FvH4_1g04120

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb1
OG0009223
Physical Location & Seq
Forward (+)
2175604 .. 2179048
3445 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_1g04120.t2

Sequence Viewer

Length: 1131 bp
ATGACGATCGACGACGAGAGCTCCGTCTACGTCGGCGGCCTCCCCTACGATGCCACCGAGGACACTGTTCGCCGAGTCTTCGATCTCTACGGCGCCGTCGTCGCCGTTAAGATTGTGAATGATAATACGAGCAGAGGAAAATGCTACGGCTTCGTTACGTTTCGGAGTCCACGGTCGGCGATCGACGCCATCAACGACATGGACGGCAGGACTGTGGATGGGAGAGTGGTGAGAGTGAATGAAGTGAGGAGTAGAGGAGGGAGATCAGGTTTCGGTGGAGGGAGAGGGAGAGGGAGAGGAGGGAGGGAGAGTTTCCGGCGGGATGTCGAGAGGGGGAGGAGCTGGGGGAGTAGAGGTAGGGAGCATGAGATGGAGTATGATGATGTTAGGGAGAGGTATAGCGATAGGTCGATGGAGCGCGGCGATAGGTACATTGTTCGGTCGAGGGAGCGGCGGTCTGTTGAGTATGAGGAGGAGAGAGATGGGGGATACCGGCGTGGAGGTGCTGATCTTGAGGTAATGAGTGAGCAATTCTCGGATAGAGATCGTGGGAGGGTGAGGGATTTGGAAGATGTTGAGCAAGGAAGCAGCAGGAGCCATGATCAGGGTTGGGGGAAGAGAAATCGTACTGTGGAATCTAATAGGGAGGGGGAGATGGACCGAACGGAGCATAGGAATGATATTGTTGAAAAGGATAGAGATCAACATTCGAGGAGGCGGAACGGTTCAAACTCAGTCGATCAAAATAGTAGGGAGCTTTTATCCCATTCAAGTGATGATTTCAATGATCAGGTAAAAGAACAACTTGAAAGATCCACTCGGAGGCTTGAAGAATTGAAAAAGGAGACTTCTGAGATGGAAGAGAAGTTAGAAGATGATGGAAAACTGGTCTTGGATTTACAGAAGCAATCTAAGAAGCTGGAGGATGCATTGGTAAATGCAAAGAAGAATACTTTACACCAGAAGGCACAGTTGACCAAGCTACATGATTGCTTTATGCAAGTAAAACATTATAAAGAAAAACTCAAAAGCAGTGAAGATGAACTTCAGATGCTGGTTGAAACAGCAACAGGGGAAGATATTGACGATATTGGCTTGAGGGATACAATCCTGGCTATTGCCAATGCCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

377

Amino Acids

43.37

Weight (kDa)

5.72

Isoelectric Point (pI)

49.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 9 - 78 1e-20 RNA recognition motif
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)
AanI TTATAA 1 cut(s) 1014
AccB1I GGYRCC 1 cut(s) 92
AccBSI CCGCTC 1 cut(s) 451
AccI GTMKAC 1 cut(s) 27
AccII CGCG 1 cut(s) 420
AciI CCGC 6 cut(s) 36, 319, 420, 451, 454, 718
AclWI GGATC 1 cut(s) 807
AcuI CTGAAG 1 cut(s) 1031
AcyI GRCGYC 2 cut(s) 93, 186
AfaI GTAC 2 cut(s) 431, 628
AfiI CCNNNNNNNGG 2 cut(s) 604, 822
AgsI TTSAA 8 cut(s) 689, 729, 771, 784, 809, 830, 838, 1061
AjnI CCWGG 1 cut(s) 1110
AluBI AGCT 5 cut(s) 21, 342, 757, 919, 982
AluI AGCT 5 cut(s) 21, 342, 757, 919, 982
Alw21I GWGCWC 1 cut(s) 23
Alw26I GTCTC 1 cut(s) 839
AlwI GGATC 1 cut(s) 807
AlwNI CAGNNNCTG 1 cut(s) 1054
AoxI GGCC 1 cut(s) 37
ApeKI GCWGC 1 cut(s) 588
AspLEI GCGC 2 cut(s) 95, 420
AspS9I GGNCC 1 cut(s) 658
AsuHPI GGTGA 2 cut(s) 241, 568
AvaII GGWCC 1 cut(s) 658
BaeI ACNNNNGTAYC 2 cut(s) 481, 514
BanI GGYRCC 1 cut(s) 92
BanII GRGCYC 1 cut(s) 23
BbsI GAAGAC 1 cut(s) 70
Bbv12I GWGCWC 1 cut(s) 23
BbvI GCAGC 1 cut(s) 600
BccI CCATC 8 cut(s) 197, 212, 364, 406, 476, 649, 850, 872
BceAI ACGGC 5 cut(s) 80, 89, 106, 163, 220
BciT130I CCWGG 1 cut(s) 1112
BciVI GTATCC 2 cut(s) 482, 1096
BclI TGATCA 2 cut(s) 601, 787
BcoDI GTCTC 1 cut(s) 839
BfoI RGCGCY 1 cut(s) 96
BfuI GTATCC 2 cut(s) 482, 1096
BisI GCNGC 4 cut(s) 37, 421, 452, 589
BlsI GCNGC 4 cut(s) 38, 422, 453, 590
Bme1390I CCNGG 1 cut(s) 1112
Bme18I GGWCC 1 cut(s) 658
BmgT120I GGNCC 1 cut(s) 658
BmiI GGNNCC 2 cut(s) 94, 596
BmrFI CCNGG 1 cut(s) 1112
BmsI GCATC 3 cut(s) 40, 916, 1041
BpiI GAAGAC 1 cut(s) 70
BplI GAGNNNNNCTC 2 cut(s) 518, 550
BpmI CTGGAG 1 cut(s) 941
BpuEI CTTGAG 2 cut(s) 533, 1117
BsaBI GATNNNNATC 2 cut(s) 543, 699
BsaHI GRCGYC 2 cut(s) 93, 186
BsaJI CCNNGG 2 cut(s) 57, 170
Bsc4I CCNNNNNNNGG 2 cut(s) 604, 822
Bse118I RCCGGY 1 cut(s) 492
Bse1I ACTGG 1 cut(s) 891
Bse8I GATNNNNATC 2 cut(s) 543, 699
BseBI CCWGG 1 cut(s) 1112
BseDI CCNNGG 2 cut(s) 57, 170
BseGI GGATG 3 cut(s) 223, 328, 931
BseJI GATNNNNATC 2 cut(s) 543, 699
BseLI CCNNNNNNNGG 2 cut(s) 604, 822
BseMII CTCAG 2 cut(s) 747, 843
BseNI ACTGG 1 cut(s) 891
BseRI GAGGAG 7 cut(s) 262, 270, 312, 352, 485, 488, 727
BseXI GCAGC 1 cut(s) 600
BseYI CCCAGC 1 cut(s) 342
Bsh1236I CGCG 1 cut(s) 420
Bsh1285I CGRYCG 4 cut(s) 9, 176, 183, 443
BshFI GGCC 1 cut(s) 39
BshNI GGYRCC 1 cut(s) 92
BsiEI CGRYCG 4 cut(s) 9, 176, 183, 443
BsiHKAI GWGCWC 1 cut(s) 23
BsiSI CCGG 2 cut(s) 316, 493
BslI CCNNNNNNNGG 2 cut(s) 604, 822
BsmAI GTCTC 1 cut(s) 839
BsnI GGCC 1 cut(s) 39
Bsp1286I GDGCHC 1 cut(s) 23
BspACI CCGC 6 cut(s) 36, 319, 420, 451, 454, 718
BspANI GGCC 1 cut(s) 39
BspCNI CTCAG 2 cut(s) 746, 844
BspFNI CGCG 1 cut(s) 420
BspLI GGNNCC 2 cut(s) 94, 596
BspPI GGATC 1 cut(s) 807
BspT107I GGYRCC 1 cut(s) 92
BsrBI CCGCTC 1 cut(s) 451
BsrFI RCCGGY 1 cut(s) 492
BsrI ACTGG 1 cut(s) 891
BssAI RCCGGY 1 cut(s) 492
BssECI CCNNGG 2 cut(s) 57, 170
BssNI GRCGYC 2 cut(s) 93, 186
Bst2UI CCWGG 1 cut(s) 1112
Bst4CI ACNGT 6 cut(s) 67, 174, 214, 631, 725, 972
Bst6I CTCTTC 2 cut(s) 611, 855
BstACI GRCGYC 2 cut(s) 93, 186
BstDEI CTNAG 3 cut(s) 733, 852, 912
BstDSI CCRYGG 1 cut(s) 170
BstF5I GGATG 3 cut(s) 223, 328, 931
BstFNI CGCG 1 cut(s) 420
BstH2I RGCGCY 1 cut(s) 96
BstHHI GCGC 2 cut(s) 95, 420
BstMAI GTCTC 1 cut(s) 839
BstMCI CGRYCG 4 cut(s) 9, 176, 183, 443
BstMWI GCNNNNNNNGC 3 cut(s) 101, 185, 594
BstNI CCWGG 1 cut(s) 1112
BstSCI CCNGG 1 cut(s) 1110
BstUI CGCG 1 cut(s) 420
BstV1I GCAGC 1 cut(s) 600
BstV2I GAAGAC 1 cut(s) 70
BstX2I RGATCY 1 cut(s) 812
BstYI RGATCY 1 cut(s) 812
BsuI GTATCC 2 cut(s) 482, 1096
BsuRI GGCC 1 cut(s) 39
BtgI CCRYGG 1 cut(s) 170
BtsCI GGATG 3 cut(s) 223, 328, 931
BtsI GCAGTG 1 cut(s) 1039
BtsIMutI CAGTG 2 cut(s) 63, 1039
CaiI CAGNNNCTG 1 cut(s) 1054
CfoI GCGC 2 cut(s) 95, 420
Cfr10I RCCGGY 1 cut(s) 492
Cfr13I GGNCC 1 cut(s) 658
CseI GACGC 1 cut(s) 194
Csp6I GTAC 2 cut(s) 430, 627
CviAII CATG 4 cut(s) 199, 365, 599, 986
CviQI GTAC 2 cut(s) 430, 627
DdeI CTNAG 3 cut(s) 733, 852, 912
DinI GGCGCC 1 cut(s) 94
Eam1104I CTCTTC 2 cut(s) 611, 855
EarI CTCTTC 2 cut(s) 611, 855
EciI GGCGGA 1 cut(s) 733
Ecl136II GAGCTC 1 cut(s) 21
Eco24I GRGCYC 1 cut(s) 23
Eco47I GGWCC 1 cut(s) 658
Eco53kI GAGCTC 1 cut(s) 21
Eco57I CTGAAG 1 cut(s) 1031
EcoICRI GAGCTC 1 cut(s) 21
EcoRII CCWGG 1 cut(s) 1110
EcoT22I ATGCAT 1 cut(s) 931
EcoT38I GRGCYC 1 cut(s) 23
EgeI GGCGCC 1 cut(s) 94
EheI GGCGCC 1 cut(s) 94
FaeI CATG 4 cut(s) 202, 368, 602, 989
FalI AAGNNNNNCTT 4 cut(s) 789, 821, 1029, 1061
FatI CATG 4 cut(s) 198, 364, 598, 985
FauI CCCGC 1 cut(s) 312
FbaI TGATCA 2 cut(s) 601, 787
FblI GTMKAC 1 cut(s) 27
Fnu4HI GCNGC 4 cut(s) 37, 421, 452, 589
FokI GGATG 3 cut(s) 230, 335, 938
FriOI GRGCYC 1 cut(s) 23
Fsp4HI GCNGC 4 cut(s) 37, 421, 452, 589
GlaI GCGC 2 cut(s) 94, 419
GluI GCNGC 4 cut(s) 37, 421, 452, 589
GsaI CCCAGC 1 cut(s) 346
GsuI CTGGAG 1 cut(s) 941
HaeII RGCGCY 1 cut(s) 96
HaeIII GGCC 1 cut(s) 39
HapII CCGG 2 cut(s) 316, 493
HgaI GACGC 1 cut(s) 194
HhaI GCGC 2 cut(s) 95, 420
Hin1I GRCGYC 2 cut(s) 93, 186
Hin1II CATG 4 cut(s) 202, 368, 602, 989
Hin6I GCGC 2 cut(s) 93, 418
HinP1I GCGC 2 cut(s) 93, 418
HincII GTYRAC 1 cut(s) 975
HindII GTYRAC 1 cut(s) 975
HinfI GANTC 3 cut(s) 75, 166, 635
HpaII CCGG 2 cut(s) 316, 493
HphI GGTGA 2 cut(s) 241, 568
Hpy166II GTNNAC 3 cut(s) 28, 170, 975
Hpy188I TCNGA 5 cut(s) 165, 538, 822, 853, 1050
Hpy188III TCNNGA 2 cut(s) 328, 512
Hpy8I GTNNAC 3 cut(s) 28, 170, 975
Hpy99I CGWCG 6 cut(s) 14, 17, 35, 101, 104, 188
HpyAV CCTTC 1 cut(s) 958
HpyCH4III ACNGT 6 cut(s) 67, 174, 214, 631, 725, 972
HpyCH4IV ACGT 2 cut(s) 30, 158
HpyCH4V TGCA 3 cut(s) 929, 941, 1000
HpyF10VI GCNNNNNNNGC 3 cut(s) 101, 185, 594
HpyF3I CTNAG 3 cut(s) 733, 852, 912
HpySE526I ACGT 2 cut(s) 30, 158
Hsp92I GRCGYC 2 cut(s) 93, 186
Hsp92II CATG 4 cut(s) 202, 368, 602, 989
HspAI GCGC 2 cut(s) 93, 418
KasI GGCGCC 1 cut(s) 92
Ksp22I TGATCA 2 cut(s) 601, 787
LmnI GCTCC 8 cut(s) 26, 339, 361, 415, 448, 594, 667, 754
Lsp1109I GCAGC 1 cut(s) 600
LweI GCATC 3 cut(s) 40, 916, 1041
MaeII ACGT 2 cut(s) 30, 158
MaeIII GTNAC 1 cut(s) 154
MbiI CCGCTC 1 cut(s) 451
MboII GAAGA 9 cut(s) 70, 581, 628, 842, 872, 884, 958, 1049, 1088
MflI RGATCY 1 cut(s) 812
MhlI GDGCHC 1 cut(s) 23
MluCI AATT 2 cut(s) 530, 833
Mly113I GGCGCC 1 cut(s) 93
MlyI GAGTC 2 cut(s) 84, 175
Mph1103I ATGCAT 1 cut(s) 931
MseI TTAA 1 cut(s) 108
MslI CAYNNNNRTG 2 cut(s) 675, 771
MspI CCGG 2 cut(s) 316, 493
MspR9I CCNGG 1 cut(s) 1112
MvaI CCWGG 1 cut(s) 1112
MvnI CGCG 1 cut(s) 420
MwoI GCNNNNNNNGC 3 cut(s) 101, 185, 594
NarI GGCGCC 1 cut(s) 93
NlaIII CATG 4 cut(s) 202, 368, 602, 989
NlaIV GGNNCC 2 cut(s) 94, 596
NmeAIII GCCGAG 1 cut(s) 98
NsiI ATGCAT 1 cut(s) 931
PcsI WCGNNNNNNNCGW 4 cut(s) 21, 54, 96, 192
PfeI GAWTC 1 cut(s) 635
PkrI GCNGC 4 cut(s) 38, 422, 453, 590
Ple19I CGATCG 2 cut(s) 9, 183
PleI GAGTC 2 cut(s) 83, 174
PluTI GGCGCC 1 cut(s) 96
PpsI GAGTC 2 cut(s) 83, 174
PsiI TTATAA 1 cut(s) 1014
Psp124BI GAGCTC 1 cut(s) 23
Psp6I CCWGG 1 cut(s) 1110
PspFI CCCAGC 1 cut(s) 342
PspGI CCWGG 1 cut(s) 1110
PspN4I GGNNCC 2 cut(s) 94, 596
PspPI GGNCC 1 cut(s) 658
PstNI CAGNNNCTG 1 cut(s) 1054
PsuI RGATCY 1 cut(s) 812
PvuI CGATCG 2 cut(s) 9, 183
RsaI GTAC 2 cut(s) 431, 628
RsaNI GTAC 2 cut(s) 430, 627
RseI CAYNNNNRTG 2 cut(s) 675, 771
SacI GAGCTC 1 cut(s) 23
SaqAI TTAA 1 cut(s) 108
SatI GCNGC 4 cut(s) 37, 421, 452, 589
Sau96I GGNCC 1 cut(s) 658
SchI GAGTC 2 cut(s) 84, 175
ScrFI CCNGG 1 cut(s) 1112
SduI GDGCHC 1 cut(s) 23
SfaNI GCATC 3 cut(s) 40, 916, 1041
SfoI GGCGCC 1 cut(s) 94
SinI GGWCC 1 cut(s) 658
SmiMI CAYNNNNRTG 2 cut(s) 675, 771
SmlI CTYRAG 2 cut(s) 512, 1096
SmoI CTYRAG 2 cut(s) 512, 1096
Sse9I AATT 2 cut(s) 530, 833
SsiI CCGC 6 cut(s) 36, 319, 420, 451, 454, 718
SspDI GGCGCC 1 cut(s) 92
SstI GAGCTC 1 cut(s) 23
StyD4I CCNGG 1 cut(s) 1110
TaaI ACNGT 6 cut(s) 67, 174, 214, 631, 725, 972
TaiI ACGT 2 cut(s) 33, 161
TaqI TCGA 8 cut(s) 9, 81, 183, 327, 410, 443, 710, 738
TaqII GACCGA 2 cut(s) 429, 675
TasI AATT 2 cut(s) 530, 833
TauI GCSGC 3 cut(s) 39, 423, 454
TfiI GAWTC 1 cut(s) 635
Tru1I TTAA 1 cut(s) 108
Tru9I TTAA 1 cut(s) 108
TscAI CASTG 2 cut(s) 70, 1039
TseI GCWGC 1 cut(s) 588
TspDTI ATGAA 2 cut(s) 255, 1056
TspGWI ACGGA 2 cut(s) 13, 680
TspRI CASTG 2 cut(s) 70, 1039
VpaK11BI GGWCC 1 cut(s) 658
XcmI CCANNNNNNNNNTGG 1 cut(s) 196
XmiI GTMKAC 1 cut(s) 27
Zsp2I ATGCAT 1 cut(s) 931
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.