FvH4_3g32620

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0002778
Physical Location & Seq
Forward (+)
27931584 .. 27933402
1819 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g32620.t1

Sequence Viewer

Length: 1092 bp
ATGGCTACAATAAGAATGTCCCATACATTGCTGGCCATCCTTGTAGTGCTCGTTTCCATGGAAGCAATGTCCCTTGTTCTGGGCCAAGGCAATGGAAATGGAAACGGCAATGGCAATGGTAATGGCAGTGGTAATGGCAACGGGAACGGGAATGGCAATGGCAATGAATCTGATGACACTGCAGTTTCTCACTACGATGTATTGACACCGTTGGCATCCGGACAGGAAAGAGGCTTCTGCAAAGCAAAGGGTGCCTGCTATTACAAGACCCTTGTGTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAACACAAGGGTTGTTTCATCAACTGTGGCAGCAAATGTGAAGTGACTTGCAAGTATAGGCGAGCCAACTGTAATGGGTATGGTTCTCTCTGTTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAGGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCAACAGGAAGGACTCGCGATTACACATGGGTTCAAGCTTTCTCAATCATGTTTGATACTCACACCCTTGTAATTGCAGCAAAGAAGATCTCAAAGTGGGATGACAAAGTTGACGCACTAATGGTAAAGTGGGATGGTGAGTCAGTCACCATCCCTACTGATGGAGAAGCCGAATGGAGGATCATGGCTGAAGGAAGAGAAGTAGTAGTTGAGAGAACCGATGATACAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCAATTGGAGCAGAAGAAAACAAGGTTCACAAGTACCAAATACCATCCGGTGATTCTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTGTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCTAATGCCAATGATGGGTGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAAGTTCCAAAGGCAATCTGGACTTGCTCAATACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Root_cap

Protein Analysis

364

Amino Acids

39.77

Weight (kDa)

8.5

Isoelectric Point (pI)

18.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 298 - 354 1.1e-28 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 809
AccB1I GGYRCC 1 cut(s) 251
AccII CGCG 1 cut(s) 552
AccIII TCCGGA 1 cut(s) 218
AclWI GGATC 2 cut(s) 410, 722
AcoI YGGCCR 1 cut(s) 33
AcuI CTGAAG 1 cut(s) 744
AfaI GTAC 2 cut(s) 851, 1016
AfiI CCNNNNNNNGG 4 cut(s) 79, 695, 711, 998
AgsI TTSAA 1 cut(s) 569
AjnI CCWGG 1 cut(s) 952
AluBI AGCT 1 cut(s) 572
AluI AGCT 1 cut(s) 572
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 1 cut(s) 881
AlwI GGATC 2 cut(s) 410, 722
Aor13HI TCCGGA 1 cut(s) 218
AoxI GGCC 4 cut(s) 33, 82, 815, 950
ApeKI GCWGC 2 cut(s) 348, 611
AspS9I GGNCC 1 cut(s) 82
AsuHPI GGTGA 5 cut(s) 446, 673, 683, 878, 1029
BalI TGGCCA 1 cut(s) 35
BanI GGYRCC 1 cut(s) 251
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 2 cut(s) 360, 623
BceAI ACGGC 1 cut(s) 121
BciT130I CCWGG 1 cut(s) 954
BcoDI GTCTC 1 cut(s) 881
BfmI CTRYAG 1 cut(s) 180
BglII AGATCT 1 cut(s) 621
BisI GCNGC 2 cut(s) 349, 612
BlsI GCNGC 2 cut(s) 350, 613
Bme1390I CCNGG 1 cut(s) 954
BmgT120I GGNCC 1 cut(s) 82
BmiI GGNNCC 2 cut(s) 253, 463
BmrFI CCNGG 1 cut(s) 954
BmsI GCATC 1 cut(s) 224
BsaAI YACGTR 1 cut(s) 769
BsaJI CCNNGG 5 cut(s) 57, 85, 419, 457, 465
BsaWI WCCGGW 2 cut(s) 218, 863
Bsc4I CCNNNNNNNGG 4 cut(s) 79, 695, 711, 998
Bse1I ACTGG 1 cut(s) 968
Bse3DI GCAATG 7 cut(s) 26, 72, 97, 115, 121, 163, 169
BseAI TCCGGA 1 cut(s) 218
BseBI CCWGG 1 cut(s) 954
BseDI CCNNGG 5 cut(s) 57, 85, 419, 457, 465
BseGI GGATG 6 cut(s) 36, 215, 640, 673, 684, 860
BseLI CCNNNNNNNGG 4 cut(s) 79, 695, 711, 998
BseMI GCAATG 7 cut(s) 26, 72, 97, 115, 121, 163, 169
BseMII CTCAG 1 cut(s) 308
BseNI ACTGG 1 cut(s) 968
BseXI GCAGC 2 cut(s) 360, 623
Bsh1236I CGCG 1 cut(s) 552
BshFI GGCC 4 cut(s) 35, 84, 817, 952
BshNI GGYRCC 1 cut(s) 251
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 2 cut(s) 219, 864
BslFI GGGAC 2 cut(s) 4, 55
BslI CCNNNNNNNGG 4 cut(s) 79, 695, 711, 998
BsmAI GTCTC 1 cut(s) 881
BsmFI GGGAC 2 cut(s) 4, 55
BsmI GAATGC 1 cut(s) 293
BsnI GGCC 4 cut(s) 35, 84, 817, 952
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 218
Bsp143I GATC 4 cut(s) 415, 621, 714, 916
Bsp19I CCATGG 2 cut(s) 57, 457
Bsp68I TCGCGA 1 cut(s) 552
BspANI GGCC 4 cut(s) 35, 84, 817, 952
BspCNI CTCAG 1 cut(s) 307
BspEI TCCGGA 1 cut(s) 218
BspFNI CGCG 1 cut(s) 552
BspLI GGNNCC 2 cut(s) 253, 463
BspMAI CTGCAG 1 cut(s) 184
BspPI GGATC 2 cut(s) 410, 722
BspT107I GGYRCC 1 cut(s) 251
BsrDI GCAATG 7 cut(s) 26, 72, 97, 115, 121, 163, 169
BsrI ACTGG 1 cut(s) 968
BssECI CCNNGG 5 cut(s) 57, 85, 419, 457, 465
BssMI GATC 4 cut(s) 415, 621, 714, 916
BssT1I CCWWGG 5 cut(s) 57, 85, 419, 457, 465
Bst2UI CCWGG 1 cut(s) 954
Bst4CI ACNGT 4 cut(s) 210, 344, 389, 781
Bst6I CTCTTC 1 cut(s) 724
BstAPI GCANNNNNTGC 2 cut(s) 251, 1053
BstBAI YACGTR 1 cut(s) 769
BstC8I GCNNGC 3 cut(s) 33, 256, 381
BstDEI CTNAG 2 cut(s) 294, 883
BstDSI CCRYGG 2 cut(s) 57, 457
BstF5I GGATG 6 cut(s) 36, 215, 640, 673, 684, 860
BstFNI CGCG 1 cut(s) 552
BstKTI GATC 4 cut(s) 418, 624, 717, 919
BstMAI GTCTC 1 cut(s) 881
BstMBI GATC 4 cut(s) 415, 621, 714, 916
BstMWI GCNNNNNNNGC 2 cut(s) 251, 1053
BstNI CCWGG 1 cut(s) 954
BstSCI CCNGG 1 cut(s) 952
BstSFI CTRYAG 1 cut(s) 180
BstSNI TACGTA 1 cut(s) 769
BstUI CGCG 1 cut(s) 552
BstV1I GCAGC 2 cut(s) 360, 623
BstX2I RGATCY 1 cut(s) 621
BstXI CCANNNNNNTGG 1 cut(s) 92
BstYI RGATCY 1 cut(s) 621
BsuRI GGCC 4 cut(s) 35, 84, 817, 952
BtgI CCRYGG 2 cut(s) 57, 457
BtsCI GGATG 6 cut(s) 36, 215, 640, 673, 684, 860
BtsI GCAGTG 2 cut(s) 133, 177
BtsIMutI CAGTG 2 cut(s) 133, 177
BtuMI TCGCGA 1 cut(s) 552
Cac8I GCNNGC 3 cut(s) 33, 256, 381
Cfr13I GGNCC 1 cut(s) 82
CseI GACGC 1 cut(s) 656
Csp6I GTAC 2 cut(s) 850, 1015
CviAII CATG 5 cut(s) 58, 458, 561, 583, 718
CviQI GTAC 2 cut(s) 850, 1015
DdeI CTNAG 2 cut(s) 294, 883
DpnI GATC 4 cut(s) 417, 623, 716, 918
DpnII GATC 4 cut(s) 415, 621, 714, 916
DrdI GACNNNNNNGTC 1 cut(s) 809
DseDI GACNNNNNNGTC 1 cut(s) 809
EaeI YGGCCR 1 cut(s) 33
Eam1104I CTCTTC 1 cut(s) 724
EarI CTCTTC 1 cut(s) 724
Eco105I TACGTA 1 cut(s) 769
Eco130I CCWWGG 5 cut(s) 57, 85, 419, 457, 465
Eco57I CTGAAG 1 cut(s) 744
EcoRII CCWGG 1 cut(s) 952
EcoT14I CCWWGG 5 cut(s) 57, 85, 419, 457, 465
ErhI CCWWGG 5 cut(s) 57, 85, 419, 457, 465
FaeI CATG 5 cut(s) 61, 461, 564, 586, 721
FaqI GGGAC 2 cut(s) 4, 55
FatI CATG 5 cut(s) 57, 457, 560, 582, 717
Fnu4HI GCNGC 2 cut(s) 349, 612
FokI GGATG 6 cut(s) 23, 202, 647, 671, 680, 847
Fsp4HI GCNGC 2 cut(s) 349, 612
GluI GCNGC 2 cut(s) 349, 612
HaeIII GGCC 4 cut(s) 35, 84, 817, 952
HapII CCGG 2 cut(s) 219, 864
HgaI GACGC 1 cut(s) 656
Hin1II CATG 5 cut(s) 61, 461, 564, 586, 721
HincII GTYRAC 1 cut(s) 646
HindII GTYRAC 1 cut(s) 646
HindIII AAGCTT 1 cut(s) 570
HinfI GANTC 4 cut(s) 167, 547, 674, 869
HpaII CCGG 2 cut(s) 219, 864
HphI GGTGA 5 cut(s) 446, 673, 683, 878, 1029
Hpy166II GTNNAC 2 cut(s) 646, 844
Hpy188I TCNGA 5 cut(s) 172, 286, 297, 493, 916
Hpy188III TCNNGA 3 cut(s) 219, 551, 1074
Hpy8I GTNNAC 2 cut(s) 646, 844
HpyAV CCTTC 3 cut(s) 537, 719, 920
HpyCH4III ACNGT 4 cut(s) 210, 344, 389, 781
HpyCH4IV ACGT 1 cut(s) 768
HpyCH4V TGCA 7 cut(s) 182, 240, 369, 515, 611, 1047, 1056
HpyF10VI GCNNNNNNNGC 2 cut(s) 251, 1053
HpyF3I CTNAG 2 cut(s) 294, 883
HpySE526I ACGT 1 cut(s) 768
Hsp92II CATG 5 cut(s) 61, 461, 564, 586, 721
Kpn2I TCCGGA 1 cut(s) 218
Kzo9I GATC 4 cut(s) 415, 621, 714, 916
LmnI GCTCC 2 cut(s) 461, 824
Lsp1109I GCAGC 2 cut(s) 360, 623
LweI GCATC 1 cut(s) 224
MaeII ACGT 1 cut(s) 768
MaeIII GTNAC 3 cut(s) 361, 679, 775
MalI GATC 4 cut(s) 417, 623, 716, 918
MboI GATC 4 cut(s) 415, 621, 714, 916
MboII GAAGA 4 cut(s) 322, 631, 741, 842
MfeI CAATTG 1 cut(s) 819
MflI RGATCY 1 cut(s) 621
MhlI GDGCHC 1 cut(s) 51
MlsI TGGCCA 1 cut(s) 35
MluCI AATT 3 cut(s) 606, 819, 893
MluNI TGGCCA 1 cut(s) 35
MlyI GAGTC 2 cut(s) 541, 683
MmeI TCCRAC 2 cut(s) 930, 958
MnlI CCTC 7 cut(s) 224, 303, 464, 512, 705, 1000, 1050
Mox20I TGGCCA 1 cut(s) 35
MroI TCCGGA 1 cut(s) 218
MscI TGGCCA 1 cut(s) 35
MseI TTAA 1 cut(s) 972
MslI CAYNNNNRTG 2 cut(s) 195, 286
Msp20I TGGCCA 1 cut(s) 35
MspI CCGG 2 cut(s) 219, 864
MspR9I CCNGG 1 cut(s) 954
MunI CAATTG 1 cut(s) 819
Mva1269I GAATGC 1 cut(s) 293
MvaI CCWGG 1 cut(s) 954
MvnI CGCG 1 cut(s) 552
MwoI GCNNNNNNNGC 2 cut(s) 251, 1053
NcoI CCATGG 2 cut(s) 57, 457
NdeII GATC 4 cut(s) 415, 621, 714, 916
NlaIII CATG 5 cut(s) 61, 461, 564, 586, 721
NlaIV GGNNCC 2 cut(s) 253, 463
NmuCI GTSAC 2 cut(s) 361, 679
NruI TCGCGA 1 cut(s) 552
PctI GAATGC 1 cut(s) 293
PfeI GAWTC 2 cut(s) 167, 869
PkrI GCNGC 2 cut(s) 350, 613
PleI GAGTC 2 cut(s) 541, 682
PpsI GAGTC 2 cut(s) 541, 682
Ppu21I YACGTR 1 cut(s) 769
Psp6I CCWGG 1 cut(s) 952
PspGI CCWGG 1 cut(s) 952
PspN4I GGNNCC 2 cut(s) 253, 463
PspPI GGNCC 1 cut(s) 82
PsrI GAACNNNNNNTAC 2 cut(s) 742, 774
PstI CTGCAG 1 cut(s) 184
PsuI RGATCY 1 cut(s) 621
RruI TCGCGA 1 cut(s) 552
RsaI GTAC 2 cut(s) 851, 1016
RsaNI GTAC 2 cut(s) 850, 1015
RseI CAYNNNNRTG 2 cut(s) 195, 286
SaqAI TTAA 1 cut(s) 972
SatI GCNGC 2 cut(s) 349, 612
Sau3AI GATC 4 cut(s) 415, 621, 714, 916
Sau96I GGNCC 1 cut(s) 82
SchI GAGTC 2 cut(s) 541, 683
ScrFI CCNGG 1 cut(s) 954
SduI GDGCHC 1 cut(s) 51
SfaNI GCATC 1 cut(s) 224
SfcI CTRYAG 1 cut(s) 180
SmiMI CAYNNNNRTG 2 cut(s) 195, 286
SnaBI TACGTA 1 cut(s) 769
Sse9I AATT 3 cut(s) 606, 819, 893
StyD4I CCNGG 1 cut(s) 952
StyI CCWWGG 5 cut(s) 57, 85, 419, 457, 465
TaaI ACNGT 4 cut(s) 210, 344, 389, 781
TaiI ACGT 1 cut(s) 771
TaqI TCGA 1 cut(s) 532
TasI AATT 3 cut(s) 606, 819, 893
TfiI GAWTC 2 cut(s) 167, 869
Tru1I TTAA 1 cut(s) 972
Tru9I TTAA 1 cut(s) 972
TscAI CASTG 2 cut(s) 133, 184
TseFI GTSAC 2 cut(s) 361, 679
TseI GCWGC 2 cut(s) 348, 611
Tsp45I GTSAC 2 cut(s) 361, 679
TspDTI ATGAA 3 cut(s) 180, 325, 511
TspRI CASTG 2 cut(s) 133, 184
XcmI CCANNNNNNNNNTGG 1 cut(s) 1070
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.