FvH4_5g08470

RNA polymerase II C-terminal domain phosphatase-like

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
Physical Location & Seq
Reverse (-)
4897654 .. 4899242
1589 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g08470.t1

Sequence Viewer

Length: 1473 bp
ATGAGCCTCGCCGTCCATTCTCAGATACCCGAGTCATCCAGCGGCGAGAATCCCGTCGATGACTTCGCCGAGTTTCTCGACGAAGTACTCGATTCCGATTCCGAAAGTTTCCAGAGCTCAAAACGGCGTAAGGTGGAGGTGAATTGCAATGGGTCGTCGTCAATTTCAAGCTCGGGAGTCTTGGAAGTAGAGAAGAATGGTTCTTTGTGTGAACATCTTGCTGGGTCTTATAAAGACATGTGCTTGATTTGCGGGCAAAGGTTGGATCAGAATGAGAATGAGAATGAGAAATCCGAAATGGAGGAGTTGAGGGTTAAAATTGTTCGTGAAATTGACCTGGGAAAACGCAATTTGAGAACTAAGCAGTTGCTGCAACAGAAGAAGCTTCATTTGGTGCTTGATCTGGATCACACATTGCTCAATACTACTGCGGCGGGGTACTTGACGCAGCAGGAACGGTACTTGTTGGAGGGAGATCACAAACTGGGAGATGTTTTTGTGGTGCGAAATTCGGGTGTGGATTTGGTGACCAAGTTGAGGCCGTTTGTTGGGATGTTTTTGAAGGAGGCCAGTGAGATGTTTGAGATGTCTGTGTATACGATGGGGGACAGGCCTTACGCGCAGCAGATGGTTAAGCTGCTGGATCCGAAGAACGAGTACATTGGTGACAGGGTTGTTTCGAGAGATGATAGCACCAGGAATTTTGAAAAGAGTTTGGATGTTGTGTGTGCCAAAGAGAGTGCTGTATTGGTGCTTGATGATACACAGCATGTGTGGACAGAGCAGAACCAGGAGAATGTGTTGCTAATGCAGAGGTATCTGTTCTTTAGGAACAGTTATGACTCTTTTGGCTATAAGTATTGTGTGTCTCATGCGGAGTTGAAGACCGATGAAAGCGATGCACTGACTCAAGGGGCTTATCTTGCGGCCATTCTTCAGCTCCTTAAGCACATCCACGGCATGTTCTTCGATGATAAAGTGGCTGCGGGGGAGAATCTAGTCGATAGAGATGTGAGGGAAGTGTTAGAAAGTGTTAGGAGTCAAGTATTGAAAGGGTGTAAAGTTGCCTTTGGTTGTGTTTTGGCATCAGAAGCCCATTCTAAGTTGTGGAACATGGCAGAGAGGTTGGGAGCAGTTTGCTCAACAAAAGTAATGGATCCTTCAGTCACACATGTGATTGAAACAGATGTGAAAACAGAAAGTTCGCAATGGGCAGTGAGAGAGAAGAGGTTTCTGGTTCATCCACAGTGGATCCAGGCTGCAAGCTTTATGTGGCAAAAGCAACCCGAATACATGGGGACTTATCTTGCAGATGTTCTTCAACGTCTTAGGCGAAGACACAGCAGGTTCTTTAATGATGAAGTGATGTGCGGTAAGGTTTTCGACAGAGATGTGAGGATGGTGCTAAAAGGTGTTGAATGGTTTTCTAAGACTGATAAGACGAAGAAGTTAGAGTGTCAAATTGATTTCTGA

Protein Analysis

491

Amino Acids

56.12

Weight (kDa)

5.58

Isoelectric Point (pI)

37.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 130 - 281 4.9e-27 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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Publication-ready

Orthologous Genes (Group: OG0018037)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g08470
rosa_chinensis RchiOBHm_Chr7g0189941
rosa_laevigata RLG00000004575
rosa_multiflora Rmu_co8509437.1_g000002
rosa_roxburghii Rroxscaffold_3G00265030
rosa_rugosa Rorug06G0501300
rosa_samantha Rh7AG106400 Rh7BG109100 Rh7CG111200 Rh7DG109600
rosa_wichuraiana Rw7G009240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 231
Acc36I ACCTGC 1 cut(s) 1335
AccI GTMKAC 1 cut(s) 596
AccII CGCG 1 cut(s) 620
AciI CCGC 8 cut(s) 42, 252, 431, 434, 875, 926, 986, 1371
AclWI GGATC 8 cut(s) 273, 414, 638, 651, 1151, 1164, 1246, 1259
AcoI YGGCCR 1 cut(s) 927
AcsI RAATTY 2 cut(s) 508, 700
AcuI CTGAAG 2 cut(s) 920, 1146
AfaI GTAC 4 cut(s) 87, 440, 461, 659
AfiI CCNNNNNNNGG 2 cut(s) 537, 548
AflII CTTAAG 1 cut(s) 944
AflIII ACRYGT 2 cut(s) 237, 1171
AgsI TTSAA 8 cut(s) 168, 562, 707, 883, 1051, 1181, 1322, 1418
AjnI CCWGG 4 cut(s) 336, 695, 789, 1254
AjuI GAANNNNNNNTTGG 2 cut(s) 374, 406
AleI CACNNNNGTG 1 cut(s) 1172
AluBI AGCT 6 cut(s) 117, 171, 385, 637, 940, 1266
AluI AGCT 6 cut(s) 117, 171, 385, 637, 940, 1266
Alw21I GWGCWC 1 cut(s) 119
Alw26I GTCTC 1 cut(s) 873
AlwI GGATC 8 cut(s) 273, 414, 638, 651, 1151, 1164, 1246, 1259
AlwNI CAGNNNCTG 1 cut(s) 370
Ama87I CYCGRG 2 cut(s) 29, 172
AoxI GGCC 4 cut(s) 539, 567, 611, 927
ApeKI GCWGC 6 cut(s) 370, 448, 622, 637, 983, 1259
ApoI RAATTY 2 cut(s) 508, 700
AspLEI GCGC 1 cut(s) 622
AsuHPI GGTGA 3 cut(s) 151, 538, 677
AvaI CYCGRG 2 cut(s) 29, 172
BaeI ACNNNNGTAYC 2 cut(s) 17, 50
BamHI GGATCC 3 cut(s) 643, 1156, 1251
BanII GRGCYC 1 cut(s) 119
BarI GAAGNNNNNNTAC 2 cut(s) 641, 673
BbsI GAAGAC 2 cut(s) 890, 1342
Bbv12I GWGCWC 1 cut(s) 119
BbvI GCAGC 6 cut(s) 357, 460, 624, 634, 970, 1246
BccI CCATC 3 cut(s) 595, 622, 1393
BceAI ACGGC 3 cut(s) 140, 526, 973
BcgI CGANNNNNNTGC 2 cut(s) 949, 983
BciT130I CCWGG 4 cut(s) 338, 697, 791, 1256
BcoDI GTCTC 1 cut(s) 873
BfaI CTAG 1 cut(s) 998
BfrI CTTAAG 1 cut(s) 944
BfuAI ACCTGC 1 cut(s) 1335
BisI GCNGC 9 cut(s) 43, 371, 432, 449, 623, 638, 927, 984, 1260
BlsI GCNGC 9 cut(s) 44, 372, 433, 450, 624, 639, 928, 985, 1261
BmcAI AGTACT 1 cut(s) 87
Bme1390I CCNGG 4 cut(s) 338, 697, 791, 1256
BmeT110I CYCGRG 2 cut(s) 29, 172
BmiI GGNNCC 3 cut(s) 645, 1158, 1253
BmrFI CCNGG 4 cut(s) 338, 697, 791, 1256
BmrI ACTGGG 1 cut(s) 494
BmsI GCATC 2 cut(s) 889, 1094
BmuI ACTGGG 1 cut(s) 494
BpiI GAAGAC 2 cut(s) 890, 1342
BpuEI CTTGAG 1 cut(s) 894
BsaBI GATNNNNATC 1 cut(s) 405
BsaJI CCNNGG 2 cut(s) 337, 955
BsaXI ACNNNNNCTCC 2 cut(s) 785, 815
Bsc4I CCNNNNNNNGG 2 cut(s) 537, 548
Bse1I ACTGG 2 cut(s) 489, 570
Bse3DI GCAATG 3 cut(s) 154, 413, 1214
Bse8I GATNNNNATC 1 cut(s) 405
BseBI CCWGG 4 cut(s) 338, 697, 791, 1256
BseDI CCNNGG 2 cut(s) 337, 955
BseGI GGATG 6 cut(s) 35, 558, 724, 951, 1240, 1404
BseJI GATNNNNATC 1 cut(s) 405
BseLI CCNNNNNNNGG 2 cut(s) 537, 548
BseMI GCAATG 3 cut(s) 154, 413, 1214
BseMII CTCAG 1 cut(s) 35
BseNI ACTGG 2 cut(s) 489, 570
BseRI GAGGAG 1 cut(s) 317
BseXI GCAGC 6 cut(s) 357, 460, 624, 634, 970, 1246
BseYI CCCAGC 1 cut(s) 221
Bsh1236I CGCG 1 cut(s) 620
BshFI GGCC 4 cut(s) 541, 569, 613, 929
BsiHKAI GWGCWC 1 cut(s) 119
BsiHKCI CYCGRG 2 cut(s) 29, 172
BslFI GGGAC 2 cut(s) 620, 1312
BslI CCNNNNNNNGG 2 cut(s) 537, 548
BsmAI GTCTC 1 cut(s) 873
BsmFI GGGAC 2 cut(s) 620, 1312
BsnI GGCC 4 cut(s) 541, 569, 613, 929
BsoBI CYCGRG 2 cut(s) 29, 172
Bsp1286I GDGCHC 1 cut(s) 119
Bsp143I GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
BspACI CCGC 8 cut(s) 42, 252, 431, 434, 875, 926, 986, 1371
BspANI GGCC 4 cut(s) 541, 569, 613, 929
BspCNI CTCAG 1 cut(s) 34
BspFNI CGCG 1 cut(s) 620
BspLI GGNNCC 3 cut(s) 645, 1158, 1253
BspMI ACCTGC 1 cut(s) 1335
BspPI GGATC 8 cut(s) 273, 414, 638, 651, 1151, 1164, 1246, 1259
BspTI CTTAAG 1 cut(s) 944
BsrDI GCAATG 3 cut(s) 154, 413, 1214
BsrI ACTGG 2 cut(s) 489, 570
BssECI CCNNGG 2 cut(s) 337, 955
BssMI GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
BssNAI GTATAC 1 cut(s) 597
Bst1107I GTATAC 1 cut(s) 597
Bst2UI CCWGG 4 cut(s) 338, 697, 791, 1256
Bst4CI ACNGT 3 cut(s) 459, 836, 1248
Bst6I CTCTTC 1 cut(s) 1220
BstAFI CTTAAG 1 cut(s) 944
BstAPI GCANNNNNTGC 1 cut(s) 370
BstC8I GCNNGC 2 cut(s) 254, 1264
BstDEI CTNAG 5 cut(s) 21, 360, 1101, 1328, 1428
BstDSI CCRYGG 1 cut(s) 955
BstEII GGTNACC 1 cut(s) 526
BstF5I GGATG 6 cut(s) 35, 558, 724, 951, 1240, 1404
BstFNI CGCG 1 cut(s) 620
BstHHI GCGC 1 cut(s) 622
BstKTI GATC 7 cut(s) 268, 403, 409, 478, 646, 1159, 1254
BstMAI GTCTC 1 cut(s) 873
BstMBI GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
BstMWI GCNNNNNNNGC 6 cut(s) 249, 370, 619, 923, 946, 1091
BstNI CCWGG 4 cut(s) 338, 697, 791, 1256
BstNSI RCATGY 4 cut(s) 241, 773, 964, 1175
BstPI GGTNACC 1 cut(s) 526
BstSCI CCNGG 4 cut(s) 336, 695, 789, 1254
BstUI CGCG 1 cut(s) 620
BstV1I GCAGC 6 cut(s) 357, 460, 624, 634, 970, 1246
BstV2I GAAGAC 2 cut(s) 890, 1342
BstX2I RGATCY 3 cut(s) 643, 1156, 1251
BstYI RGATCY 3 cut(s) 643, 1156, 1251
BstZ17I GTATAC 1 cut(s) 597
BsuRI GGCC 4 cut(s) 541, 569, 613, 929
BtgI CCRYGG 1 cut(s) 955
BtgZI GCGATG 1 cut(s) 912
BtsCI GGATG 6 cut(s) 35, 558, 724, 951, 1240, 1404
BtsI GCAGTG 1 cut(s) 1221
BtsIMutI CAGTG 4 cut(s) 577, 902, 1221, 1253
BveI ACCTGC 1 cut(s) 1335
Cac8I GCNNGC 2 cut(s) 254, 1264
CaiI CAGNNNCTG 1 cut(s) 370
CfoI GCGC 1 cut(s) 622
CseI GACGC 1 cut(s) 454
Csp6I GTAC 4 cut(s) 86, 439, 460, 658
CviAII CATG 7 cut(s) 238, 770, 872, 961, 1114, 1172, 1294
CviQI GTAC 4 cut(s) 86, 439, 460, 658
DdeI CTNAG 5 cut(s) 21, 360, 1101, 1328, 1428
DpnI GATC 7 cut(s) 267, 402, 408, 477, 645, 1158, 1253
DpnII GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
EaeI YGGCCR 1 cut(s) 927
Eam1104I CTCTTC 1 cut(s) 1220
EarI CTCTTC 1 cut(s) 1220
Ecl136II GAGCTC 1 cut(s) 117
Eco147I AGGCCT 1 cut(s) 613
Eco24I GRGCYC 1 cut(s) 119
Eco53kI GAGCTC 1 cut(s) 117
Eco57I CTGAAG 2 cut(s) 920, 1146
Eco88I CYCGRG 2 cut(s) 29, 172
Eco91I GGTNACC 1 cut(s) 526
EcoICRI GAGCTC 1 cut(s) 117
EcoO65I GGTNACC 1 cut(s) 526
EcoRII CCWGG 4 cut(s) 336, 695, 789, 1254
EcoT38I GRGCYC 1 cut(s) 119
FaeI CATG 7 cut(s) 241, 773, 875, 964, 1117, 1175, 1297
FaqI GGGAC 2 cut(s) 620, 1312
FatI CATG 7 cut(s) 237, 769, 871, 960, 1113, 1171, 1293
FauI CCCGC 3 cut(s) 245, 427, 979
FblI GTMKAC 1 cut(s) 596
Fnu4HI GCNGC 9 cut(s) 43, 371, 432, 449, 623, 638, 927, 984, 1260
FokI GGATG 6 cut(s) 22, 565, 731, 938, 1227, 1411
FriOI GRGCYC 1 cut(s) 119
Fsp4HI GCNGC 9 cut(s) 43, 371, 432, 449, 623, 638, 927, 984, 1260
FspBI CTAG 1 cut(s) 998
GlaI GCGC 1 cut(s) 621
GluI GCNGC 9 cut(s) 43, 371, 432, 449, 623, 638, 927, 984, 1260
GsaI CCCAGC 1 cut(s) 225
HaeIII GGCC 4 cut(s) 541, 569, 613, 929
HgaI GACGC 1 cut(s) 454
HhaI GCGC 1 cut(s) 622
Hin1II CATG 7 cut(s) 241, 773, 875, 964, 1117, 1175, 1297
Hin6I GCGC 1 cut(s) 620
HinP1I GCGC 1 cut(s) 620
HindIII AAGCTT 2 cut(s) 383, 1264
HinfI GANTC 9 cut(s) 32, 49, 92, 98, 177, 842, 907, 994, 1039
HphI GGTGA 3 cut(s) 151, 538, 677
Hpy166II GTNNAC 3 cut(s) 212, 597, 777
Hpy188I TCNGA 8 cut(s) 24, 97, 103, 270, 295, 648, 1090, 1472
Hpy188III TCNNGA 6 cut(s) 77, 112, 174, 326, 404, 681
Hpy8I GTNNAC 3 cut(s) 212, 597, 777
Hpy99I CGWCG 3 cut(s) 59, 83, 160
HpyAV CCTTC 2 cut(s) 556, 1170
HpyCH4III ACNGT 3 cut(s) 459, 836, 1248
HpyCH4IV ACGT 1 cut(s) 1324
HpyCH4V TGCA 6 cut(s) 147, 373, 811, 902, 1262, 1310
HpyF10VI GCNNNNNNNGC 6 cut(s) 249, 370, 619, 923, 946, 1091
HpyF3I CTNAG 5 cut(s) 21, 360, 1101, 1328, 1428
HpySE526I ACGT 1 cut(s) 1324
Hsp92II CATG 7 cut(s) 241, 773, 875, 964, 1117, 1175, 1297
HspAI GCGC 1 cut(s) 620
Kzo9I GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
LmnI GCTCC 2 cut(s) 945, 1130
Lsp1109I GCAGC 6 cut(s) 357, 460, 624, 634, 970, 1246
LweI GCATC 2 cut(s) 889, 1094
MaeI CTAG 1 cut(s) 998
MaeII ACGT 1 cut(s) 1324
MaeIII GTNAC 3 cut(s) 526, 665, 1165
MalI GATC 7 cut(s) 267, 402, 408, 477, 645, 1158, 1253
MboI GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
MflI RGATCY 3 cut(s) 643, 1156, 1251
MhlI GDGCHC 1 cut(s) 119
MluCI AATT 8 cut(s) 142, 162, 318, 330, 349, 508, 700, 1461
MlyI GAGTC 5 cut(s) 41, 186, 836, 901, 1048
MmeI TCCRAC 2 cut(s) 243, 447
MseI TTAA 4 cut(s) 315, 633, 945, 1353
MslI CAYNNNNRTG 1 cut(s) 1172
MspA1I CMGCKG 1 cut(s) 42
MspCI CTTAAG 1 cut(s) 944
MspR9I CCNGG 4 cut(s) 338, 697, 791, 1256
MvaI CCWGG 4 cut(s) 338, 697, 791, 1256
MvnI CGCG 1 cut(s) 620
MwoI GCNNNNNNNGC 6 cut(s) 249, 370, 619, 923, 946, 1091
NdeII GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
NlaIII CATG 7 cut(s) 241, 773, 875, 964, 1117, 1175, 1297
NlaIV GGNNCC 3 cut(s) 645, 1158, 1253
NmeAIII GCCGAG 1 cut(s) 94
NmuCI GTSAC 3 cut(s) 526, 665, 1165
NspI RCATGY 4 cut(s) 241, 773, 964, 1175
OliI CACNNNNGTG 1 cut(s) 1172
PceI AGGCCT 1 cut(s) 613
PciI ACATGT 2 cut(s) 237, 1171
PcsI WCGNNNNNNNCGW 2 cut(s) 87, 1330
PfeI GAWTC 4 cut(s) 49, 92, 98, 994
PkrI GCNGC 9 cut(s) 44, 372, 433, 450, 624, 639, 928, 985, 1261
PleI GAGTC 5 cut(s) 40, 185, 836, 901, 1047
PpsI GAGTC 5 cut(s) 40, 185, 836, 901, 1047
PscI ACATGT 2 cut(s) 237, 1171
PsiI TTATAA 1 cut(s) 231
Psp124BI GAGCTC 1 cut(s) 119
Psp6I CCWGG 4 cut(s) 336, 695, 789, 1254
PspEI GGTNACC 1 cut(s) 526
PspFI CCCAGC 1 cut(s) 221
PspGI CCWGG 4 cut(s) 336, 695, 789, 1254
PspN4I GGNNCC 3 cut(s) 645, 1158, 1253
PstNI CAGNNNCTG 1 cut(s) 370
PsuI RGATCY 3 cut(s) 643, 1156, 1251
RsaI GTAC 4 cut(s) 87, 440, 461, 659
RsaNI GTAC 4 cut(s) 86, 439, 460, 658
RseI CAYNNNNRTG 1 cut(s) 1172
SacI GAGCTC 1 cut(s) 119
SaqAI TTAA 4 cut(s) 315, 633, 945, 1353
SatI GCNGC 9 cut(s) 43, 371, 432, 449, 623, 638, 927, 984, 1260
Sau3AI GATC 7 cut(s) 265, 400, 406, 475, 643, 1156, 1251
ScaI AGTACT 1 cut(s) 87
SchI GAGTC 5 cut(s) 41, 186, 836, 901, 1048
ScrFI CCNGG 4 cut(s) 338, 697, 791, 1256
SduI GDGCHC 1 cut(s) 119
SfaNI GCATC 2 cut(s) 889, 1094
SmiMI CAYNNNNRTG 1 cut(s) 1172
SmlI CTYRAG 2 cut(s) 909, 944
SmoI CTYRAG 2 cut(s) 909, 944
Sse9I AATT 8 cut(s) 142, 162, 318, 330, 349, 508, 700, 1461
SseBI AGGCCT 1 cut(s) 613
SsiI CCGC 8 cut(s) 42, 252, 431, 434, 875, 926, 986, 1371
SspMI CTAG 1 cut(s) 998
SstI GAGCTC 1 cut(s) 119
StuI AGGCCT 1 cut(s) 613
StyD4I CCNGG 4 cut(s) 336, 695, 789, 1254
TaaI ACNGT 3 cut(s) 459, 836, 1248
TaiI ACGT 1 cut(s) 1327
TaqI TCGA 7 cut(s) 57, 78, 90, 680, 969, 1002, 1383
TaqII GACCGA 1 cut(s) 902
TasI AATT 8 cut(s) 142, 162, 318, 330, 349, 508, 700, 1461
TatI WGTACW 2 cut(s) 85, 657
TauI GCSGC 3 cut(s) 45, 434, 929
TfiI GAWTC 4 cut(s) 49, 92, 98, 994
Tru1I TTAA 4 cut(s) 315, 633, 945, 1353
Tru9I TTAA 4 cut(s) 315, 633, 945, 1353
TscAI CASTG 4 cut(s) 577, 909, 1221, 1253
TseFI GTSAC 3 cut(s) 526, 665, 1165
TseI GCWGC 6 cut(s) 370, 448, 622, 637, 983, 1259
Tsp45I GTSAC 3 cut(s) 526, 665, 1165
TspDTI ATGAA 4 cut(s) 377, 906, 1229, 1374
TspRI CASTG 4 cut(s) 577, 909, 1221, 1253
Vha464I CTTAAG 1 cut(s) 944
XapI RAATTY 2 cut(s) 508, 700
XceI RCATGY 4 cut(s) 241, 773, 964, 1175
XmiI GTMKAC 1 cut(s) 596
XspI CTAG 1 cut(s) 998
ZrmI AGTACT 1 cut(s) 87
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.