FvH4_4g10290

U5 small nuclear ribonucleoprotein 40

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0012055
Physical Location & Seq
Reverse (-)
13757509 .. 13760513
3005 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g10290.t2

Sequence Viewer

Length: 1035 bp
ATGATGCAGTTTGCTCCGAGCGAGGGTGAAAATGCTTTGTCTGTAGTTGGTCCTAGGCCAATGGATTTGTTTACATATACTGCTCGCCCTGCACCTGGACCTAATGGAAAACAAAGGACTTCAAGTTTGGAGGCACCAATCATGCTGCTGACAGGTCATCAAAGTGCTATATACACGATGAAATTTAACCCTGCTGGAACAGTAATAGCATCGGGGTCTCATGACAAGGAAATTTTCTTATGGAATGTTCATGGGGAATGCAAAAACTTCATGGTTTTGAAGGGGCACAAGAATGCTGTGTTGGATCTTCACTGGACAACTGATGGGTCTCAGATAGTATCAGCCAGTCCAGACAAAACTGTGGGCGCATGGGATGTTGAAACAGGAAAAAGAATTAAAAAGATGGCAGAACACTCTTCATTTGTGAATTCTTGTCATCCTGCTCGGAGAGGTCCACCTCTTGTTGTCAGTGGATCTGATGATGGAACTGCGAAACTATGGGATATGCGTGTGAGGGGTGCCATCCAAACATATCCTGATAAATACCAAATCACAGCTGTCAGCTTCTCGGATGCATCGGATAAAATCTTTACAGGAGGTATTGACAATGATCTCAAGGTTTGGGACTTGCGCAAGGCTGAAGTACTGATGACACTTCAAGGACATCAAGATATGATAACAGGTATGTCACTGAGTCCTGATGGCTCTTATCTTCTGACTAATGGAATGGACTGCAAACTCTGCATTTGGGATATGCGCCCGTATGCACCACAAAATCGTTGTGTGAAGATAATGGAAGGGCACCAACACAACTTTGAAAAGAACTTGTTGAAATGTAGCTGGTCACCTGATGGAAGCAAGGTCACGGCTGGCAGTTCTGATAGGATGGTCTACATATGGGATACTACTTCTCGACGCATCTTGTTTATGCTGCCAGGCCACACTGGATCCGTCAATGAGTCTGTCTTCCACCCCAACGAACCCATTATTGGATCTTGCAGTAGTGATAAGCAAATGTATCTGGGAGAAATCTGA

Protein Analysis

345

Amino Acids

38.0

Weight (kDa)

6.86

Isoelectric Point (pI)

32.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_Aladin PF25460 64 - 153 1.5e-06 Aladin seven-bladed propeller
WD40 PF00400 71 - 107 4.9e-08 WD domain, G-beta repeat
EIF3I PF24805 71 - 278 1.8e-21 EIF3I
Beta-prop_TEP1_2nd PF25047 71 - 170 7.5e-15 TEP-1 second beta-propeller
Beta-prop_WDR3_1st PF25173 72 - 194 7.4e-28 WDR3 first beta-propeller domain
WD40_Prp19 PF24814 74 - 245 5.6e-25 Prp19 WD40 domain
WD40_WDHD1_1st PF24817 75 - 162 2.4e-11 WDHD1 first WD40 domain
WD40_CDC20-Fz PF24807 75 - 275 4.7e-29 CDC20/Fizzy WD40 domain
Beta-prop_CAF1B_HIR1 PF24105 75 - 194 6.3e-15 CAF1B/HIR1 beta-propeller domain
Beta-prop_WDR5 PF25175 75 - 362 7.4e-62 WDR5 beta-propeller domain
Beta-prop_WDR36-Utp21_1st PF25171 76 - 189 4.5e-08 WDR36/Utp21 first beta-propeller
Beta-prop_EML_2 PF23414 76 - 162 6.9e-15 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_EML PF23409 78 - 160 5e-06 Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_THOC3 PF25174 78 - 294 5.8e-41 THOC3 beta-propeller domain
WDR55 PF24796 79 - 203 2.8e-18 WDR55
WD40_MABP1-WDR62_2nd PF24782 79 - 192 1.4e-06 MABP1/WDR62 second WD40 domain
Beta-prop_WDR41 PF25178 92 - 171 6.5e-07 WDR41
Beta-prop_WDR3_2nd PF25172 112 - 201 7.5e-08 WDR3 second beta-propeller domain
WD40_Prp19 PF24814 170 - 364 2.1e-26 Prp19 WD40 domain
Beta-prop_EML_2 PF23414 178 - 288 4.9e-11 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_2nd PF25172 179 - 276 1.5e-12 WDR3 second beta-propeller domain
Beta-prop_WDR36-Utp21_2nd PF25168 179 - 278 2.5e-10 WDR36/Utp21 second beta-propeller domain
Beta-prop_WDR3_1st PF25173 180 - 296 6.5e-19 WDR3 first beta-propeller domain
Beta-prop_WDR36-Utp21_1st PF25171 180 - 290 8.8e-09 WDR36/Utp21 first beta-propeller
Beta-prop_WDR90_POC16_2nd PF23393 182 - 278 6.7e-08 WDR90/POC16, second beta-propeller
Beta-prop_EML PF23409 207 - 362 3.9e-09 Echinoderm microtubule-associated protein first beta-propeller
WD40_WDHD1_1st PF24817 208 - 308 1.1e-11 WDHD1 first WD40 domain
Beta-prop_CAF1B_HIR1 PF24105 209 - 278 1.8e-08 CAF1B/HIR1 beta-propeller domain
Beta-prop_SCAP PF24017 215 - 327 3.6e-06 SCAP Beta-propeller
EIF3I PF24805 218 - 366 2.2e-08 EIF3I
WDR55 PF24796 218 - 345 5.5e-12 WDR55
WD40 PF00400 240 - 276 1.9e-08 WD domain, G-beta repeat
Beta-prop_TEP1_2nd PF25047 241 - 352 1.6e-11 TEP-1 second beta-propeller
Beta-prop_Aladin PF25460 243 - 329 7.1e-06 Aladin seven-bladed propeller
WD40 PF00400 285 - 326 1.4e-06 WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1 PF24105 286 - 365 1.8e-07 CAF1B/HIR1 beta-propeller domain
Beta-prop_WDR3_1st PF25173 288 - 364 1.1e-10 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 301 - 364 2.9e-09 THOC3 beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012055)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G43770
fragaria_vesca FvH4_4g10290 FvH4_4g10290 FvH4_4g10290 FvH4_4g10290 FvH4_4g10290
malus_domestica MD16G1243600.v1.1
prunus_persica Prupe.1G071000_v2.0.a1
pyrus_communis pycom16g20470
rosa_chinensis RchiOBHm_Chr4g0405641
rosa_laevigata RLG00000008830
rosa_multiflora Rmu_sc0001200.1_g000049
rosa_roxburghii Rroxscaffold_5G00350120
rosa_rugosa Rorug04G0061600
rosa_samantha Rh4AG133000 Rh4BG128000 Rh4CG140700 Rh4DG127400
rosa_wichuraiana Rw4G010780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 632
AccB1I GGYRCC 3 cut(s) 133, 518, 801
AccI GTMKAC 1 cut(s) 891
AclWI GGATC 5 cut(s) 312, 481, 942, 955, 1000
AcsI RAATTY 3 cut(s) 182, 231, 427
AcuI CTGAAG 1 cut(s) 660
AfaI GTAC 1 cut(s) 645
AfiI CCNNNNNNNGG 3 cut(s) 23, 95, 989
AgsI TTSAA 6 cut(s) 123, 280, 380, 659, 818, 832
AjnI CCWGG 2 cut(s) 94, 934
AjuI GAANNNNNNNTTGG 4 cut(s) 284, 316, 972, 1004
AluBI AGCT 3 cut(s) 557, 564, 840
AluI AGCT 3 cut(s) 557, 564, 840
Alw26I GTCTC 2 cut(s) 222, 333
AlwI GGATC 5 cut(s) 312, 481, 942, 955, 1000
AoxI GGCC 2 cut(s) 56, 937
ApeKI GCWGC 2 cut(s) 145, 931
ApoI RAATTY 3 cut(s) 182, 231, 427
ArsI GACNNNNNNTTYG 2 cut(s) 109, 141
AspA2I CCTAGG 1 cut(s) 53
AspLEI GCGC 3 cut(s) 368, 633, 759
AspS9I GGNCC 3 cut(s) 50, 98, 452
AsuHPI GGTGA 2 cut(s) 38, 837
AvaII GGWCC 3 cut(s) 50, 98, 452
AvrII CCTAGG 1 cut(s) 53
BaeGI GKGCMC 2 cut(s) 288, 804
BamHI GGATCC 1 cut(s) 947
BanI GGYRCC 3 cut(s) 133, 518, 801
BbsI GAAGAC 1 cut(s) 958
BbvI GCAGC 2 cut(s) 132, 918
BccI CCATC 7 cut(s) 317, 397, 476, 530, 695, 845, 880
BceAI ACGGC 1 cut(s) 882
BciT130I CCWGG 2 cut(s) 96, 936
BciVI GTATCC 1 cut(s) 895
BcoDI GTCTC 2 cut(s) 222, 333
BfaI CTAG 1 cut(s) 54
BfmI CTRYAG 1 cut(s) 42
BfuI GTATCC 1 cut(s) 895
BisI GCNGC 2 cut(s) 146, 932
BlnI CCTAGG 1 cut(s) 53
BlsI GCNGC 2 cut(s) 147, 933
BmcAI AGTACT 1 cut(s) 645
Bme1390I CCNGG 2 cut(s) 96, 936
Bme18I GGWCC 3 cut(s) 50, 98, 452
BmgT120I GGNCC 3 cut(s) 50, 98, 452
BmiI GGNNCC 4 cut(s) 135, 520, 803, 949
BmrFI CCNGG 2 cut(s) 96, 936
BmsI GCATC 4 cut(s) 218, 562, 584, 927
BpiI GAAGAC 1 cut(s) 958
BpuEI CTTGAG 1 cut(s) 599
BsaI GGTCTC 2 cut(s) 222, 333
BsaJI CCNNGG 1 cut(s) 53
Bsc4I CCNNNNNNNGG 3 cut(s) 23, 95, 989
Bse1I ACTGG 3 cut(s) 317, 345, 949
BseBI CCWGG 2 cut(s) 96, 936
BseDI CCNNGG 1 cut(s) 53
BseGI GGATG 5 cut(s) 379, 436, 522, 577, 891
BseLI CCNNNNNNNGG 3 cut(s) 23, 95, 989
BseMII CTCAG 2 cut(s) 344, 683
BseNI ACTGG 3 cut(s) 317, 345, 949
BseSI GKGCMC 2 cut(s) 288, 804
BseXI GCAGC 2 cut(s) 132, 918
BsgI GTGCAG 1 cut(s) 75
BshFI GGCC 2 cut(s) 58, 939
BshNI GGYRCC 3 cut(s) 133, 518, 801
BslFI GGGAC 1 cut(s) 638
BslI CCNNNNNNNGG 3 cut(s) 23, 95, 989
BsmAI GTCTC 2 cut(s) 222, 333
BsmFI GGGAC 1 cut(s) 638
BsmI GAATGC 2 cut(s) 263, 298
BsnI GGCC 2 cut(s) 58, 939
Bso31I GGTCTC 2 cut(s) 222, 333
Bsp1286I GDGCHC 2 cut(s) 288, 804
Bsp143I GATC 5 cut(s) 304, 473, 610, 947, 992
BspANI GGCC 2 cut(s) 58, 939
BspCNI CTCAG 2 cut(s) 343, 684
BspHI TCATGA 1 cut(s) 220
BspLI GGNNCC 4 cut(s) 135, 520, 803, 949
BspPI GGATC 5 cut(s) 312, 481, 942, 955, 1000
BspT107I GGYRCC 3 cut(s) 133, 518, 801
BspTNI GGTCTC 2 cut(s) 222, 333
BsrI ACTGG 3 cut(s) 317, 345, 949
BssECI CCNNGG 1 cut(s) 53
BssMI GATC 5 cut(s) 304, 473, 610, 947, 992
BssT1I CCWWGG 1 cut(s) 53
Bst2UI CCWGG 2 cut(s) 96, 936
Bst4CI ACNGT 2 cut(s) 202, 361
Bst6I CTCTTC 1 cut(s) 421
BstAPI GCANNNNNTGC 1 cut(s) 741
BstC8I GCNNGC 2 cut(s) 85, 871
BstDEI CTNAG 2 cut(s) 330, 692
BstEII GGTNACC 1 cut(s) 843
BstF5I GGATG 5 cut(s) 379, 436, 522, 577, 891
BstHHI GCGC 3 cut(s) 368, 633, 759
BstKTI GATC 5 cut(s) 307, 476, 613, 950, 995
BstMAI GTCTC 2 cut(s) 222, 333
BstMBI GATC 5 cut(s) 304, 473, 610, 947, 992
BstMWI GCNNNNNNNGC 2 cut(s) 89, 741
BstNI CCWGG 2 cut(s) 96, 936
BstPI GGTNACC 1 cut(s) 843
BstSCI CCNGG 2 cut(s) 94, 934
BstSFI CTRYAG 1 cut(s) 42
BstSLI GKGCMC 2 cut(s) 288, 804
BstV1I GCAGC 2 cut(s) 132, 918
BstV2I GAAGAC 1 cut(s) 958
BstX2I RGATCY 4 cut(s) 304, 473, 947, 992
BstYI RGATCY 4 cut(s) 304, 473, 947, 992
BsuI GTATCC 1 cut(s) 895
BsuRI GGCC 2 cut(s) 58, 939
BtsCI GGATG 5 cut(s) 379, 436, 522, 577, 891
BtsIMutI CAGTG 4 cut(s) 310, 475, 689, 942
Cac8I GCNNGC 2 cut(s) 85, 871
CciI TCATGA 1 cut(s) 220
CfoI GCGC 3 cut(s) 368, 633, 759
Cfr13I GGNCC 3 cut(s) 50, 98, 452
CseI GACGC 1 cut(s) 924
Csp6I GTAC 1 cut(s) 644
CviAII CATG 5 cut(s) 142, 221, 251, 271, 369
CviJI RGCY 9 cut(s) 58, 344, 557, 564, 638, 705, 840, 869, 939
CviKI_1 RGCY 9 cut(s) 58, 344, 557, 564, 638, 705, 840, 869, 939
CviQI GTAC 1 cut(s) 644
DdeI CTNAG 2 cut(s) 330, 692
DpnI GATC 5 cut(s) 306, 475, 612, 949, 994
DpnII GATC 5 cut(s) 304, 473, 610, 947, 992
Eam1104I CTCTTC 1 cut(s) 421
EarI CTCTTC 1 cut(s) 421
Eco130I CCWWGG 1 cut(s) 53
Eco31I GGTCTC 2 cut(s) 222, 333
Eco47I GGWCC 3 cut(s) 50, 98, 452
Eco57I CTGAAG 1 cut(s) 660
Eco91I GGTNACC 1 cut(s) 843
EcoO65I GGTNACC 1 cut(s) 843
EcoRI GAATTC 1 cut(s) 427
EcoRII CCWGG 2 cut(s) 94, 934
EcoT14I CCWWGG 1 cut(s) 53
EcoT22I ATGCAT 1 cut(s) 577
ErhI CCWWGG 1 cut(s) 53
FaeI CATG 5 cut(s) 145, 224, 254, 274, 372
FaqI GGGAC 1 cut(s) 638
FatI CATG 5 cut(s) 141, 220, 250, 270, 368
FauNDI CATATG 1 cut(s) 896
FblI GTMKAC 1 cut(s) 891
Fnu4HI GCNGC 2 cut(s) 146, 932
FokI GGATG 5 cut(s) 386, 423, 509, 584, 898
Fsp4HI GCNGC 2 cut(s) 146, 932
FspBI CTAG 1 cut(s) 54
FspI TGCGCA 1 cut(s) 632
GlaI GCGC 3 cut(s) 367, 632, 758
GluI GCNGC 2 cut(s) 146, 932
HaeIII GGCC 2 cut(s) 58, 939
HgaI GACGC 1 cut(s) 924
HhaI GCGC 3 cut(s) 368, 633, 759
Hin1II CATG 5 cut(s) 145, 224, 254, 274, 372
Hin6I GCGC 3 cut(s) 366, 631, 757
HinP1I GCGC 3 cut(s) 366, 631, 757
HinfI GANTC 2 cut(s) 694, 959
HphI GGTGA 2 cut(s) 38, 837
Hpy166II GTNNAC 3 cut(s) 72, 455, 892
Hpy188I TCNGA 9 cut(s) 18, 333, 447, 478, 571, 580, 717, 880, 1034
Hpy188III TCNNGA 6 cut(s) 221, 350, 536, 668, 698, 912
Hpy8I GTNNAC 3 cut(s) 72, 455, 892
Hpy99I CGWCG 1 cut(s) 918
HpyAV CCTTC 2 cut(s) 274, 791
HpyCH4III ACNGT 2 cut(s) 202, 361
HpyCH4V TGCA 8 cut(s) 7, 92, 261, 575, 735, 744, 767, 999
HpyF10VI GCNNNNNNNGC 2 cut(s) 89, 741
HpyF3I CTNAG 2 cut(s) 330, 692
Hsp92II CATG 5 cut(s) 145, 224, 254, 274, 372
HspAI GCGC 3 cut(s) 366, 631, 757
Kzo9I GATC 5 cut(s) 304, 473, 610, 947, 992
LmnI GCTCC 1 cut(s) 19
Lsp1109I GCAGC 2 cut(s) 132, 918
LweI GCATC 4 cut(s) 218, 562, 584, 927
MaeI CTAG 1 cut(s) 54
MaeIII GTNAC 3 cut(s) 687, 843, 862
MalI GATC 5 cut(s) 306, 475, 612, 949, 994
MboI GATC 5 cut(s) 304, 473, 610, 947, 992
MboII GAAGA 5 cut(s) 299, 408, 704, 799, 958
MflI RGATCY 4 cut(s) 304, 473, 947, 992
MhlI GDGCHC 2 cut(s) 288, 804
MluCI AATT 4 cut(s) 182, 231, 393, 427
MlyI GAGTC 2 cut(s) 703, 968
MmeI TCCRAC 1 cut(s) 282
MnlI CCTC 6 cut(s) 16, 124, 443, 468, 507, 590
Mph1103I ATGCAT 1 cut(s) 577
MseI TTAA 2 cut(s) 186, 396
MslI CAYNNNNRTG 2 cut(s) 162, 291
MspA1I CMGCKG 1 cut(s) 557
MspR9I CCNGG 2 cut(s) 96, 936
Mva1269I GAATGC 2 cut(s) 263, 298
MvaI CCWGG 2 cut(s) 96, 936
MwoI GCNNNNNNNGC 2 cut(s) 89, 741
NdeI CATATG 1 cut(s) 896
NdeII GATC 5 cut(s) 304, 473, 610, 947, 992
NlaIII CATG 5 cut(s) 145, 224, 254, 274, 372
NlaIV GGNNCC 4 cut(s) 135, 520, 803, 949
NmuCI GTSAC 3 cut(s) 687, 843, 862
NsbI TGCGCA 1 cut(s) 632
NsiI ATGCAT 1 cut(s) 577
PagI TCATGA 1 cut(s) 220
PctI GAATGC 2 cut(s) 263, 298
PkrI GCNGC 2 cut(s) 147, 933
PleI GAGTC 2 cut(s) 702, 967
PpsI GAGTC 2 cut(s) 702, 967
Psp6I CCWGG 2 cut(s) 94, 934
PspEI GGTNACC 1 cut(s) 843
PspGI CCWGG 2 cut(s) 94, 934
PspN4I GGNNCC 4 cut(s) 135, 520, 803, 949
PspPI GGNCC 3 cut(s) 50, 98, 452
PsuI RGATCY 4 cut(s) 304, 473, 947, 992
PvuII CAGCTG 1 cut(s) 557
RsaI GTAC 1 cut(s) 645
RsaNI GTAC 1 cut(s) 644
RseI CAYNNNNRTG 2 cut(s) 162, 291
SaqAI TTAA 2 cut(s) 186, 396
SatI GCNGC 2 cut(s) 146, 932
Sau3AI GATC 5 cut(s) 304, 473, 610, 947, 992
Sau96I GGNCC 3 cut(s) 50, 98, 452
ScaI AGTACT 1 cut(s) 645
SchI GAGTC 2 cut(s) 703, 968
ScrFI CCNGG 2 cut(s) 96, 936
SduI GDGCHC 2 cut(s) 288, 804
SfaNI GCATC 4 cut(s) 218, 562, 584, 927
SfcI CTRYAG 1 cut(s) 42
SinI GGWCC 3 cut(s) 50, 98, 452
SmiMI CAYNNNNRTG 2 cut(s) 162, 291
SmlI CTYRAG 1 cut(s) 614
SmoI CTYRAG 1 cut(s) 614
Sse9I AATT 4 cut(s) 182, 231, 393, 427
SspMI CTAG 1 cut(s) 54
StyD4I CCNGG 2 cut(s) 94, 934
StyI CCWWGG 1 cut(s) 53
TaaI ACNGT 2 cut(s) 202, 361
TaqI TCGA 1 cut(s) 913
TasI AATT 4 cut(s) 182, 231, 393, 427
TatI WGTACW 1 cut(s) 643
Tru1I TTAA 2 cut(s) 186, 396
Tru9I TTAA 2 cut(s) 186, 396
TscAI CASTG 4 cut(s) 317, 475, 696, 949
TseFI GTSAC 3 cut(s) 687, 843, 862
TseI GCWGC 2 cut(s) 145, 931
Tsp45I GTSAC 3 cut(s) 687, 843, 862
TspDTI ATGAA 4 cut(s) 194, 239, 259, 408
TspGWI ACGGA 1 cut(s) 940
TspRI CASTG 4 cut(s) 317, 475, 696, 949
VpaK11BI GGWCC 3 cut(s) 50, 98, 452
XapI RAATTY 3 cut(s) 182, 231, 427
XmaJI CCTAGG 1 cut(s) 53
XmiI GTMKAC 1 cut(s) 891
XspI CTAG 1 cut(s) 54
ZrmI AGTACT 1 cut(s) 645
Zsp2I ATGCAT 1 cut(s) 577
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.