FvH4_4g07091

Zinc finger BED domain-containing protein RICESLEEPER

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000289
Physical Location & Seq
Forward (+)
6501930 .. 6502967
1038 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g07091.t1

Sequence Viewer

Length: 648 bp
ATGGAGAACCGTGTTCATATATTTAATCCCTTAACTCGACAAGTGCTTACTCTCCCCAATACTTCACGTGTGAATCTCACAGTCTATGTTGCATACCACTTCGGATTTAGCTCTCTTACAAACGAGTACAAGGTTCTCCAAATTCAAAGATTTAAGCAGGGTTTAATGTTTAACACTTTTATCCGTGGTAAAAGTACTACATGGAGGCAGGTAGAGACATTGAATAGTACTGTGGCTTTCGACATGAATGGGGTTGAGAGATTTAACGTGGTACCAATTCCAGATGGTATTCATCTCCATGATCCCCTTGTGAGACTTGATGAAGTCGATGGATGTCTAGCTCTGATAGATGGGAGAAAACAAAACTACATGAAGAGGCTATGGATTTTGAAGGAATACGAAAATCAGTTACATGTAAGGCTGGGAGTTCGGGTCCAAAAACCCGCAAAATTCGACCTGAAAGCCCGACAAGGACCAAATCGGTCAGGTCCTGAAAGTGAAGATATCGGTCTGGCCAAAGACCGGCACGAATACTCTCTTATCGGTCCGGGCTTAGAGATTCATGGCTTCACCTCAGATTTCACTCAGCCTAGGCTCAAGTTCATCCAAGAGTTCTGGCTCCCATTCGTCCCACAGTTCTGGCTCTAA
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
DUF4413 Dimer_Tnp_hAT zf-BED

Protein Analysis

216

Amino Acids

25.09

Weight (kDa)

9.38

Isoelectric Point (pI)

34.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
FBA_3 PF08268 5 - 72 2.8e-06 F-box associated beta propeller 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
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Orthologous Genes (Group: OG0000289)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g12771 FvH4_1g24070 FvH4_1g24080 FvH4_1g24081 FvH4_3g05670 FvH4_3g33611 FvH4_3g43191 FvH4_4g07091 FvH4_4g07100 FvH4_4g28510 FvH4_4g28520 FvH4_4g30181 FvH4_4g30190 FvH4_4g34271 FvH4_4g34340 FvH4_5g31290 FvH4_6g37661 FvH4_7g33810
malus_domestica MD02G1067600.v1.1 MD03G1110700.v1.1 MD11G1124100.v1.1 MD11G1124200.v1.1 MD11G1124500.v1.1 MD13G1020600.v1.1 MD16G1019000.v1.1
prunus_persica Prupe.1G283900_v2.0.a1 Prupe.1G284000_v2.0.a1 Prupe.1G285200_v2.0.a1 Prupe.1G285300_v2.0.a1 Prupe.1G285500_v2.0.a1 Prupe.1G285600_v2.0.a1 Prupe.1G286300_v2.0.a1 Prupe.1G300600_v2.0.a1 Prupe.1G300900_v2.0.a1 Prupe.1G333100_v2.0.a1 Prupe.6G093100_v2.0.a1
pyrus_communis pycom02g05360 pycom04g05300 pycom11g10460 pycom11g10470 pycom11g10510 pycom13g01740 pycom13g01750 pycom13g04550
rosa_chinensis RchiOBHm_Chr2g0138411 RchiOBHm_Chr2g0138421 RchiOBHm_Chr4g0399251 RchiOBHm_Chr4g0436521
rosa_laevigata RLG00000005896 RLG00000005933 RLG00000006379 RLG00000006511 RLG00000009284 RLG00000019741 RLG00000019742 RLG00000019743 RLG00000020150 RLG00000024158 RLG00000024159 RLG00000030139 RLG00000032057
rosa_multiflora Rmu_co8310765.1_g000001 Rmu_co8476365.1_g000001 Rmu_sc0001426.1_g000004 Rmu_sc0001534.1_g000001 Rmu_sc0001534.1_g000009 Rmu_sc0001534.1_g000010 Rmu_sc0001556.1_g000019 Rmu_sc0001556.1_g000020 Rmu_sc0001779.1_g000020 Rmu_sc0003130.1_g000005 Rmu_sc0005961.1_g000007 Rmu_sc0025546.1_g000001 Rmu_sc0035131.1_g000001 Rmu_sc0035132.1_g000001
rosa_roxburghii Rroxscaffold_1G00062740 Rroxscaffold_2G00106090 Rroxscaffold_2G00106130 Rroxscaffold_2G00106210 Rroxscaffold_4G00324740 Rroxscaffold_4G00324760
rosa_rugosa Rorug04G0015700 Rorug04G0015800 Rorug04G0294500 Rorug04G0345900 Rorug04G0345900 Rorug05G0013800 Rorug05G0336100 Rorug05G0446400
rosa_samantha Rh2AG399300 Rh2BG407000 Rh2BG407300 Rh2BG407400 Rh2CG385800 Rh2DG419200 Rh4AG093400 Rh4AG348800 Rh4AG401200 Rh4AG406800 Rh4AG406900 Rh4CG101600 Rh4CG371900 Rh4CG428200 Rh4CG428300 Rh4DG085500 Rh4DG085700 Rh4DG351400 Rh4DG365000 Rh4DG408300 Rh4DG408400 Rh5AG108000 Rh5BG104700 Rh5BG411400 Rh5BG523400 Rh5DG103300 Rh5DG425800
rosa_wichuraiana Rw0G008940 Rw1G005620 Rw3G022740 Rw4G030510 Rw4G034940 Rw5G009440 Rw5G037570 Rw5G046580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 199
Acc65I GGTACC 1 cut(s) 271
AccB1I GGYRCC 1 cut(s) 271
AciI CCGC 1 cut(s) 444
AclWI GGATC 1 cut(s) 296
AcoI YGGCCR 1 cut(s) 513
AcsI RAATTY 2 cut(s) 141, 449
AcvI CACGTG 1 cut(s) 68
AfaI GTAC 4 cut(s) 128, 196, 229, 273
AfiI CCNNNNNNNGG 1 cut(s) 522
AflIII ACRYGT 2 cut(s) 67, 412
AgsI TTSAA 3 cut(s) 146, 223, 391
AluBI AGCT 2 cut(s) 111, 341
AluI AGCT 2 cut(s) 111, 341
Alw26I GTCTC 2 cut(s) 209, 307
AlwI GGATC 1 cut(s) 296
AlwNI CAGNNNCTG 1 cut(s) 491
AoxI GGCC 1 cut(s) 513
ApoI RAATTY 2 cut(s) 141, 449
Asp718I GGTACC 1 cut(s) 271
AspA2I CCTAGG 1 cut(s) 590
AspS9I GGNCC 4 cut(s) 433, 473, 488, 545
AsuC2I CCSGG 1 cut(s) 549
AsuHPI GGTGA 1 cut(s) 562
AvaII GGWCC 4 cut(s) 433, 473, 488, 545
AvrII CCTAGG 1 cut(s) 590
BalI TGGCCA 1 cut(s) 515
BanI GGYRCC 1 cut(s) 271
BbrPI CACGTG 1 cut(s) 68
BccI CCATC 3 cut(s) 278, 323, 344
BcnI CCSGG 1 cut(s) 549
BcoDI GTCTC 2 cut(s) 209, 307
BfaI CTAG 2 cut(s) 338, 591
BfuAI ACCTGC 1 cut(s) 199
BlnI CCTAGG 1 cut(s) 590
BmcAI AGTACT 2 cut(s) 196, 229
Bme1390I CCNGG 1 cut(s) 549
Bme18I GGWCC 4 cut(s) 433, 473, 488, 545
BmgT120I GGNCC 4 cut(s) 433, 473, 488, 545
BmiI GGNNCC 3 cut(s) 273, 434, 620
BmrFI CCNGG 1 cut(s) 549
BpuEI CTTGAG 1 cut(s) 581
BpuMI CCSGG 1 cut(s) 549
BsaAI YACGTR 1 cut(s) 68
BsaJI CCNNGG 2 cut(s) 184, 590
BsaXI ACNNNNNCTCC 2 cut(s) 417, 447
Bsc4I CCNNNNNNNGG 1 cut(s) 522
Bse118I RCCGGY 1 cut(s) 522
BseDI CCNNGG 2 cut(s) 184, 590
BseGI GGATG 2 cut(s) 338, 603
BseLI CCNNNNNNNGG 1 cut(s) 522
BseMII CTCAG 2 cut(s) 588, 599
BseYI CCCAGC 1 cut(s) 421
BshFI GGCC 1 cut(s) 515
BshNI GGYRCC 1 cut(s) 271
BsiSI CCGG 2 cut(s) 523, 548
BslFI GGGAC 1 cut(s) 614
BslI CCNNNNNNNGG 1 cut(s) 522
BsmAI GTCTC 2 cut(s) 209, 307
BsmFI GGGAC 1 cut(s) 614
BsnI GGCC 1 cut(s) 515
Bsp143I GATC 1 cut(s) 301
BspACI CCGC 1 cut(s) 444
BspANI GGCC 1 cut(s) 515
BspCNI CTCAG 2 cut(s) 587, 598
BspLI GGNNCC 3 cut(s) 273, 434, 620
BspMI ACCTGC 1 cut(s) 199
BspPI GGATC 1 cut(s) 296
BspT107I GGYRCC 1 cut(s) 271
BsrFI RCCGGY 1 cut(s) 522
BssAI RCCGGY 1 cut(s) 522
BssECI CCNNGG 2 cut(s) 184, 590
BssMI GATC 1 cut(s) 301
BssT1I CCWWGG 1 cut(s) 590
Bst4CI ACNGT 4 cut(s) 11, 82, 232, 636
Bst6I CTCTTC 1 cut(s) 368
BstBAI YACGTR 1 cut(s) 68
BstDEI CTNAG 3 cut(s) 553, 574, 585
BstDSI CCRYGG 1 cut(s) 184
BstF5I GGATG 2 cut(s) 338, 603
BstKTI GATC 1 cut(s) 304
BstMAI GTCTC 2 cut(s) 209, 307
BstMBI GATC 1 cut(s) 301
BstNSI RCATGY 1 cut(s) 416
BstSCI CCNGG 1 cut(s) 547
BstXI CCANNNNNNTGG 1 cut(s) 639
BsuRI GGCC 1 cut(s) 515
BtgI CCRYGG 1 cut(s) 184
BtsCI GGATG 2 cut(s) 338, 603
BveI ACCTGC 1 cut(s) 199
CaiI CAGNNNCTG 1 cut(s) 491
Cfr10I RCCGGY 1 cut(s) 522
Cfr13I GGNCC 4 cut(s) 433, 473, 488, 545
CpoI CGGWCCG 1 cut(s) 545
Csp6I GTAC 4 cut(s) 127, 195, 228, 272
CspI CGGWCCG 1 cut(s) 545
CviAII CATG 6 cut(s) 201, 244, 299, 370, 413, 563
CviQI GTAC 4 cut(s) 127, 195, 228, 272
DdeI CTNAG 3 cut(s) 553, 574, 585
DpnI GATC 1 cut(s) 303
DpnII GATC 1 cut(s) 301
EaeI YGGCCR 1 cut(s) 513
Eam1104I CTCTTC 1 cut(s) 368
EarI CTCTTC 1 cut(s) 368
Eco130I CCWWGG 1 cut(s) 590
Eco32I GATATC 1 cut(s) 505
Eco47I GGWCC 4 cut(s) 433, 473, 488, 545
Eco72I CACGTG 1 cut(s) 68
EcoO109I RGGNCCY 1 cut(s) 488
EcoRV GATATC 1 cut(s) 505
EcoT14I CCWWGG 1 cut(s) 590
ErhI CCWWGG 1 cut(s) 590
FaeI CATG 6 cut(s) 204, 247, 302, 373, 416, 566
FaqI GGGAC 1 cut(s) 614
FatI CATG 6 cut(s) 200, 243, 298, 369, 412, 562
FauI CCCGC 1 cut(s) 451
FokI GGATG 2 cut(s) 345, 590
FspBI CTAG 2 cut(s) 338, 591
GsaI CCCAGC 1 cut(s) 425
HaeIII GGCC 1 cut(s) 515
HapII CCGG 2 cut(s) 523, 548
Hin1II CATG 6 cut(s) 204, 247, 302, 373, 416, 566
HinfI GANTC 2 cut(s) 73, 559
HpaII CCGG 2 cut(s) 523, 548
HphI GGTGA 1 cut(s) 562
Hpy188I TCNGA 3 cut(s) 104, 345, 577
Hpy188III TCNNGA 2 cut(s) 281, 491
HpyAV CCTTC 1 cut(s) 385
HpyCH4III ACNGT 4 cut(s) 11, 82, 232, 636
HpyCH4IV ACGT 2 cut(s) 67, 267
HpyCH4V TGCA 1 cut(s) 92
HpyF3I CTNAG 3 cut(s) 553, 574, 585
HpySE526I ACGT 2 cut(s) 67, 267
Hsp92II CATG 6 cut(s) 204, 247, 302, 373, 416, 566
KpnI GGTACC 1 cut(s) 275
Kzo9I GATC 1 cut(s) 301
LmnI GCTCC 1 cut(s) 624
MaeI CTAG 2 cut(s) 338, 591
MaeII ACGT 2 cut(s) 67, 267
MaeIII GTNAC 1 cut(s) 408
MalI GATC 1 cut(s) 303
MboI GATC 1 cut(s) 301
MboII GAAGA 2 cut(s) 385, 512
MlsI TGGCCA 1 cut(s) 515
MluCI AATT 3 cut(s) 141, 276, 449
MluNI TGGCCA 1 cut(s) 515
MnlI CCTC 3 cut(s) 198, 369, 583
Mox20I TGGCCA 1 cut(s) 515
MscI TGGCCA 1 cut(s) 515
MseI TTAA 6 cut(s) 24, 32, 153, 164, 171, 264
MslI CAYNNNNRTG 1 cut(s) 297
Msp20I TGGCCA 1 cut(s) 515
MspI CCGG 2 cut(s) 523, 548
MspR9I CCNGG 1 cut(s) 549
NciI CCSGG 1 cut(s) 549
NdeII GATC 1 cut(s) 301
NlaIII CATG 6 cut(s) 204, 247, 302, 373, 416, 566
NlaIV GGNNCC 3 cut(s) 273, 434, 620
NspI RCATGY 1 cut(s) 416
PciI ACATGT 1 cut(s) 412
PfeI GAWTC 2 cut(s) 73, 559
PmaCI CACGTG 1 cut(s) 68
PmlI CACGTG 1 cut(s) 68
Ppu21I YACGTR 1 cut(s) 68
PpuMI RGGWCCY 1 cut(s) 488
PscI ACATGT 1 cut(s) 412
Psp5II RGGWCCY 1 cut(s) 488
PspCI CACGTG 1 cut(s) 68
PspFI CCCAGC 1 cut(s) 421
PspN4I GGNNCC 3 cut(s) 273, 434, 620
PspPI GGNCC 4 cut(s) 433, 473, 488, 545
PspPPI RGGWCCY 1 cut(s) 488
PstNI CAGNNNCTG 1 cut(s) 491
RsaI GTAC 4 cut(s) 128, 196, 229, 273
RsaNI GTAC 4 cut(s) 127, 195, 228, 272
RseI CAYNNNNRTG 1 cut(s) 297
Rsr2I CGGWCCG 1 cut(s) 545
RsrII CGGWCCG 1 cut(s) 545
SaqAI TTAA 6 cut(s) 24, 32, 153, 164, 171, 264
Sau3AI GATC 1 cut(s) 301
Sau96I GGNCC 4 cut(s) 433, 473, 488, 545
ScaI AGTACT 2 cut(s) 196, 229
ScrFI CCNGG 1 cut(s) 549
SetI ASST 9 cut(s) 70, 113, 135, 213, 270, 343, 459, 490, 575
SinI GGWCC 4 cut(s) 433, 473, 488, 545
SmiMI CAYNNNNRTG 1 cut(s) 297
SmlI CTYRAG 1 cut(s) 596
SmoI CTYRAG 1 cut(s) 596
Sse9I AATT 3 cut(s) 141, 276, 449
SsiI CCGC 1 cut(s) 444
SspMI CTAG 2 cut(s) 338, 591
StyD4I CCNGG 1 cut(s) 547
StyI CCWWGG 1 cut(s) 590
TaaI ACNGT 4 cut(s) 11, 82, 232, 636
TaiI ACGT 2 cut(s) 70, 270
TaqI TCGA 4 cut(s) 37, 240, 327, 453
TaqII GACCGA 3 cut(s) 471, 497, 533
TasI AATT 3 cut(s) 141, 276, 449
TatI WGTACW 3 cut(s) 126, 194, 227
TfiI GAWTC 2 cut(s) 73, 559
Tru1I TTAA 6 cut(s) 24, 32, 153, 164, 171, 264
Tru9I TTAA 6 cut(s) 24, 32, 153, 164, 171, 264
TspDTI ATGAA 7 cut(s) 5, 260, 281, 336, 386, 551, 592
TspGWI ACGGA 1 cut(s) 173
VpaK11BI GGWCC 4 cut(s) 433, 473, 488, 545
XapI RAATTY 2 cut(s) 141, 449
XceI RCATGY 1 cut(s) 416
XmaJI CCTAGG 1 cut(s) 590
XspI CTAG 2 cut(s) 338, 591
ZrmI AGTACT 2 cut(s) 196, 229
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.