FvH4_3g19840

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0011251
Physical Location & Seq
Reverse (-)
12999652 .. 13005260
5609 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g19840.t1

Sequence Viewer

Length: 1203 bp
ATGGCTGCCACCAGTTTCATAGCAGCGTCACTTCTCAGAAGGGCAACTCTGCCTCTGGGTTCTGCTCTCTCGCATCCTCTCAAAACCAACAACCTCTCTCACCACACCACCCTCCTCACACCTCCTCTCACTCCTCGTTTGACTTCTTCAGCTTCAGGATTATGCCATTTGGCACAAGCTGTAAAGGGTGATGTTGCCGAGTTACTTAAAAGTGTTGGAGACAAAACTGTTATTGAAGAAGTGAAGCGTATTCTTGAGATGGCTAGACGTGCATCATCAAGAAGAGAAGTTCTCCATACGAACTTTCTCACCCCTCCGGTGATAAAGGAGTCAATGCTAGCATTGATGAAGCTAGCTGATTTGAAAGCAGTTTCTCAGGGTGGATACCCGCAGGCTGAGCGTTGCCGGATTTCTGTTGGACATCCAGAAGTATTGACAAGTGATCCTGATATTATTGCAGCATTGAGTATCACAGGAAACTTTGGGTTCCAACCTTGTTCTCATGGAGACTTCCTAGGAACGATTCTTGGTACAGGGATTGCTAGGGAGAAGGTTGGAGATGTCATCTTACAGGGGGAGAAGGGTGCTCAAGTCATTATTGTTCCAGAACTCATTGACTTTCTTATGACATCACTTGACAAGGTTGGTAATGTTCCAGTATCTGTTACTAAGATACCATTGATCTCCATTGATTACGAACCACCAAGTACTAAGTCGTTCAAAACTATAGAAGCATCAGCGAGGATTGATGCTATAGCTAGTGCAGGATTTAAAATTTCACGGTCGAAGCTAGTTGACCTGATCCGTGATGGGGATGTGCGCCTCAATTGGACCCCTGTTACTAAAAATGGAGCTACACTGAAGGCTGGTGATATTGTATCTGTAAGAGGAAAAGGAAGACTGAAGATAGGAGAAATTAACACTACACGGAAGGGGAAGTTTGCAATAGAGCTCATTCGTTATTTGATAATCAAACTTAATATGGGAGCCGAGTCTGTGTCTATTATGAATTTTTGGTCAGGATTACAGGGACATGAAACCGGACCAGAACAGTCGGACAAGGAAGTACCCGGTGCCCACCGGTATCCCCACACTGGGGAGTCCATGCACTTACAAAAACGTAGGCTGCTCAGATCAATAGTCTTCTGCTCTTGTCGTCTTTACTCACATCGCCACACTTTCTGCCGCCTGCTAGGTTTTTGA
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
S4

Protein Analysis

401

Amino Acids

43.52

Weight (kDa)

9.63

Isoelectric Point (pI)

29.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YlmH_RBD PF17774 154 - 227 2.5e-13 Putative RNA-binding domain in YlmH
S4 PF01479 248 - 293 2.1e-07 S4 domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011251)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G53120 AT1G53120
fragaria_vesca FvH4_3g19840
malus_domestica MD11G1248800.v1.1 MD11G1252400.v1.1
prunus_persica Prupe.4G180500_v2.0.a1
pyrus_communis pycom11g22390
rosa_chinensis RchiOBHm_Chr5g0033281
rosa_laevigata RLG00000033463
rosa_multiflora Rmu_sc0009715.1_g000003
rosa_roxburghii Rroxscaffold_1G00015440 Rroxscaffold_1G00046700
rosa_rugosa Rorug05G0139000 Rorug05G0139100 Rorug05G0250800
rosa_samantha Rh5AG230500 Rh5BG231400 Rh5CG259400 Rh5DG236600
rosa_wichuraiana Rw5G021070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1073
AciI CCGC 2 cut(s) 389, 1186
AclWI GGATC 2 cut(s) 437, 796
AcsI RAATTY 2 cut(s) 774, 1009
AcuI CTGAAG 4 cut(s) 132, 138, 881, 923
AfaI GTAC 3 cut(s) 532, 709, 1068
AfiI CCNNNNNNNGG 4 cut(s) 811, 1094, 1095, 1096
AgeI ACCGGT 1 cut(s) 1080
AgsI TTSAA 3 cut(s) 236, 364, 721
AjiI CACGTC 1 cut(s) 269
AluBI AGCT 8 cut(s) 152, 179, 352, 356, 758, 790, 854, 952
AluI AGCT 8 cut(s) 152, 179, 352, 356, 758, 790, 854, 952
Alw21I GWGCWC 2 cut(s) 589, 954
Alw26I GTCTC 2 cut(s) 213, 501
AlwI GGATC 2 cut(s) 437, 796
AlwNI CAGNNNCTG 1 cut(s) 662
ApeKI GCWGC 4 cut(s) 5, 23, 458, 1126
ApoI RAATTY 2 cut(s) 774, 1009
AsiGI ACCGGT 1 cut(s) 1080
AspA2I CCTAGG 1 cut(s) 514
AspLEI GCGC 1 cut(s) 822
AspS9I GGNCC 2 cut(s) 831, 1043
AsuC2I CCSGG 1 cut(s) 1071
AsuHPI GGTGA 5 cut(s) 92, 200, 301, 331, 881
AsuNHI GCTAGC 2 cut(s) 337, 352
AvaII GGWCC 2 cut(s) 831, 1043
AvrII CCTAGG 1 cut(s) 514
BaeGI GKGCMC 1 cut(s) 1078
BanI GGYRCC 1 cut(s) 1073
BanII GRGCYC 1 cut(s) 954
BbsI GAAGAC 2 cut(s) 904, 1135
Bbv12I GWGCWC 2 cut(s) 589, 954
BbvI GCAGC 3 cut(s) 35, 470, 1113
BccI CCATC 2 cut(s) 253, 803
BciVI GTATCC 2 cut(s) 377, 1095
BcnI CCSGG 1 cut(s) 1071
BcoDI GTCTC 2 cut(s) 213, 501
BfaI CTAG 8 cut(s) 264, 338, 353, 515, 543, 759, 791, 1193
BfmI CTRYAG 2 cut(s) 726, 753
BfuI GTATCC 2 cut(s) 377, 1095
BisI GCNGC 5 cut(s) 6, 24, 459, 1127, 1186
BlnI CCTAGG 1 cut(s) 514
BlpI GCTNAGC 1 cut(s) 396
BlsI GCNGC 5 cut(s) 7, 25, 460, 1128, 1187
BmcAI AGTACT 1 cut(s) 709
Bme1390I CCNGG 1 cut(s) 1071
Bme18I GGWCC 2 cut(s) 831, 1043
BmgBI CACGTC 1 cut(s) 269
BmgT120I GGNCC 2 cut(s) 831, 1043
BmiI GGNNCC 4 cut(s) 488, 833, 988, 1075
BmrFI CCNGG 1 cut(s) 1071
BmrI ACTGGG 1 cut(s) 1104
BmsI GCATC 4 cut(s) 82, 281, 739, 743
BmtI GCTAGC 2 cut(s) 341, 356
BmuI ACTGGG 1 cut(s) 1104
BpiI GAAGAC 2 cut(s) 904, 1135
BplI GAGNNNNNCTC 2 cut(s) 276, 308
Bpu1102I GCTNAGC 1 cut(s) 396
BpuEI CTTGAG 2 cut(s) 275, 573
BpuMI CCSGG 1 cut(s) 1071
BsaJI CCNNGG 1 cut(s) 514
BsaWI WCCGGW 3 cut(s) 316, 1040, 1080
Bsc4I CCNNNNNNNGG 4 cut(s) 811, 1094, 1095, 1096
Bse118I RCCGGY 1 cut(s) 1080
Bse1I ACTGG 3 cut(s) 12, 656, 1099
BseDI CCNNGG 1 cut(s) 514
BseGI GGATG 3 cut(s) 73, 421, 820
BseLI CCNNNNNNNGG 4 cut(s) 811, 1094, 1095, 1096
BseMII CTCAG 4 cut(s) 49, 387, 389, 1144
BseNI ACTGG 3 cut(s) 12, 656, 1099
BseRI GAGGAG 3 cut(s) 104, 114, 123
BseSI GKGCMC 1 cut(s) 1078
BseXI GCAGC 3 cut(s) 35, 470, 1113
BsgI GTGCAG 1 cut(s) 783
Bsh1285I CGRYCG 1 cut(s) 785
BshNI GGYRCC 1 cut(s) 1073
BshTI ACCGGT 1 cut(s) 1080
BsiEI CGRYCG 1 cut(s) 785
BsiHKAI GWGCWC 2 cut(s) 589, 954
BsiSI CCGG 5 cut(s) 317, 406, 1041, 1071, 1081
BslFI GGGAC 1 cut(s) 1044
BslI CCNNNNNNNGG 4 cut(s) 811, 1094, 1095, 1096
BsmAI GTCTC 2 cut(s) 213, 501
BsmFI GGGAC 1 cut(s) 1044
Bsp1286I GDGCHC 3 cut(s) 589, 954, 1078
Bsp143I GATC 4 cut(s) 442, 681, 801, 1133
Bsp1720I GCTNAGC 1 cut(s) 396
BspACI CCGC 2 cut(s) 389, 1186
BspCNI CTCAG 4 cut(s) 48, 388, 388, 1143
BspLI GGNNCC 4 cut(s) 488, 833, 988, 1075
BspOI GCTAGC 2 cut(s) 341, 356
BspPI GGATC 2 cut(s) 437, 796
BspT107I GGYRCC 1 cut(s) 1073
BsrFI RCCGGY 1 cut(s) 1080
BsrI ACTGG 3 cut(s) 12, 656, 1099
BssAI RCCGGY 1 cut(s) 1080
BssECI CCNNGG 1 cut(s) 514
BssMI GATC 4 cut(s) 442, 681, 801, 1133
BssT1I CCWWGG 1 cut(s) 514
Bst4CI ACNGT 3 cut(s) 229, 783, 1053
Bst6I CTCTTC 1 cut(s) 277
BstC8I GCNNGC 4 cut(s) 339, 354, 393, 1190
BstDEI CTNAG 6 cut(s) 35, 375, 396, 669, 711, 1130
BstF5I GGATG 3 cut(s) 73, 421, 820
BstHHI GCGC 1 cut(s) 822
BstKTI GATC 4 cut(s) 445, 684, 804, 1136
BstMAI GTCTC 2 cut(s) 213, 501
BstMBI GATC 4 cut(s) 442, 681, 801, 1133
BstMCI CGRYCG 1 cut(s) 785
BstMWI GCNNNNNNNGC 2 cut(s) 269, 397
BstSCI CCNGG 1 cut(s) 1069
BstSFI CTRYAG 2 cut(s) 726, 753
BstSLI GKGCMC 1 cut(s) 1078
BstV1I GCAGC 3 cut(s) 35, 470, 1113
BstV2I GAAGAC 2 cut(s) 904, 1135
BsuI GTATCC 2 cut(s) 377, 1095
BtgZI GCGATG 1 cut(s) 1154
BtrI CACGTC 1 cut(s) 269
BtsCI GGATG 3 cut(s) 73, 421, 820
BtsIMutI CAGTG 2 cut(s) 857, 1092
Cac8I GCNNGC 4 cut(s) 339, 354, 393, 1190
CaiI CAGNNNCTG 1 cut(s) 662
CfoI GCGC 1 cut(s) 822
Cfr10I RCCGGY 1 cut(s) 1080
Cfr13I GGNCC 2 cut(s) 831, 1043
CseI GACGC 1 cut(s) 15
Csp6I GTAC 3 cut(s) 531, 708, 1067
CspAI ACCGGT 1 cut(s) 1080
CviAII CATG 3 cut(s) 503, 1034, 1105
CviQI GTAC 3 cut(s) 531, 708, 1067
DdeI CTNAG 6 cut(s) 35, 375, 396, 669, 711, 1130
DpnI GATC 4 cut(s) 444, 683, 803, 1135
DpnII GATC 4 cut(s) 442, 681, 801, 1133
DraI TTTAAA 1 cut(s) 772
Eam1104I CTCTTC 1 cut(s) 277
EarI CTCTTC 1 cut(s) 277
Ecl136II GAGCTC 1 cut(s) 952
Eco130I CCWWGG 1 cut(s) 514
Eco24I GRGCYC 1 cut(s) 954
Eco47I GGWCC 2 cut(s) 831, 1043
Eco53kI GAGCTC 1 cut(s) 952
Eco57I CTGAAG 4 cut(s) 132, 138, 881, 923
EcoICRI GAGCTC 1 cut(s) 952
EcoT14I CCWWGG 1 cut(s) 514
EcoT38I GRGCYC 1 cut(s) 954
ErhI CCWWGG 1 cut(s) 514
FaeI CATG 3 cut(s) 506, 1037, 1108
FaqI GGGAC 1 cut(s) 1044
FatI CATG 3 cut(s) 502, 1033, 1104
FauI CCCGC 1 cut(s) 396
Fnu4HI GCNGC 5 cut(s) 6, 24, 459, 1127, 1186
FokI GGATG 3 cut(s) 60, 408, 827
FriOI GRGCYC 1 cut(s) 954
Fsp4HI GCNGC 5 cut(s) 6, 24, 459, 1127, 1186
FspBI CTAG 8 cut(s) 264, 338, 353, 515, 543, 759, 791, 1193
GlaI GCGC 1 cut(s) 821
GluI GCNGC 5 cut(s) 6, 24, 459, 1127, 1186
HapII CCGG 5 cut(s) 317, 406, 1041, 1071, 1081
HgaI GACGC 1 cut(s) 15
HhaI GCGC 1 cut(s) 822
Hin1II CATG 3 cut(s) 506, 1037, 1108
Hin6I GCGC 1 cut(s) 820
HinP1I GCGC 1 cut(s) 820
HincII GTYRAC 1 cut(s) 796
HindII GTYRAC 1 cut(s) 796
HinfI GANTC 4 cut(s) 329, 523, 992, 1100
HpaII CCGG 5 cut(s) 317, 406, 1041, 1071, 1081
HphI GGTGA 5 cut(s) 92, 200, 301, 331, 881
Hpy166II GTNNAC 1 cut(s) 796
Hpy188I TCNGA 3 cut(s) 38, 1057, 1133
Hpy188III TCNNGA 7 cut(s) 156, 254, 279, 425, 446, 605, 1020
Hpy8I GTNNAC 1 cut(s) 796
HpyAV CCTTC 5 cut(s) 33, 544, 574, 856, 925
HpyCH4III ACNGT 3 cut(s) 229, 783, 1053
HpyCH4IV ACGT 2 cut(s) 268, 1120
HpyCH4V TGCA 5 cut(s) 272, 458, 764, 944, 1108
HpyF10VI GCNNNNNNNGC 2 cut(s) 269, 397
HpyF3I CTNAG 6 cut(s) 35, 375, 396, 669, 711, 1130
HpySE526I ACGT 2 cut(s) 268, 1120
Hsp92II CATG 3 cut(s) 506, 1037, 1108
HspAI GCGC 1 cut(s) 820
Kzo9I GATC 4 cut(s) 442, 681, 801, 1133
LmnI GCTCC 2 cut(s) 851, 986
Lsp1109I GCAGC 3 cut(s) 35, 470, 1113
LweI GCATC 4 cut(s) 82, 281, 739, 743
MaeI CTAG 8 cut(s) 264, 338, 353, 515, 543, 759, 791, 1193
MaeII ACGT 2 cut(s) 268, 1120
MaeIII GTNAC 4 cut(s) 27, 201, 664, 838
MalI GATC 4 cut(s) 444, 683, 803, 1135
MboI GATC 4 cut(s) 442, 681, 801, 1133
MboII GAAGA 6 cut(s) 138, 248, 294, 909, 916, 1135
MfeI CAATTG 1 cut(s) 826
MhlI GDGCHC 3 cut(s) 589, 954, 1078
MluCI AATT 4 cut(s) 774, 826, 915, 1009
MlyI GAGTC 3 cut(s) 338, 1001, 1109
MmeI TCCRAC 5 cut(s) 196, 397, 514, 535, 1035
MseI TTAA 4 cut(s) 207, 771, 918, 978
MspI CCGG 5 cut(s) 317, 406, 1041, 1071, 1081
MspR9I CCNGG 1 cut(s) 1071
MunI CAATTG 1 cut(s) 826
MwoI GCNNNNNNNGC 2 cut(s) 269, 397
NciI CCSGG 1 cut(s) 1071
NdeII GATC 4 cut(s) 442, 681, 801, 1133
NheI GCTAGC 2 cut(s) 337, 352
NlaIII CATG 3 cut(s) 506, 1037, 1108
NlaIV GGNNCC 4 cut(s) 488, 833, 988, 1075
NmeAIII GCCGAG 2 cut(s) 223, 1015
NmuCI GTSAC 1 cut(s) 27
PfeI GAWTC 1 cut(s) 523
PinAI ACCGGT 1 cut(s) 1080
PkrI GCNGC 5 cut(s) 7, 25, 460, 1128, 1187
PleI GAGTC 3 cut(s) 337, 1000, 1108
PpsI GAGTC 3 cut(s) 337, 1000, 1108
Psp124BI GAGCTC 1 cut(s) 954
PspN4I GGNNCC 4 cut(s) 488, 833, 988, 1075
PspPI GGNCC 2 cut(s) 831, 1043
PstNI CAGNNNCTG 1 cut(s) 662
RsaI GTAC 3 cut(s) 532, 709, 1068
RsaNI GTAC 3 cut(s) 531, 708, 1067
SacI GAGCTC 1 cut(s) 954
SaqAI TTAA 4 cut(s) 207, 771, 918, 978
SatI GCNGC 5 cut(s) 6, 24, 459, 1127, 1186
Sau3AI GATC 4 cut(s) 442, 681, 801, 1133
Sau96I GGNCC 2 cut(s) 831, 1043
ScaI AGTACT 1 cut(s) 709
SchI GAGTC 3 cut(s) 338, 1001, 1109
ScrFI CCNGG 1 cut(s) 1071
SduI GDGCHC 3 cut(s) 589, 954, 1078
SfaNI GCATC 4 cut(s) 82, 281, 739, 743
SfcI CTRYAG 2 cut(s) 726, 753
SinI GGWCC 2 cut(s) 831, 1043
SmlI CTYRAG 2 cut(s) 254, 588
SmoI CTYRAG 2 cut(s) 254, 588
Sse9I AATT 4 cut(s) 774, 826, 915, 1009
SsiI CCGC 2 cut(s) 389, 1186
SspMI CTAG 8 cut(s) 264, 338, 353, 515, 543, 759, 791, 1193
SstI GAGCTC 1 cut(s) 954
StyD4I CCNGG 1 cut(s) 1069
StyI CCWWGG 1 cut(s) 514
TaaI ACNGT 3 cut(s) 229, 783, 1053
TaiI ACGT 2 cut(s) 271, 1123
TaqI TCGA 1 cut(s) 785
TasI AATT 4 cut(s) 774, 826, 915, 1009
TatI WGTACW 1 cut(s) 707
TauI GCSGC 1 cut(s) 1188
TfiI GAWTC 1 cut(s) 523
Tru1I TTAA 4 cut(s) 207, 771, 918, 978
Tru9I TTAA 4 cut(s) 207, 771, 918, 978
TscAI CASTG 2 cut(s) 864, 1099
TseFI GTSAC 1 cut(s) 27
TseI GCWGC 4 cut(s) 5, 23, 458, 1126
Tsp45I GTSAC 1 cut(s) 27
TspDTI ATGAA 4 cut(s) 7, 362, 1022, 1050
TspGWI ACGGA 2 cut(s) 794, 943
TspRI CASTG 2 cut(s) 864, 1099
VpaK11BI GGWCC 2 cut(s) 831, 1043
XapI RAATTY 2 cut(s) 774, 1009
XmaJI CCTAGG 1 cut(s) 514
XspI CTAG 8 cut(s) 264, 338, 353, 515, 543, 759, 791, 1193
ZrmI AGTACT 1 cut(s) 709
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.