Rh4BG390600

Single-stranded DNA-binding protein WHY1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0009517
Physical Location & Seq
Reverse (-)
54369879 .. 54372103
2225 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG390600.1

Sequence Viewer

Length: 690 bp
ATGCTGAAGCTAGAGTACTCGCTATCTTCCCCGGTGGCGGTTCAAAACCCTAACCACTCCCTTCCGAGCAAAGCTAGGGTTTTCAGCACCAATAGCTTTGGGTTCGCCCCCAATTCGACGTCGTTTGGGAAGAGACGACTCGCCTTGAAATGTCGTCAGTCTGAGTACTTCGAGCAGCAGAGGCTCACTCCCCCAACTCCCCCGAGCACCGCTGCTTCTGCTGCTCAGAGTCCCTCCGGAGCTACTGCGGTGCCGGCTAGGTTTTATGTGGGACACTCGATATACAAAGGAAAGGCGGCGCTCACCGTAGAACCCAAAGCTCCAGAGTTTACGGCTTTAGATTCGGGAGCATTCAAAATGTCGAGGGAAGGCTTTGTGCTACTTCAGTTTGCTCCTGCAGCAGGTGTGCGTGTGTATGATTGGAGCAGAAAGCAGGTATTTTCGCTGTCAGTGACAGAAATTGGAAGCATAGTGAGCCTTGGTGTTCAAAACAAGCTTATCAACTTGGACGAGAACATTTATATTCCTGTCACCAGAGCAGAGTTTGCTGTTCTCAACTCTGCTTTCAATTATATCTTGCCGTATCTTATAGGTTGGCATGCATATGCAAACTCTATAAAGCCAGAAGATATGAGCCGTGTGAATAACGCCACTCCGAGATATGGAGGAGACTTTGAATGGAGCCGGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000018 GO:0000229 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003700 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005694 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0006974 GO:0008150 GO:0008152 GO:0009295 GO:0009507 GO:0009508 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009607 GO:0009620 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010639 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032204 GO:0032205 GO:0032210 GO:0032211 GO:0033043 GO:0033044 GO:0033554 GO:0034641 GO:0042162 GO:0042646 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043565 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045893 GO:0045910 GO:0045934 GO:0045935 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051052 GO:0051053 GO:0051128 GO:0051129 GO:0051171 GO:0051172 GO:0051173 GO:0051252 GO:0051254 GO:0051704 GO:0051707 GO:0051716 GO:0060255 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0098542 GO:0140110 GO:1901360 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1904356 GO:1904357 GO:2000112 GO:2000113 GO:2000278 GO:2000279 GO:2001141 GO:2001251
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Whirly

Protein Analysis

229

Amino Acids

25.19

Weight (kDa)

9.62

Isoelectric Point (pI)

54.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Whirly PF08536 94 - 164 1.2e-27 Whirly transcription factor
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: OG0009517)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G14410 AT2G02740
fragaria_vesca FvH4_4g31850 FvH4_4g31850
malus_domestica MD13G1078000.v1.1 MD16G1077800.v1.1
prunus_persica Prupe.1G269100_v2.0.a1
pyrus_communis pycom16g06720
rosa_chinensis RchiOBHm_Chr4g0440511
rosa_laevigata RLG00000006175
rosa_multiflora Rmu_sc0007648.1_g000008
rosa_roxburghii Rroxscaffold_5G00381340
rosa_rugosa Rorug04G0326400
rosa_samantha Rh4AG378000 Rh4BG390600 Rh4CG405300 Rh4DG384300 Rh5DG089700
rosa_wichuraiana Rw0G019510 Rw4G032300 Rw4G032350 Rw4G032450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 392
AatII GACGTC 1 cut(s) 122
Acc36I ACCTGC 2 cut(s) 392, 424
AccB1I GGYRCC 1 cut(s) 250
AccIII TCCGGA 1 cut(s) 236
AciI CCGC 4 cut(s) 38, 210, 248, 296
AcuI CTGAAG 2 cut(s) 26, 368
AcyI GRCGYC 1 cut(s) 119
AfaI GTAC 2 cut(s) 17, 167
AfiI CCNNNNNNNGG 3 cut(s) 37, 401, 662
AgsI TTSAA 6 cut(s) 44, 148, 355, 488, 568, 677
AluBI AGCT 6 cut(s) 10, 74, 96, 242, 320, 496
AluI AGCT 6 cut(s) 10, 74, 96, 242, 320, 496
Alw21I GWGCWC 1 cut(s) 209
Alw26I GTCTC 2 cut(s) 127, 663
Ama87I CYCGRG 1 cut(s) 202
Aor13HI TCCGGA 1 cut(s) 236
ApeKI GCWGC 4 cut(s) 175, 212, 221, 398
AspLEI GCGC 1 cut(s) 301
AsuC2I CCSGG 1 cut(s) 32
AsuHPI GGTGA 2 cut(s) 295, 523
AvaI CYCGRG 1 cut(s) 202
BanI GGYRCC 1 cut(s) 250
BarI GAAGNNNNNNTAC 1 cut(s) 31
Bbv12I GWGCWC 1 cut(s) 209
BbvI GCAGC 4 cut(s) 187, 199, 208, 410
BceAI ACGGC 3 cut(s) 348, 565, 621
BcnI CCSGG 1 cut(s) 32
BcoDI GTCTC 2 cut(s) 127, 663
BfaI CTAG 3 cut(s) 11, 75, 258
BfmI CTRYAG 1 cut(s) 396
BfoI RGCGCY 1 cut(s) 302
BfuAI ACCTGC 2 cut(s) 392, 424
BisI GCNGC 5 cut(s) 176, 213, 222, 297, 399
BlsI GCNGC 5 cut(s) 177, 214, 223, 298, 400
BmcAI AGTACT 2 cut(s) 17, 167
Bme1390I CCNGG 1 cut(s) 32
BmeT110I CYCGRG 1 cut(s) 202
BmiI GGNNCC 2 cut(s) 252, 683
BmrFI CCNGG 1 cut(s) 32
BplI GAGNNNNNCTC 2 cut(s) 172, 204
BpmI CTGGAG 1 cut(s) 306
BpuMI CCSGG 1 cut(s) 32
BsaHI GRCGYC 1 cut(s) 119
BsaJI CCNNGG 2 cut(s) 30, 478
BsaWI WCCGGW 1 cut(s) 236
Bsc4I CCNNNNNNNGG 3 cut(s) 37, 401, 662
Bse118I RCCGGY 2 cut(s) 253, 684
BseAI TCCGGA 1 cut(s) 236
BseDI CCNNGG 2 cut(s) 30, 478
BseLI CCNNNNNNNGG 3 cut(s) 37, 401, 662
BseMII CTCAG 2 cut(s) 153, 239
BseRI GAGGAG 1 cut(s) 681
BseXI GCAGC 4 cut(s) 187, 199, 208, 410
BshNI GGYRCC 1 cut(s) 250
BsiHKAI GWGCWC 1 cut(s) 209
BsiHKCI CYCGRG 1 cut(s) 202
BsiSI CCGG 4 cut(s) 32, 237, 254, 685
BslFI GGGAC 2 cut(s) 216, 285
BslI CCNNNNNNNGG 3 cut(s) 37, 401, 662
BsmAI GTCTC 2 cut(s) 127, 663
BsmBI CGTCTC 1 cut(s) 127
BsmFI GGGAC 2 cut(s) 216, 285
BsmI GAATGC 1 cut(s) 350
BsoBI CYCGRG 1 cut(s) 202
Bsp1286I GDGCHC 1 cut(s) 209
Bsp13I TCCGGA 1 cut(s) 236
BspACI CCGC 4 cut(s) 38, 210, 248, 296
BspCNI CTCAG 2 cut(s) 154, 238
BspEI TCCGGA 1 cut(s) 236
BspLI GGNNCC 2 cut(s) 252, 683
BspMAI CTGCAG 1 cut(s) 400
BspMI ACCTGC 2 cut(s) 392, 424
BspT107I GGYRCC 1 cut(s) 250
BsrFI RCCGGY 2 cut(s) 253, 684
BssAI RCCGGY 2 cut(s) 253, 684
BssECI CCNNGG 2 cut(s) 30, 478
BssNI GRCGYC 1 cut(s) 119
BssT1I CCWWGG 1 cut(s) 478
Bst4CI ACNGT 1 cut(s) 307
Bst6I CTCTTC 1 cut(s) 125
BstACI GRCGYC 1 cut(s) 119
BstAPI GCANNNNNTGC 1 cut(s) 545
BstC8I GCNNGC 2 cut(s) 255, 600
BstDEI CTNAG 2 cut(s) 162, 225
BstENI CCTNNNNNAGG 1 cut(s) 399
BstH2I RGCGCY 1 cut(s) 302
BstHHI GCGC 1 cut(s) 301
BstMAI GTCTC 2 cut(s) 127, 663
BstMWI GCNNNNNNNGC 8 cut(s) 93, 181, 218, 221, 254, 398, 474, 545
BstNSI RCATGY 1 cut(s) 602
BstSCI CCNGG 1 cut(s) 30
BstSFI CTRYAG 1 cut(s) 396
BstV1I GCAGC 4 cut(s) 187, 199, 208, 410
BtsIMutI CAGTG 1 cut(s) 456
BveI ACCTGC 2 cut(s) 392, 424
Cac8I GCNNGC 2 cut(s) 255, 600
CfoI GCGC 1 cut(s) 301
Cfr10I RCCGGY 2 cut(s) 253, 684
Csp6I GTAC 2 cut(s) 16, 166
CviAII CATG 1 cut(s) 599
CviQI GTAC 2 cut(s) 16, 166
DdeI CTNAG 2 cut(s) 162, 225
Eam1104I CTCTTC 1 cut(s) 125
EarI CTCTTC 1 cut(s) 125
Eco130I CCWWGG 1 cut(s) 478
Eco57I CTGAAG 2 cut(s) 26, 368
Eco88I CYCGRG 1 cut(s) 202
EcoNI CCTNNNNNAGG 1 cut(s) 399
EcoT14I CCWWGG 1 cut(s) 478
EcoT22I ATGCAT 1 cut(s) 604
ErhI CCWWGG 1 cut(s) 478
Esp3I CGTCTC 1 cut(s) 127
FaeI CATG 1 cut(s) 602
FaqI GGGAC 2 cut(s) 216, 285
FatI CATG 1 cut(s) 598
FauNDI CATATG 1 cut(s) 604
Fnu4HI GCNGC 5 cut(s) 176, 213, 222, 297, 399
Fsp4HI GCNGC 5 cut(s) 176, 213, 222, 297, 399
FspBI CTAG 3 cut(s) 11, 75, 258
GlaI GCGC 1 cut(s) 300
GluI GCNGC 5 cut(s) 176, 213, 222, 297, 399
GsuI CTGGAG 1 cut(s) 306
HaeII RGCGCY 1 cut(s) 302
HapII CCGG 4 cut(s) 32, 237, 254, 685
HhaI GCGC 1 cut(s) 301
Hin1I GRCGYC 1 cut(s) 119
Hin1II CATG 1 cut(s) 602
Hin6I GCGC 1 cut(s) 299
HinP1I GCGC 1 cut(s) 299
HindIII AAGCTT 1 cut(s) 494
HinfI GANTC 3 cut(s) 138, 229, 341
HpaII CCGG 4 cut(s) 32, 237, 254, 685
HphI GGTGA 2 cut(s) 295, 523
Hpy166II GTNNAC 1 cut(s) 330
Hpy188I TCNGA 4 cut(s) 66, 163, 228, 657
Hpy188III TCNNGA 3 cut(s) 237, 323, 345
Hpy8I GTNNAC 1 cut(s) 330
Hpy99I CGWCG 2 cut(s) 121, 124
HpyAV CCTTC 2 cut(s) 71, 362
HpyCH4III ACNGT 1 cut(s) 307
HpyCH4IV ACGT 1 cut(s) 119
HpyCH4V TGCA 3 cut(s) 398, 602, 608
HpyF10VI GCNNNNNNNGC 8 cut(s) 93, 181, 218, 221, 254, 398, 474, 545
HpyF3I CTNAG 2 cut(s) 162, 225
HpySE526I ACGT 1 cut(s) 119
Hsp92I GRCGYC 1 cut(s) 119
Hsp92II CATG 1 cut(s) 602
HspAI GCGC 1 cut(s) 299
Kpn2I TCCGGA 1 cut(s) 236
KroI GCCGGC 1 cut(s) 253
KroNI GCCGGC 1 cut(s) 255
LmnI GCTCC 6 cut(s) 239, 325, 347, 397, 423, 681
Lsp1109I GCAGC 4 cut(s) 187, 199, 208, 410
MaeI CTAG 3 cut(s) 11, 75, 258
MaeII ACGT 1 cut(s) 119
MaeIII GTNAC 2 cut(s) 451, 529
MboII GAAGA 3 cut(s) 18, 142, 638
MhlI GDGCHC 1 cut(s) 209
MluCI AATT 3 cut(s) 112, 459, 568
MlyI GAGTC 2 cut(s) 132, 238
MnlI CCTC 4 cut(s) 174, 244, 357, 659
Mph1103I ATGCAT 1 cut(s) 604
MroI TCCGGA 1 cut(s) 236
MroNI GCCGGC 1 cut(s) 253
MslI CAYNNNNRTG 1 cut(s) 603
MspA1I CMGCKG 1 cut(s) 212
MspI CCGG 4 cut(s) 32, 237, 254, 685
MspR9I CCNGG 1 cut(s) 32
Mva1269I GAATGC 1 cut(s) 350
MwoI GCNNNNNNNGC 8 cut(s) 93, 181, 218, 221, 254, 398, 474, 545
NaeI GCCGGC 1 cut(s) 255
NciI CCSGG 1 cut(s) 32
NdeI CATATG 1 cut(s) 604
NgoMIV GCCGGC 1 cut(s) 253
NlaIII CATG 1 cut(s) 602
NlaIV GGNNCC 2 cut(s) 252, 683
NmuCI GTSAC 2 cut(s) 451, 529
NsiI ATGCAT 1 cut(s) 604
NspI RCATGY 1 cut(s) 602
PaeI GCATGC 1 cut(s) 602
PaqCI CACCTGC 1 cut(s) 392
PctI GAATGC 1 cut(s) 350
PdiI GCCGGC 1 cut(s) 255
PfeI GAWTC 1 cut(s) 341
PkrI GCNGC 5 cut(s) 177, 214, 223, 298, 400
PleI GAGTC 2 cut(s) 132, 237
PpsI GAGTC 2 cut(s) 132, 237
PspN4I GGNNCC 2 cut(s) 252, 683
PstI CTGCAG 1 cut(s) 400
RsaI GTAC 2 cut(s) 17, 167
RsaNI GTAC 2 cut(s) 16, 166
RseI CAYNNNNRTG 1 cut(s) 603
SatI GCNGC 5 cut(s) 176, 213, 222, 297, 399
ScaI AGTACT 2 cut(s) 17, 167
SchI GAGTC 2 cut(s) 132, 238
ScrFI CCNGG 1 cut(s) 32
SduI GDGCHC 1 cut(s) 209
SfcI CTRYAG 1 cut(s) 396
SmiMI CAYNNNNRTG 1 cut(s) 603
SphI GCATGC 1 cut(s) 602
Sse9I AATT 3 cut(s) 112, 459, 568
SsiI CCGC 4 cut(s) 38, 210, 248, 296
SspMI CTAG 3 cut(s) 11, 75, 258
StyD4I CCNGG 1 cut(s) 30
StyI CCWWGG 1 cut(s) 478
TaaI ACNGT 1 cut(s) 307
TaiI ACGT 1 cut(s) 122
TaqI TCGA 4 cut(s) 116, 171, 278, 362
TasI AATT 3 cut(s) 112, 459, 568
TatI WGTACW 2 cut(s) 15, 165
TauI GCSGC 1 cut(s) 299
TfiI GAWTC 1 cut(s) 341
TscAI CASTG 1 cut(s) 456
TseFI GTSAC 2 cut(s) 451, 529
TseI GCWGC 4 cut(s) 175, 212, 221, 398
Tsp45I GTSAC 2 cut(s) 451, 529
TspRI CASTG 1 cut(s) 456
XagI CCTNNNNNAGG 1 cut(s) 399
XceI RCATGY 1 cut(s) 602
XspI CTAG 3 cut(s) 11, 75, 258
ZraI GACGTC 1 cut(s) 120
ZrmI AGTACT 2 cut(s) 17, 167
Zsp2I ATGCAT 1 cut(s) 604
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.