FvH4_7g24520

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
OG0002737
Physical Location & Seq
Reverse (-)
18898719 .. 18901390
2672 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_7g24520.t1

Sequence Viewer

Length: 894 bp
ATGGCCGAGTTGACTCAGAGCGAGGTGGCGTACAACTCGCCGCCGAAGACTATGCAACTCTGGAAGGCTCTGCTCAACTGGCTCGGATTCCTGTTCCAGATCTTCGTTCAAGTCGTCAGAGCTCTCGGCCACCACCCTTTACTCTCTTCTTCGTCGTCTTCCGAAGTTTCCTTCAAGTCGTTGCCAGCTGTCGAGTTGCCCGAGCACGACTCCTCCGCCGCCGTGGAAATCGATGCTCCCGATTCTGACTCCGACGATCCTCCGCAGAAGCTGACGGTGGTGCTTGACCTGGATGAGACGCTGGTGTGTGCGTACGAGTCGGCCAGCTTGCCGGCGATGGTTCGGACTCAGGCGACTGAAGGTGGGATGAAGTGGTTTGAGCTCGAGTGTATTTCTTCTGACAAGGAATGTGATGGGAAACCGAAGGTGAATTATGTTACAGTTTTTGAGCGGCCGGGGTTGCATGAGTTTTTGAAGCAAGTTCATGGGTTTGCTGATCTTGTATTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTTGTTGACAGAATAGATGTAGAGAACCGGTTCAGTTTTAGGCTTTATCGGCCTTCAACAACCAGCACGGAATATCGTGAGCATGTAAAGGATCTATCTGGCCTATCAAAGGATTTGGGGCGAATTGTTCTTGTTGACAACAACCCTTTCAGTTTCTTGTTGCAACCTTTGAATGGAATTCCATGCATTCCATTTTCTGCTGGGCAATTACACGACACACAGCTTTTGGATGTTCTTCTTCCACTGCTTAAGCACCTGTCGCTGCAGAAAGATGTGAGACCTGTTCTTTATGAGAGGTTTCACATGCCTGAATGGTTTCAAAAGCAGGGAATCCCTTCAACTAGTTGGAAATAG

Protein Analysis

298

Amino Acids

33.43

Weight (kDa)

5.2

Isoelectric Point (pI)

36.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 91 - 273 4.3e-40 NLI interacting factor-like phosphatase
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)
AccBSI CCGCTC 1 cut(s) 451
AciI CCGC 5 cut(s) 41, 216, 219, 263, 451
AclWI GGATC 2 cut(s) 251, 639
AcoI YGGCCR 4 cut(s) 3, 127, 321, 452
AcsI RAATTY 1 cut(s) 717
AcuI CTGAAG 1 cut(s) 378
AfaI GTAC 2 cut(s) 32, 314
AfiI CCNNNNNNNGG 2 cut(s) 649, 713
AflII CTTAAG 1 cut(s) 788
AgeI ACCGGT 1 cut(s) 567
AgsI TTSAA 8 cut(s) 110, 175, 475, 524, 597, 712, 860, 879
AhlI ACTAGT 1 cut(s) 881
AjnI CCWGG 1 cut(s) 288
AluBI AGCT 6 cut(s) 122, 188, 271, 327, 382, 763
AluI AGCT 6 cut(s) 122, 188, 271, 327, 382, 763
Alw21I GWGCWC 3 cut(s) 124, 207, 384
Alw26I GTCTC 2 cut(s) 290, 811
AlwI GGATC 2 cut(s) 251, 639
AlwNI CAGNNNCTG 1 cut(s) 271
Ama87I CYCGRG 2 cut(s) 200, 383
AoxI GGCC 6 cut(s) 3, 127, 321, 452, 590, 640
ApeKI GCWGC 1 cut(s) 802
ApoI RAATTY 1 cut(s) 717
AsiGI ACCGGT 1 cut(s) 567
Asp700I GAANNNNTTC 3 cut(s) 569, 855, 874
AsuC2I CCSGG 1 cut(s) 456
AsuHPI GGTGA 1 cut(s) 439
AvaI CYCGRG 2 cut(s) 200, 383
BanII GRGCYC 2 cut(s) 124, 384
BbsI GAAGAC 2 cut(s) 53, 150
Bbv12I GWGCWC 3 cut(s) 124, 207, 384
BbvI GCAGC 1 cut(s) 789
BccI CCATC 2 cut(s) 331, 407
BceAI ACGGC 1 cut(s) 206
BcgI CGANNNNNNTGC 2 cut(s) 34, 68
BciT130I CCWGG 1 cut(s) 290
BcnI CCSGG 1 cut(s) 456
BcoDI GTCTC 2 cut(s) 290, 811
BcuI ACTAGT 1 cut(s) 881
BfaI CTAG 2 cut(s) 534, 882
BfmI CTRYAG 1 cut(s) 803
BfrI CTTAAG 1 cut(s) 788
BglII AGATCT 1 cut(s) 99
BisI GCNGC 4 cut(s) 41, 219, 452, 803
BlsI GCNGC 4 cut(s) 42, 220, 453, 804
Bme1390I CCNGG 2 cut(s) 290, 456
BmeT110I CYCGRG 2 cut(s) 200, 383
BmrFI CCNGG 2 cut(s) 290, 456
BmsI GCATC 1 cut(s) 223
BpiI GAAGAC 2 cut(s) 53, 150
BplI GAGNNNNNCTC 2 cut(s) 194, 226
BpuMI CCSGG 1 cut(s) 456
Bsa29I ATCGAT 1 cut(s) 231
BsaI GGTCTC 1 cut(s) 811
BsaJI CCNNGG 2 cut(s) 222, 455
BsaWI WCCGGW 1 cut(s) 567
BsaXI ACNNNNNCTCC 2 cut(s) 197, 227
Bsc4I CCNNNNNNNGG 2 cut(s) 649, 713
Bse118I RCCGGY 2 cut(s) 331, 567
Bse1I ACTGG 1 cut(s) 83
BseBI CCWGG 1 cut(s) 290
BseCI ATCGAT 1 cut(s) 231
BseDI CCNNGG 2 cut(s) 222, 455
BseGI GGATG 3 cut(s) 298, 372, 775
BseLI CCNNNNNNNGG 2 cut(s) 649, 713
BseMII CTCAG 2 cut(s) 29, 362
BseNI ACTGG 1 cut(s) 83
BseRI GAGGAG 1 cut(s) 202
BseX3I CGGCCG 1 cut(s) 452
BseXI GCAGC 1 cut(s) 789
BseYI CCCAGC 1 cut(s) 740
Bsh1285I CGRYCG 1 cut(s) 455
BshFI GGCC 6 cut(s) 5, 129, 323, 454, 592, 642
BshTI ACCGGT 1 cut(s) 567
BshVI ATCGAT 1 cut(s) 231
BsiEI CGRYCG 1 cut(s) 455
BsiHKAI GWGCWC 3 cut(s) 124, 207, 384
BsiHKCI CYCGRG 2 cut(s) 200, 383
BsiSI CCGG 3 cut(s) 332, 455, 568
BsiWI CGTACG 1 cut(s) 312
BslI CCNNNNNNNGG 2 cut(s) 649, 713
BsmAI GTCTC 2 cut(s) 290, 811
BsmBI CGTCTC 1 cut(s) 290
BsmI GAATGC 1 cut(s) 726
BsnI GGCC 6 cut(s) 5, 129, 323, 454, 592, 642
Bso31I GGTCTC 1 cut(s) 811
BsoBI CYCGRG 2 cut(s) 200, 383
Bsp1286I GDGCHC 3 cut(s) 124, 207, 384
Bsp143I GATC 4 cut(s) 99, 256, 496, 631
BspACI CCGC 5 cut(s) 41, 216, 219, 263, 451
BspANI GGCC 6 cut(s) 5, 129, 323, 454, 592, 642
BspCNI CTCAG 2 cut(s) 28, 361
BspDI ATCGAT 1 cut(s) 231
BspMAI CTGCAG 1 cut(s) 807
BspPI GGATC 2 cut(s) 251, 639
BspTI CTTAAG 1 cut(s) 788
BspTNI GGTCTC 1 cut(s) 811
BsrBI CCGCTC 1 cut(s) 451
BsrFI RCCGGY 2 cut(s) 331, 567
BsrI ACTGG 1 cut(s) 83
BssAI RCCGGY 2 cut(s) 331, 567
BssECI CCNNGG 2 cut(s) 222, 455
BssMI GATC 4 cut(s) 99, 256, 496, 631
Bst2UI CCWGG 1 cut(s) 290
Bst4CI ACNGT 2 cut(s) 277, 442
Bst6I CTCTTC 1 cut(s) 151
BstAFI CTTAAG 1 cut(s) 788
BstC8I GCNNGC 4 cut(s) 186, 325, 329, 333
BstDEI CTNAG 2 cut(s) 15, 348
BstDSI CCRYGG 1 cut(s) 222
BstENI CCTNNNNNAGG 1 cut(s) 647
BstF5I GGATG 3 cut(s) 298, 372, 775
BstKTI GATC 4 cut(s) 102, 259, 499, 634
BstMAI GTCTC 2 cut(s) 290, 811
BstMBI GATC 4 cut(s) 99, 256, 496, 631
BstMCI CGRYCG 1 cut(s) 455
BstMWI GCNNNNNNNGC 4 cut(s) 79, 460, 589, 799
BstNI CCWGG 1 cut(s) 290
BstNSI RCATGY 2 cut(s) 626, 847
BstSCI CCNGG 2 cut(s) 288, 454
BstSFI CTRYAG 1 cut(s) 803
BstV1I GCAGC 1 cut(s) 789
BstV2I GAAGAC 2 cut(s) 53, 150
BstX2I RGATCY 2 cut(s) 99, 631
BstYI RGATCY 2 cut(s) 99, 631
BstZI CGGCCG 1 cut(s) 452
Bsu15I ATCGAT 1 cut(s) 231
BsuRI GGCC 6 cut(s) 5, 129, 323, 454, 592, 642
BsuTUI ATCGAT 1 cut(s) 231
BtgI CCRYGG 1 cut(s) 222
BtgZI GCGATG 1 cut(s) 350
BtsCI GGATG 3 cut(s) 298, 372, 775
BtsI GCAGTG 1 cut(s) 782
BtsIMutI CAGTG 1 cut(s) 782
Cac8I GCNNGC 4 cut(s) 186, 325, 329, 333
CaiI CAGNNNCTG 1 cut(s) 271
Cfr10I RCCGGY 2 cut(s) 331, 567
ClaI ATCGAT 1 cut(s) 231
CseI GACGC 1 cut(s) 307
Csp6I GTAC 2 cut(s) 31, 313
CspAI ACCGGT 1 cut(s) 567
CviAII CATG 5 cut(s) 464, 485, 623, 723, 844
CviQI GTAC 2 cut(s) 31, 313
DdeI CTNAG 2 cut(s) 15, 348
DpnI GATC 4 cut(s) 101, 258, 498, 633
DpnII GATC 4 cut(s) 99, 256, 496, 631
EaeI YGGCCR 4 cut(s) 3, 127, 321, 452
EagI CGGCCG 1 cut(s) 452
Eam1104I CTCTTC 1 cut(s) 151
EarI CTCTTC 1 cut(s) 151
EciI GGCGGA 1 cut(s) 205
Ecl136II GAGCTC 2 cut(s) 122, 382
EclXI CGGCCG 1 cut(s) 452
Eco24I GRGCYC 2 cut(s) 124, 384
Eco31I GGTCTC 1 cut(s) 811
Eco52I CGGCCG 1 cut(s) 452
Eco53kI GAGCTC 2 cut(s) 122, 382
Eco57I CTGAAG 1 cut(s) 378
Eco88I CYCGRG 2 cut(s) 200, 383
EcoICRI GAGCTC 2 cut(s) 122, 382
EcoNI CCTNNNNNAGG 1 cut(s) 647
EcoRI GAATTC 1 cut(s) 717
EcoRII CCWGG 1 cut(s) 288
EcoT22I ATGCAT 1 cut(s) 728
EcoT38I GRGCYC 2 cut(s) 124, 384
Esp3I CGTCTC 1 cut(s) 290
FaeI CATG 5 cut(s) 467, 488, 626, 726, 847
FaiI YATR 9 cut(s) 53, 435, 465, 486, 531, 624, 724, 831, 845
FatI CATG 5 cut(s) 463, 484, 622, 722, 843
Fnu4HI GCNGC 4 cut(s) 41, 219, 452, 803
FokI GGATG 3 cut(s) 305, 379, 782
FriOI GRGCYC 2 cut(s) 124, 384
Fsp4HI GCNGC 4 cut(s) 41, 219, 452, 803
FspBI CTAG 2 cut(s) 534, 882
GluI GCNGC 4 cut(s) 41, 219, 452, 803
GsaI CCCAGC 1 cut(s) 744
HaeIII GGCC 6 cut(s) 5, 129, 323, 454, 592, 642
HapII CCGG 3 cut(s) 332, 455, 568
HgaI GACGC 1 cut(s) 307
Hin1II CATG 5 cut(s) 467, 488, 626, 726, 847
HincII GTYRAC 3 cut(s) 12, 547, 676
HindII GTYRAC 3 cut(s) 12, 547, 676
HinfI GANTC 8 cut(s) 13, 87, 209, 242, 248, 317, 346, 870
HpaII CCGG 3 cut(s) 332, 455, 568
HphI GGTGA 1 cut(s) 439
Hpy166II GTNNAC 4 cut(s) 12, 510, 547, 676
Hpy188I TCNGA 8 cut(s) 18, 86, 119, 163, 247, 253, 345, 400
Hpy188III TCNNGA 4 cut(s) 61, 97, 239, 617
Hpy8I GTNNAC 4 cut(s) 12, 510, 547, 676
Hpy99I CGWCG 2 cut(s) 157, 257
HpyAV CCTTC 7 cut(s) 58, 181, 353, 418, 518, 603, 885
HpyCH4III ACNGT 2 cut(s) 277, 442
HpyCH4V TGCA 5 cut(s) 55, 463, 703, 726, 805
HpyF10VI GCNNNNNNNGC 4 cut(s) 79, 460, 589, 799
HpyF3I CTNAG 2 cut(s) 15, 348
Hsp92II CATG 5 cut(s) 467, 488, 626, 726, 847
KroI GCCGGC 1 cut(s) 331
KroNI GCCGGC 1 cut(s) 333
Kzo9I GATC 4 cut(s) 99, 256, 496, 631
LmnI GCTCC 1 cut(s) 241
Lsp1109I GCAGC 1 cut(s) 789
LweI GCATC 1 cut(s) 223
MaeI CTAG 2 cut(s) 534, 882
MaeIII GTNAC 1 cut(s) 436
MalI GATC 4 cut(s) 101, 258, 498, 633
MbiI CCGCTC 1 cut(s) 451
MboI GATC 4 cut(s) 99, 256, 496, 631
MboII GAAGA 8 cut(s) 58, 94, 138, 141, 150, 387, 767, 770
MflI RGATCY 2 cut(s) 99, 631
MhlI GDGCHC 3 cut(s) 124, 207, 384
MluCI AATT 4 cut(s) 430, 663, 717, 746
MlyI GAGTC 5 cut(s) 7, 203, 242, 326, 340
MmeI TCCRAC 2 cut(s) 276, 866
MnlI CCTC 4 cut(s) 16, 223, 270, 828
Mph1103I ATGCAT 1 cut(s) 728
MroNI GCCGGC 1 cut(s) 331
MroXI GAANNNNTTC 3 cut(s) 569, 855, 874
MseI TTAA 1 cut(s) 789
MspA1I CMGCKG 1 cut(s) 188
MspCI CTTAAG 1 cut(s) 788
MspI CCGG 3 cut(s) 332, 455, 568
MspR9I CCNGG 2 cut(s) 290, 456
Mva1269I GAATGC 1 cut(s) 726
MvaI CCWGG 1 cut(s) 290
MwoI GCNNNNNNNGC 4 cut(s) 79, 460, 589, 799
NaeI GCCGGC 1 cut(s) 333
NciI CCSGG 1 cut(s) 456
NdeII GATC 4 cut(s) 99, 256, 496, 631
NgoMIV GCCGGC 1 cut(s) 331
NlaIII CATG 5 cut(s) 467, 488, 626, 726, 847
NmeAIII GCCGAG 2 cut(s) 31, 105
NsiI ATGCAT 1 cut(s) 728
NspI RCATGY 2 cut(s) 626, 847
PaeR7I CTCGAG 1 cut(s) 383
PcsI WCGNNNNNNNCGW 3 cut(s) 111, 198, 237
PctI GAATGC 1 cut(s) 726
PdiI GCCGGC 1 cut(s) 333
PdmI GAANNNNTTC 3 cut(s) 569, 855, 874
PfeI GAWTC 3 cut(s) 87, 242, 870
Pfl23II CGTACG 1 cut(s) 312
PinAI ACCGGT 1 cut(s) 567
PkrI GCNGC 4 cut(s) 42, 220, 453, 804
PleI GAGTC 5 cut(s) 7, 203, 242, 325, 340
PpsI GAGTC 5 cut(s) 7, 203, 242, 325, 340
Psp124BI GAGCTC 2 cut(s) 124, 384
Psp6I CCWGG 1 cut(s) 288
PspFI CCCAGC 1 cut(s) 740
PspGI CCWGG 1 cut(s) 288
PspLI CGTACG 1 cut(s) 312
PspXI VCTCGAGB 1 cut(s) 383
PstI CTGCAG 1 cut(s) 807
PstNI CAGNNNCTG 1 cut(s) 271
PsuI RGATCY 2 cut(s) 99, 631
PvuII CAGCTG 1 cut(s) 188
RsaI GTAC 2 cut(s) 32, 314
RsaNI GTAC 2 cut(s) 31, 313
SacI GAGCTC 2 cut(s) 124, 384
SaqAI TTAA 1 cut(s) 789
SatI GCNGC 4 cut(s) 41, 219, 452, 803
Sau3AI GATC 4 cut(s) 99, 256, 496, 631
SchI GAGTC 5 cut(s) 7, 203, 242, 326, 340
ScrFI CCNGG 2 cut(s) 290, 456
SduI GDGCHC 3 cut(s) 124, 207, 384
SfaNI GCATC 1 cut(s) 223
SfcI CTRYAG 1 cut(s) 803
Sfr274I CTCGAG 1 cut(s) 383
SlaI CTCGAG 1 cut(s) 383
SmlI CTYRAG 2 cut(s) 383, 788
SmoI CTYRAG 2 cut(s) 383, 788
SpeI ACTAGT 1 cut(s) 881
Sse9I AATT 4 cut(s) 430, 663, 717, 746
SsiI CCGC 5 cut(s) 41, 216, 219, 263, 451
SspMI CTAG 2 cut(s) 534, 882
SstI GAGCTC 2 cut(s) 124, 384
StyD4I CCNGG 2 cut(s) 288, 454
TaaI ACNGT 2 cut(s) 277, 442
TaqI TCGA 3 cut(s) 192, 231, 384
TasI AATT 4 cut(s) 430, 663, 717, 746
TauI GCSGC 3 cut(s) 43, 221, 454
TfiI GAWTC 3 cut(s) 87, 242, 870
Tru1I TTAA 1 cut(s) 789
Tru9I TTAA 1 cut(s) 789
TscAI CASTG 1 cut(s) 789
TseI GCWGC 1 cut(s) 802
TspDTI ATGAA 2 cut(s) 383, 473
TspGWI ACGGA 1 cut(s) 623
TspRI CASTG 1 cut(s) 789
Vha464I CTTAAG 1 cut(s) 788
XagI CCTNNNNNAGG 1 cut(s) 647
XapI RAATTY 1 cut(s) 717
XceI RCATGY 2 cut(s) 626, 847
XhoI CTCGAG 1 cut(s) 383
XmnI GAANNNNTTC 3 cut(s) 569, 855, 874
XspI CTAG 2 cut(s) 534, 882
Zsp2I ATGCAT 1 cut(s) 728
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.