Rroxscaffold_5G00381340

Single-stranded DNA-binding protein WHY1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0009517
Physical Location & Seq
Reverse (-)
61373852 .. 61375874
2023 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00381340.1

Sequence Viewer

Length: 642 bp
ATGCTGAAGCTAGAGTACTCGCTATCTTCCCCGGTGGCGGTTCAAAACCCTAACCACTCCCTTCCGAGCAAAGCTAGGGTTTTCAGCACCAATAGCTTTGGGTTCGCCCCCAATTCGACGTCGTTTGGGAAGAGACGACTCGCCTTGAAATGTCGTCAGTCTGAGTACTTCGAGCAGCAGAGGCTCACTCCCCCAACTCCCCCGAGCACCGCTGCTTCTTCTGCTCAGAGTCCCTCCGGAGCTACTGCGGTGCCGGCTAGGTTTTATGTGGGACACTCGATATACAAAGGAAAGGCGGCGCTCACCGTAGAGCCCAAAGCTCCAGAGTTTACGGCTTTAGATGTATTTTCGCTATCAGTGACAGAAATTGGAAGCATAGTGAGCCTTGGTGCGAGGGAGTCCTGTGAATTTTTCCATGACCCCTTTAAGGGGAAAAGGTGCCATATCTACTCCATTAGTTCATTTTATGCTGAAGAATGGGAGTTTGAACACCCTAATGACATGTTACCTGGGTTTTACATCTTGTCATCATACATTCAACATAAAGGTGTTCAAAACAAGCTTATCAACTTGGACGAGAACATTTATATTCCTGTCACCAGAGCAGAGTTTGCTGTTCTCAACTCTGCTTTCAATGTATGA
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

213

Amino Acids

23.61

Weight (kDa)

8.39

Isoelectric Point (pI)

56.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Whirly PF08536 115 - 209 2.8e-14 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)
AatII GACGTC 1 cut(s) 122
AccB1I GGYRCC 2 cut(s) 250, 438
AccIII TCCGGA 1 cut(s) 236
AciI CCGC 4 cut(s) 38, 210, 248, 296
AcsI RAATTY 1 cut(s) 407
AcuI CTGAAG 2 cut(s) 26, 492
AcyI GRCGYC 1 cut(s) 119
AfaI GTAC 2 cut(s) 17, 167
AfiI CCNNNNNNNGG 4 cut(s) 37, 427, 428, 429
AflIII ACRYGT 1 cut(s) 501
AgsI TTSAA 6 cut(s) 44, 148, 488, 539, 554, 634
AjnI CCWGG 1 cut(s) 508
AluBI AGCT 6 cut(s) 10, 74, 96, 242, 320, 562
AluI AGCT 6 cut(s) 10, 74, 96, 242, 320, 562
Alw21I GWGCWC 1 cut(s) 209
Alw26I GTCTC 1 cut(s) 127
Ama87I CYCGRG 1 cut(s) 202
Aor13HI TCCGGA 1 cut(s) 236
ApeKI GCWGC 2 cut(s) 175, 212
ApoI RAATTY 1 cut(s) 407
AspLEI GCGC 1 cut(s) 301
AsuC2I CCSGG 1 cut(s) 32
AsuHPI GGTGA 2 cut(s) 295, 589
AvaI CYCGRG 1 cut(s) 202
BanI GGYRCC 2 cut(s) 250, 438
BanII GRGCYC 1 cut(s) 315
BarI GAAGNNNNNNTAC 1 cut(s) 31
Bbv12I GWGCWC 1 cut(s) 209
BbvI GCAGC 2 cut(s) 187, 199
BceAI ACGGC 1 cut(s) 348
BciT130I CCWGG 1 cut(s) 510
BcnI CCSGG 1 cut(s) 32
BcoDI GTCTC 1 cut(s) 127
BfaI CTAG 3 cut(s) 11, 75, 258
BfoI RGCGCY 1 cut(s) 302
BisI GCNGC 3 cut(s) 176, 213, 297
BlsI GCNGC 3 cut(s) 177, 214, 298
BmcAI AGTACT 2 cut(s) 17, 167
Bme1390I CCNGG 2 cut(s) 32, 510
BmeT110I CYCGRG 1 cut(s) 202
BmiI GGNNCC 2 cut(s) 252, 440
BmrFI CCNGG 2 cut(s) 32, 510
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 3 cut(s) 30, 385, 509
BsaWI WCCGGW 1 cut(s) 236
Bsc4I CCNNNNNNNGG 4 cut(s) 37, 427, 428, 429
Bse118I RCCGGY 1 cut(s) 253
BseAI TCCGGA 1 cut(s) 236
BseBI CCWGG 1 cut(s) 510
BseDI CCNNGG 3 cut(s) 30, 385, 509
BseLI CCNNNNNNNGG 4 cut(s) 37, 427, 428, 429
BseMII CTCAG 2 cut(s) 153, 239
BseXI GCAGC 2 cut(s) 187, 199
BshNI GGYRCC 2 cut(s) 250, 438
BsiHKAI GWGCWC 1 cut(s) 209
BsiHKCI CYCGRG 1 cut(s) 202
BsiSI CCGG 3 cut(s) 32, 237, 254
BslFI GGGAC 2 cut(s) 216, 285
BslI CCNNNNNNNGG 4 cut(s) 37, 427, 428, 429
BsmAI GTCTC 1 cut(s) 127
BsmBI CGTCTC 1 cut(s) 127
BsmFI GGGAC 2 cut(s) 216, 285
BsoBI CYCGRG 1 cut(s) 202
Bsp1286I GDGCHC 2 cut(s) 209, 315
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, 440
BspT107I GGYRCC 2 cut(s) 250, 438
BsrFI RCCGGY 1 cut(s) 253
BssAI RCCGGY 1 cut(s) 253
BssECI CCNNGG 3 cut(s) 30, 385, 509
BssNI GRCGYC 1 cut(s) 119
BssT1I CCWWGG 1 cut(s) 385
Bst2UI CCWGG 1 cut(s) 510
Bst4CI ACNGT 1 cut(s) 307
Bst6I CTCTTC 1 cut(s) 125
BstACI GRCGYC 1 cut(s) 119
BstAPI GCANNNNNTGC 1 cut(s) 611
BstC8I GCNNGC 1 cut(s) 255
BstDEI CTNAG 2 cut(s) 162, 225
BstH2I RGCGCY 1 cut(s) 302
BstHHI GCGC 1 cut(s) 301
BstMAI GTCTC 1 cut(s) 127
BstMWI GCNNNNNNNGC 6 cut(s) 93, 181, 221, 254, 381, 611
BstNI CCWGG 1 cut(s) 510
BstNSI RCATGY 1 cut(s) 505
BstSCI CCNGG 2 cut(s) 30, 508
BstV1I GCAGC 2 cut(s) 187, 199
BtsIMutI CAGTG 1 cut(s) 363
Cac8I GCNNGC 1 cut(s) 255
CfoI GCGC 1 cut(s) 301
Cfr10I RCCGGY 1 cut(s) 253
Csp6I GTAC 2 cut(s) 16, 166
CviAII CATG 2 cut(s) 416, 502
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) 385
Eco24I GRGCYC 1 cut(s) 315
Eco57I CTGAAG 2 cut(s) 26, 492
Eco88I CYCGRG 1 cut(s) 202
EcoRII CCWGG 1 cut(s) 508
EcoT14I CCWWGG 1 cut(s) 385
EcoT38I GRGCYC 1 cut(s) 315
ErhI CCWWGG 1 cut(s) 385
Esp3I CGTCTC 1 cut(s) 127
FaeI CATG 2 cut(s) 419, 505
FaqI GGGAC 2 cut(s) 216, 285
FatI CATG 2 cut(s) 415, 501
Fnu4HI GCNGC 3 cut(s) 176, 213, 297
FriOI GRGCYC 1 cut(s) 315
Fsp4HI GCNGC 3 cut(s) 176, 213, 297
FspBI CTAG 3 cut(s) 11, 75, 258
GlaI GCGC 1 cut(s) 300
GluI GCNGC 3 cut(s) 176, 213, 297
GsuI CTGGAG 1 cut(s) 306
HaeII RGCGCY 1 cut(s) 302
HapII CCGG 3 cut(s) 32, 237, 254
HhaI GCGC 1 cut(s) 301
Hin1I GRCGYC 1 cut(s) 119
Hin1II CATG 2 cut(s) 419, 505
Hin6I GCGC 1 cut(s) 299
HinP1I GCGC 1 cut(s) 299
HindIII AAGCTT 1 cut(s) 560
HinfI GANTC 3 cut(s) 138, 229, 398
HpaII CCGG 3 cut(s) 32, 237, 254
HphI GGTGA 2 cut(s) 295, 589
Hpy166II GTNNAC 1 cut(s) 330
Hpy188I TCNGA 3 cut(s) 66, 163, 228
Hpy188III TCNNGA 2 cut(s) 237, 323
Hpy8I GTNNAC 1 cut(s) 330
Hpy99I CGWCG 2 cut(s) 121, 124
HpyAV CCTTC 1 cut(s) 71
HpyCH4III ACNGT 1 cut(s) 307
HpyCH4IV ACGT 1 cut(s) 119
HpyF10VI GCNNNNNNNGC 6 cut(s) 93, 181, 221, 254, 381, 611
HpyF3I CTNAG 2 cut(s) 162, 225
HpySE526I ACGT 1 cut(s) 119
Hsp92I GRCGYC 1 cut(s) 119
Hsp92II CATG 2 cut(s) 419, 505
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 2 cut(s) 239, 325
LpnPI CCDG 9 cut(s) 45, 250, 267, 336, 415, 495, 522, 606, 613
Lsp1109I GCAGC 2 cut(s) 187, 199
MaeI CTAG 3 cut(s) 11, 75, 258
MaeII ACGT 1 cut(s) 119
MaeIII GTNAC 3 cut(s) 358, 504, 595
MboII GAAGA 4 cut(s) 18, 142, 210, 485
MhlI GDGCHC 2 cut(s) 209, 315
MluCI AATT 3 cut(s) 112, 366, 407
MlyI GAGTC 3 cut(s) 132, 238, 407
MnlI CCTC 3 cut(s) 174, 244, 387
MroI TCCGGA 1 cut(s) 236
MroNI GCCGGC 1 cut(s) 253
MseI TTAA 1 cut(s) 426
MslI CAYNNNNRTG 2 cut(s) 495, 546
MspA1I CMGCKG 1 cut(s) 212
MspI CCGG 3 cut(s) 32, 237, 254
MspR9I CCNGG 2 cut(s) 32, 510
MvaI CCWGG 1 cut(s) 510
MwoI GCNNNNNNNGC 6 cut(s) 93, 181, 221, 254, 381, 611
NaeI GCCGGC 1 cut(s) 255
NciI CCSGG 1 cut(s) 32
NgoMIV GCCGGC 1 cut(s) 253
NlaIII CATG 2 cut(s) 419, 505
NlaIV GGNNCC 2 cut(s) 252, 440
NmuCI GTSAC 2 cut(s) 358, 595
NspI RCATGY 1 cut(s) 505
PciI ACATGT 1 cut(s) 501
PdiI GCCGGC 1 cut(s) 255
PkrI GCNGC 3 cut(s) 177, 214, 298
PleI GAGTC 3 cut(s) 132, 237, 406
PpsI GAGTC 3 cut(s) 132, 237, 406
PscI ACATGT 1 cut(s) 501
Psp6I CCWGG 1 cut(s) 508
PspGI CCWGG 1 cut(s) 508
PspN4I GGNNCC 2 cut(s) 252, 440
RsaI GTAC 2 cut(s) 17, 167
RsaNI GTAC 2 cut(s) 16, 166
RseI CAYNNNNRTG 2 cut(s) 495, 546
SaqAI TTAA 1 cut(s) 426
SatI GCNGC 3 cut(s) 176, 213, 297
ScaI AGTACT 2 cut(s) 17, 167
SchI GAGTC 3 cut(s) 132, 238, 407
ScrFI CCNGG 2 cut(s) 32, 510
SduI GDGCHC 2 cut(s) 209, 315
SmiMI CAYNNNNRTG 2 cut(s) 495, 546
Sse9I AATT 3 cut(s) 112, 366, 407
SsiI CCGC 4 cut(s) 38, 210, 248, 296
SspMI CTAG 3 cut(s) 11, 75, 258
StyD4I CCNGG 2 cut(s) 30, 508
StyI CCWWGG 1 cut(s) 385
TaaI ACNGT 1 cut(s) 307
TaiI ACGT 1 cut(s) 122
TaqI TCGA 3 cut(s) 116, 171, 278
TasI AATT 3 cut(s) 112, 366, 407
TatI WGTACW 2 cut(s) 15, 165
TauI GCSGC 1 cut(s) 299
Tru1I TTAA 1 cut(s) 426
Tru9I TTAA 1 cut(s) 426
TscAI CASTG 1 cut(s) 363
TseFI GTSAC 2 cut(s) 358, 595
TseI GCWGC 2 cut(s) 175, 212
Tsp45I GTSAC 2 cut(s) 358, 595
TspDTI ATGAA 1 cut(s) 450
TspRI CASTG 1 cut(s) 363
XapI RAATTY 1 cut(s) 407
XceI RCATGY 1 cut(s) 505
XspI CTAG 3 cut(s) 11, 75, 258
ZraI GACGTC 1 cut(s) 120
ZrmI AGTACT 2 cut(s) 17, 167
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.