MD13G1078000.v1.1

Single-stranded DNA-binding protein WHY1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0009517
Physical Location & Seq
Reverse (-)
5495915 .. 5498934
3020 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1078000.v1.1.491

Sequence Viewer

Length: 831 bp
ATGCTGAAACTACACTCGCTATCTTCCCCTGTGACAGCACAAAGCCCTCACAAAAGCCCTAGCCAGTTCCTGTCTTCGCAGCTCTCCAGTAGAGGTAGGGTTTTCAGCACCAACACCTTCGGCTTCGCTCCGAGTCCGAGCTCGTCGACGAAGAGGCTCTCCTTGAAATGTCGCCAGTCGGAGTATTTCGACCAGCAGAGAACCAGCACCGCCGCTTCCCCGAACAAGCCTTCTCCTGCTTCGCAAACTCCCGCCGGAGTGACTGGGATGGCACCTAGGATTTACGTGGGTCACTCGATATACAAGGGAAAGGCAGCTCTTACTGTAGAGCCCAAAGCTCCAGAGTTCACCCCCTTGGATTCAGGGGCATTCAAACTTTCCCGGGAAGGTTTTGTGCTACTTCAGTTTGCTCCAGCAGCAGGTGTTCGTGTATATGACTGGAGCAGAAAGCAGGTATTCTCGCTATCAGTGACAGAAATTGGAAGCCTGGTTAGCCTTGGCTCAAAGGAGTCCCTTGAATTTTTCCATGATACTTATAAGGGGAAAAGTGATGAGGGCAAGGTCAGGAAGGTATTGAAGGTGGAGCCTCTTCCAGACGGATCTGGCCATTTCTTTAACCTCAGTGTTCAAAACAAGCTTATCAACTTGGACGAGAGCATTTATATTCCTATCACCAGAGCAGAATTTGCTGTTCTCAAATCAGCTTTCAATTTTATCTTGCCGTACATTTTAGGTTGGCATGCCTATGCAAACTCCATAAAACCAGAAGATTCGGGCCGTGCCATTAACTCTGGTATTAAATACGGAGGAGATTTTGAATGGAGCAGATAG
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

277

Amino Acids

30.25

Weight (kDa)

9.66

Isoelectric Point (pI)

48.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Whirly PF08536 100 - 235 3.5e-60 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)
AanI TTATAA 1 cut(s) 537
AarI CACCTGC 1 cut(s) 410
Acc36I ACCTGC 2 cut(s) 410, 442
AccB1I GGYRCC 1 cut(s) 271
AccI GTMKAC 1 cut(s) 146
AciI CCGC 3 cut(s) 210, 213, 252
AclWI GGATC 1 cut(s) 607
AcoI YGGCCR 1 cut(s) 604
AcsI RAATTY 2 cut(s) 518, 683
AcuI CTGAAG 1 cut(s) 386
AfaI GTAC 1 cut(s) 725
AfiI CCNNNNNNNGG 1 cut(s) 419
AgsI TTSAA 7 cut(s) 166, 373, 518, 577, 629, 709, 818
AjnI CCWGG 1 cut(s) 486
AluBI AGCT 6 cut(s) 82, 141, 317, 338, 637, 704
AluI AGCT 6 cut(s) 82, 141, 317, 338, 637, 704
Alw21I GWGCWC 1 cut(s) 143
AlwI GGATC 1 cut(s) 607
AlwNI CAGNNNCTG 1 cut(s) 70
Ama87I CYCGRG 1 cut(s) 381
AoxI GGCC 2 cut(s) 604, 775
ApeKI GCWGC 3 cut(s) 79, 314, 416
ApoI RAATTY 2 cut(s) 518, 683
AspA2I CCTAGG 1 cut(s) 275
AspS9I GGNCC 1 cut(s) 775
AsuC2I CCSGG 2 cut(s) 382, 383
AsuHPI GGTGA 2 cut(s) 340, 664
AvaI CYCGRG 1 cut(s) 381
AvrII CCTAGG 1 cut(s) 275
BalI TGGCCA 1 cut(s) 606
BanI GGYRCC 1 cut(s) 271
BanII GRGCYC 2 cut(s) 143, 333
BbsI GAAGAC 1 cut(s) 66
Bbv12I GWGCWC 1 cut(s) 143
BbvI GCAGC 3 cut(s) 91, 326, 428
BccI CCATC 1 cut(s) 262
BceAI ACGGC 2 cut(s) 706, 762
BciT130I CCWGG 1 cut(s) 488
BcnI CCSGG 2 cut(s) 382, 383
BfaI CTAG 2 cut(s) 60, 276
BfmI CTRYAG 1 cut(s) 324
BfuAI ACCTGC 2 cut(s) 410, 442
BisI GCNGC 4 cut(s) 80, 213, 315, 417
BlnI CCTAGG 1 cut(s) 275
BlsI GCNGC 4 cut(s) 81, 214, 316, 418
Bme1390I CCNGG 3 cut(s) 382, 383, 488
BmeT110I CYCGRG 1 cut(s) 381
BmgT120I GGNCC 1 cut(s) 775
BmiI GGNNCC 2 cut(s) 273, 585
BmrFI CCNGG 3 cut(s) 382, 383, 488
BmrI ACTGGG 1 cut(s) 273
BmuI ACTGGG 1 cut(s) 273
BpiI GAAGAC 1 cut(s) 66
BpmI CTGGAG 4 cut(s) 70, 324, 396, 460
BpuMI CCSGG 2 cut(s) 382, 383
BsaAI YACGTR 1 cut(s) 286
BsaJI CCNNGG 4 cut(s) 275, 354, 381, 496
Bsc4I CCNNNNNNNGG 1 cut(s) 419
Bse1I ACTGG 5 cut(s) 64, 87, 175, 268, 443
BseBI CCWGG 1 cut(s) 488
BseDI CCNNGG 4 cut(s) 275, 354, 381, 496
BseGI GGATG 1 cut(s) 273
BseLI CCNNNNNNNGG 1 cut(s) 419
BseMII CTCAG 1 cut(s) 634
BseNI ACTGG 5 cut(s) 64, 87, 175, 268, 443
BseRI GAGGAG 1 cut(s) 822
BseXI GCAGC 3 cut(s) 91, 326, 428
BshFI GGCC 2 cut(s) 606, 777
BshNI GGYRCC 1 cut(s) 271
BsiHKAI GWGCWC 1 cut(s) 143
BsiHKCI CYCGRG 1 cut(s) 381
BsiSI CCGG 2 cut(s) 255, 382
BslFI GGGAC 1 cut(s) 496
BslI CCNNNNNNNGG 1 cut(s) 419
BsmFI GGGAC 1 cut(s) 496
BsmI GAATGC 1 cut(s) 368
BsnI GGCC 2 cut(s) 606, 777
BsoBI CYCGRG 1 cut(s) 381
Bsp1286I GDGCHC 2 cut(s) 143, 333
Bsp143I GATC 1 cut(s) 599
BspACI CCGC 3 cut(s) 210, 213, 252
BspANI GGCC 2 cut(s) 606, 777
BspCNI CTCAG 1 cut(s) 633
BspLI GGNNCC 2 cut(s) 273, 585
BspMI ACCTGC 2 cut(s) 410, 442
BspPI GGATC 1 cut(s) 607
BspT107I GGYRCC 1 cut(s) 271
BsrI ACTGG 5 cut(s) 64, 87, 175, 268, 443
BssECI CCNNGG 4 cut(s) 275, 354, 381, 496
BssMI GATC 1 cut(s) 599
BssT1I CCWWGG 3 cut(s) 275, 354, 496
Bst2UI CCWGG 1 cut(s) 488
Bst4CI ACNGT 1 cut(s) 325
Bst6I CTCTTC 2 cut(s) 146, 594
BstAPI GCANNNNNTGC 1 cut(s) 686
BstBAI YACGTR 1 cut(s) 286
BstC8I GCNNGC 1 cut(s) 741
BstDEI CTNAG 1 cut(s) 620
BstF5I GGATG 1 cut(s) 273
BstKTI GATC 1 cut(s) 602
BstMBI GATC 1 cut(s) 599
BstMWI GCNNNNNNNGC 3 cut(s) 416, 492, 686
BstNI CCWGG 1 cut(s) 488
BstNSI RCATGY 1 cut(s) 743
BstSCI CCNGG 3 cut(s) 380, 381, 486
BstSFI CTRYAG 1 cut(s) 324
BstV1I GCAGC 3 cut(s) 91, 326, 428
BstV2I GAAGAC 1 cut(s) 66
BstX2I RGATCY 1 cut(s) 599
BstYI RGATCY 1 cut(s) 599
BsuRI GGCC 2 cut(s) 606, 777
BtsCI GGATG 1 cut(s) 273
BtsIMutI CAGTG 2 cut(s) 474, 628
BveI ACCTGC 2 cut(s) 410, 442
Cac8I GCNNGC 1 cut(s) 741
CaiI CAGNNNCTG 1 cut(s) 70
Cfr13I GGNCC 1 cut(s) 775
Cfr9I CCCGGG 1 cut(s) 381
Csp6I GTAC 1 cut(s) 724
CviAII CATG 2 cut(s) 527, 740
CviQI GTAC 1 cut(s) 724
DdeI CTNAG 1 cut(s) 620
DpnI GATC 1 cut(s) 601
DpnII GATC 1 cut(s) 599
EaeI YGGCCR 1 cut(s) 604
Eam1104I CTCTTC 2 cut(s) 146, 594
EarI CTCTTC 2 cut(s) 146, 594
Ecl136II GAGCTC 1 cut(s) 141
Eco130I CCWWGG 3 cut(s) 275, 354, 496
Eco24I GRGCYC 2 cut(s) 143, 333
Eco53kI GAGCTC 1 cut(s) 141
Eco57I CTGAAG 1 cut(s) 386
Eco88I CYCGRG 1 cut(s) 381
EcoICRI GAGCTC 1 cut(s) 141
EcoRII CCWGG 1 cut(s) 486
EcoT14I CCWWGG 3 cut(s) 275, 354, 496
EcoT38I GRGCYC 2 cut(s) 143, 333
ErhI CCWWGG 3 cut(s) 275, 354, 496
FaeI CATG 2 cut(s) 530, 743
FaiI YATR 9 cut(s) 301, 433, 435, 528, 537, 663, 741, 747, 758
FaqI GGGAC 1 cut(s) 496
FatI CATG 2 cut(s) 526, 739
FauI CCCGC 1 cut(s) 259
FblI GTMKAC 1 cut(s) 146
Fnu4HI GCNGC 4 cut(s) 80, 213, 315, 417
FokI GGATG 1 cut(s) 280
FriOI GRGCYC 2 cut(s) 143, 333
Fsp4HI GCNGC 4 cut(s) 80, 213, 315, 417
FspBI CTAG 2 cut(s) 60, 276
GluI GCNGC 4 cut(s) 80, 213, 315, 417
GsuI CTGGAG 4 cut(s) 70, 324, 396, 460
HaeIII GGCC 2 cut(s) 606, 777
HapII CCGG 2 cut(s) 255, 382
Hin1II CATG 2 cut(s) 530, 743
HincII GTYRAC 1 cut(s) 147
HindII GTYRAC 1 cut(s) 147
HindIII AAGCTT 1 cut(s) 635
HinfI GANTC 4 cut(s) 133, 359, 509, 770
HpaII CCGG 2 cut(s) 255, 382
HphI GGTGA 2 cut(s) 340, 664
Hpy166II GTNNAC 2 cut(s) 147, 348
Hpy188I TCNGA 3 cut(s) 132, 138, 181
Hpy188III TCNNGA 3 cut(s) 341, 565, 593
Hpy8I GTNNAC 2 cut(s) 147, 348
Hpy99I CGWCG 2 cut(s) 148, 151
HpyAV CCTTC 5 cut(s) 127, 240, 380, 562, 571
HpyCH4III ACNGT 1 cut(s) 325
HpyCH4IV ACGT 1 cut(s) 285
HpyCH4V TGCA 1 cut(s) 749
HpyF10VI GCNNNNNNNGC 3 cut(s) 416, 492, 686
HpyF3I CTNAG 1 cut(s) 620
HpySE526I ACGT 1 cut(s) 285
Hsp92II CATG 2 cut(s) 530, 743
Kzo9I GATC 1 cut(s) 599
LmnI GCTCC 6 cut(s) 133, 343, 415, 441, 583, 822
Lsp1109I GCAGC 3 cut(s) 91, 326, 428
MaeI CTAG 2 cut(s) 60, 276
MaeII ACGT 1 cut(s) 285
MaeIII GTNAC 4 cut(s) 31, 259, 290, 469
MalI GATC 1 cut(s) 601
MboI GATC 1 cut(s) 599
MboII GAAGA 5 cut(s) 15, 66, 163, 581, 779
MflI RGATCY 1 cut(s) 599
MhlI GDGCHC 2 cut(s) 143, 333
MlsI TGGCCA 1 cut(s) 606
MluCI AATT 4 cut(s) 477, 518, 683, 709
MluNI TGGCCA 1 cut(s) 606
MlyI GAGTC 2 cut(s) 142, 518
MmeI TCCRAC 1 cut(s) 159
MnlI CCTC 7 cut(s) 57, 86, 147, 547, 597, 629, 800
Mox20I TGGCCA 1 cut(s) 606
MscI TGGCCA 1 cut(s) 606
MseI TTAA 3 cut(s) 615, 786, 798
MslI CAYNNNNRTG 1 cut(s) 744
Msp20I TGGCCA 1 cut(s) 606
MspI CCGG 2 cut(s) 255, 382
MspR9I CCNGG 3 cut(s) 382, 383, 488
Mva1269I GAATGC 1 cut(s) 368
MvaI CCWGG 1 cut(s) 488
MwoI GCNNNNNNNGC 3 cut(s) 416, 492, 686
NciI CCSGG 2 cut(s) 382, 383
NdeII GATC 1 cut(s) 599
NlaIII CATG 2 cut(s) 530, 743
NlaIV GGNNCC 2 cut(s) 273, 585
NmuCI GTSAC 4 cut(s) 31, 259, 290, 469
NspI RCATGY 1 cut(s) 743
PaeI GCATGC 1 cut(s) 743
PaqCI CACCTGC 1 cut(s) 410
PctI GAATGC 1 cut(s) 368
PfeI GAWTC 2 cut(s) 359, 770
PkrI GCNGC 4 cut(s) 81, 214, 316, 418
PleI GAGTC 2 cut(s) 141, 517
PpsI GAGTC 2 cut(s) 141, 517
Ppu21I YACGTR 1 cut(s) 286
PsiI TTATAA 1 cut(s) 537
Psp124BI GAGCTC 1 cut(s) 143
Psp6I CCWGG 1 cut(s) 486
PspGI CCWGG 1 cut(s) 486
PspN4I GGNNCC 2 cut(s) 273, 585
PspPI GGNCC 1 cut(s) 775
PstNI CAGNNNCTG 1 cut(s) 70
PsuI RGATCY 1 cut(s) 599
RsaI GTAC 1 cut(s) 725
RsaNI GTAC 1 cut(s) 724
RseI CAYNNNNRTG 1 cut(s) 744
SacI GAGCTC 1 cut(s) 143
SalI GTCGAC 1 cut(s) 145
SaqAI TTAA 3 cut(s) 615, 786, 798
SatI GCNGC 4 cut(s) 80, 213, 315, 417
Sau3AI GATC 1 cut(s) 599
Sau96I GGNCC 1 cut(s) 775
SchI GAGTC 2 cut(s) 142, 518
ScrFI CCNGG 3 cut(s) 382, 383, 488
SduI GDGCHC 2 cut(s) 143, 333
SfcI CTRYAG 1 cut(s) 324
SgrDI CGTCGACG 1 cut(s) 145
SmaI CCCGGG 1 cut(s) 383
SmiMI CAYNNNNRTG 1 cut(s) 744
SphI GCATGC 1 cut(s) 743
Sse9I AATT 4 cut(s) 477, 518, 683, 709
SsiI CCGC 3 cut(s) 210, 213, 252
SspMI CTAG 2 cut(s) 60, 276
SstI GAGCTC 1 cut(s) 143
StyD4I CCNGG 3 cut(s) 380, 381, 486
StyI CCWWGG 3 cut(s) 275, 354, 496
TaaI ACNGT 1 cut(s) 325
TaiI ACGT 1 cut(s) 288
TaqI TCGA 3 cut(s) 146, 189, 296
TasI AATT 4 cut(s) 477, 518, 683, 709
TauI GCSGC 1 cut(s) 215
TfiI GAWTC 2 cut(s) 359, 770
Tru1I TTAA 3 cut(s) 615, 786, 798
Tru9I TTAA 3 cut(s) 615, 786, 798
TscAI CASTG 2 cut(s) 474, 628
TseFI GTSAC 4 cut(s) 31, 259, 290, 469
TseI GCWGC 3 cut(s) 79, 314, 416
Tsp45I GTSAC 4 cut(s) 31, 259, 290, 469
TspGWI ACGGA 2 cut(s) 612, 819
TspMI CCCGGG 1 cut(s) 381
TspRI CASTG 2 cut(s) 474, 628
XapI RAATTY 2 cut(s) 518, 683
XceI RCATGY 1 cut(s) 743
XmaI CCCGGG 1 cut(s) 381
XmaJI CCTAGG 1 cut(s) 275
XmiI GTMKAC 1 cut(s) 146
XspI CTAG 2 cut(s) 60, 276
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.