut(s) 204
MhlI GDGCHC 2 cut(s) 273, 333
MluCI AATT 3 cut(s) 11, 382, 860
MlyI GAGTC 3 cut(s) 314, 462, 581
MmeI TCCRAC 1 cut(s) 528
MreI CGCCGGCG 1 cut(s) 281
MroNI GCCGGC 1 cut(s) 281
MspR9I CCNGG 3 cut(s) 257, 450, 746
MvnI CGCG 8 cut(s) 77, 89, 167, 169, 267, 561, 585, 654
NaeI GCCGGC 1 cut(s) 283
NciI CCSGG 3 cut(s) 257, 450, 746
NdeII GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
NgoMIV GCCGGC 1 cut(s) 281
NlaIII CATG 4 cut(s) 19, 352, 421, 739
NlaIV GGNNCC 2 cut(s) 711, 844
NmeAIII GCCGAG 1 cut(s) 429
NmuCI GTSAC 1 cut(s) 56
NspV TTCGAA 1 cut(s) 864
PagI TCATGA 1 cut(s) 15
PciSI GCTCTTC 2 cut(s) 158, 278
PcsI WCGNNNNNNNCGW 3 cut(s) 125, 339, 393
PdiI GCCGGC 1 cut(s) 283
PflFI GACNNNGTC 1 cut(s) 392
PinAI ACCGGT 1 cut(s) 543
Ple19I CGATCG 2 cut(s) 42, 327
PleI GAGTC 3 cut(s) 313, 461, 581
PmaCI CACGTG 1 cut(s) 129
PmlI CACGTG 1 cut(s) 129
PpsI GAGTC 3 cut(s) 313, 461, 581
Ppu21I YACGTR 1 cut(s) 129
Psp124BI GAGCTC 1 cut(s) 273
PspCI CACGTG 1 cut(s) 129
PspFI CCCAGC 2 cut(s) 751, 830
PspN4I GGNNCC 2 cut(s) 711, 844
PspPI GGNCC 6 cut(s) 287, 447, 541, 550, 715, 742
PsuI RGATCY 1 cut(s) 204
PsyI GACNNNGTC 1 cut(s) 392
PvuI CGATCG 2 cut(s) 42, 327
RsaI GTAC 1 cut(s) 524
RsaNI GTAC 1 cut(s) 523
Rsr2I CGGWCCG 2 cut(s) 715, 742
RsrII CGGWCCG 2 cut(s) 715, 742
SacI GAGCTC 1 cut(s) 273
SalI GTCGAC 1 cut(s) 455
SapI GCTCTTC 2 cut(s) 158, 278
Sau3AI GATC 8 cut(s) 39, 123, 204, 324, 334, 351, 408, 564
Sau96I GGNCC 6 cut(s) 287, 447, 541, 550, 715, 742
SchI GAGTC 3 cut(s) 314, 462, 581
ScrFI CCNGG 3 cut(s) 257, 450, 746
SduI GDGCHC 2 cut(s) 273, 333
SetI ASST 9 cut(s) 131, 153, 165, 273, 438, 477, 495, 603, 753
SfaNI GCATC 2 cut(s) 453, 793
SfuI TTCGAA 1 cut(s) 864
SgrAI CRCCGGYG 1 cut(s) 281
SinI GGWCC 4 cut(s) 541, 550, 715, 742
SmlI CTYRAG 2 cut(s) 209, 646
SmoI CTYRAG 2 cut(s) 209, 646
Sse9I AATT 3 cut(s) 11, 382, 860
SstI GAGCTC 1 cut(s) 273
StyD4I CCNGG 3 cut(s) 255, 448, 744
TaiI ACGT 2 cut(s) 131, 438
TaqI TCGA 6 cut(s) 38, 333, 339, 411, 456, 864
TasI AATT 3 cut(s) 11, 382, 860
TseFI GTSAC 1 cut(s) 56
TseI GCWGC 2 cut(s) 824, 827
Tsp45I GTSAC 1 cut(s) 56
TspDTI ATGAA 3 cut(s) 4, 32, 873
Tth111I GACNNNGTC 1 cut(s) 392
VpaK11BI GGWCC 4 cut(s) 541, 550, 715, 742
XapI RAATTY 2 cut(s) 11, 860
XmiI GTMKAC 1 cut(s) 456
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.