Rw5G033320

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0014888
Physical Location & Seq
Reverse (-)
56510519 .. 56511120
602 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G033320.1

Sequence Viewer

Length: 570 bp
ATGGCGGACTCGGACAACGACTCGGGAGGCGGGCACAACAGCCCCGGAGGTTACACGAAGAGCGAGCTGTCACCTCGGGAACAGGACCGGCTGTTGCCAATTGCCAACGTCAGCAGGATCATGAAGAAGGCGCTGCCGGCCAACGCCAAGATCTCCAAGGACGCCAAGGAGACCGTGCAGGAGTGCGTCTCCGAGTTCATAAGCTTCATCACCGGCGAGGCCTCCGACAAGTGCCAGCGCGAGAAGCGGAAGACCATCAACGGCGACGATTTGCTCTGGGCCATGACCACCCTCGGCTTCGAGGAGTACGTCGAGCCGCTCAAGGTCTACTTGCAGCGCTTCAGGGAGATGGAGGGCGAGAAGAGTAGCATGGCCGCGCGTGATAAGGACCCCAGCGGCGGGGTTGTTGTGTTCGAGGGCGCTGGGAGCGGCGGCGGCGGCGGAGGAGGGGGAGGAGTCTACTGGCAGCAGCCGCAGCCGCAGCAGCAGCAGCAGCCGCAGCCGCAGCCAGGGACACGTTTGGGATTGGGAAAGGGTGGGCCCGGGTCCAACATGGGTAGGCCCAGATGA

Protein Analysis

189

Amino Acids

20.26

Weight (kDa)

6.62

Isoelectric Point (pI)

52.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 26 - 95 5.1e-06 Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF PF00808 31 - 95 1.9e-27 Histone-like transcription factor (CBF/NF-Y) and archaeal histone
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: OG0014888)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G47640
fragaria_vesca FvH4_3g29360
malus_domestica MD03G1183400.v1.1 MD11G1200400.v1.1
prunus_persica Prupe.4G242700_v2.0.a1
pyrus_communis pycom03g13700 pycom11g17280
rosa_chinensis RchiOBHm_Chr5g0053731
rosa_laevigata RLG00000034898
rosa_multiflora Rmu_sc0001759.1_g000047
rosa_roxburghii Rroxscaffold_1G00026870
rosa_rugosa Rorug05G0281800
rosa_samantha Rh5AG352700 Rh5BG364400 Rh5DG379200
rosa_wichuraiana Rw5G033320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 319, 429
AccI GTMKAC 2 cut(s) 327, 459
AccII CGCG 3 cut(s) 240, 377, 379
AclWI GGATC 1 cut(s) 125
AcoI YGGCCR 2 cut(s) 138, 372
AcuI CTGAAG 1 cut(s) 325
AcyI GRCGYC 1 cut(s) 162
AfaI GTAC 1 cut(s) 308
AfeI AGCGCT 1 cut(s) 338
AfiI CCNNNNNNNGG 3 cut(s) 398, 399, 509
AflIII ACRYGT 1 cut(s) 515
AjnI CCWGG 1 cut(s) 508
AluBI AGCT 2 cut(s) 67, 204
AluI AGCT 2 cut(s) 67, 204
Alw26I GTCTC 2 cut(s) 164, 193
AlwI GGATC 1 cut(s) 125
Ama87I CYCGRG 3 cut(s) 22, 75, 542
Aor51HI AGCGCT 1 cut(s) 338
AoxI GGCC 6 cut(s) 138, 219, 279, 372, 539, 560
ApaI GGGCCC 1 cut(s) 543
AspLEI GCGC 5 cut(s) 133, 240, 339, 379, 422
AspS9I GGNCC 7 cut(s) 85, 279, 388, 539, 540, 546, 561
AsuC2I CCSGG 3 cut(s) 45, 543, 544
AsuHPI GGTGA 2 cut(s) 63, 202
AvaI CYCGRG 3 cut(s) 22, 75, 542
AvaII GGWCC 3 cut(s) 85, 388, 546
BaeGI GKGCMC 2 cut(s) 36, 543
BanII GRGCYC 1 cut(s) 543
BbsI GAAGAC 1 cut(s) 257
BccI CCATC 2 cut(s) 263, 343
BceAI ACGGC 1 cut(s) 277
BciT130I CCWGG 1 cut(s) 510
BcnI CCSGG 3 cut(s) 45, 543, 544
BcoDI GTCTC 2 cut(s) 164, 193
BfoI RGCGCY 3 cut(s) 134, 340, 423
BglII AGATCT 1 cut(s) 150
Bme1390I CCNGG 4 cut(s) 45, 510, 543, 544
Bme18I GGWCC 3 cut(s) 85, 388, 546
BmeT110I CYCGRG 3 cut(s) 22, 75, 542
BmgT120I GGNCC 7 cut(s) 85, 279, 388, 539, 540, 546, 561
BmiI GGNNCC 3 cut(s) 390, 541, 547
BmrFI CCNGG 4 cut(s) 45, 510, 543, 544
BpiI GAAGAC 1 cut(s) 257
BplI GAGNNNNNCTC 2 cut(s) 173, 205
BpuEI CTTGAG 1 cut(s) 305
BpuMI CCSGG 3 cut(s) 45, 543, 544
BsaHI GRCGYC 1 cut(s) 162
BsaI GGTCTC 1 cut(s) 164
BsaJI CCNNGG 7 cut(s) 43, 74, 156, 165, 292, 509, 542
Bsc4I CCNNNNNNNGG 3 cut(s) 398, 399, 509
Bse118I RCCGGY 3 cut(s) 87, 136, 212
Bse1I ACTGG 1 cut(s) 467
BseBI CCWGG 1 cut(s) 510
BseDI CCNNGG 7 cut(s) 43, 74, 156, 165, 292, 509, 542
BseLI CCNNNNNNNGG 3 cut(s) 398, 399, 509
BseNI ACTGG 1 cut(s) 467
BseRI GAGGAG 3 cut(s) 317, 459, 468
BseSI GKGCMC 2 cut(s) 36, 543
BseYI CCCAGC 2 cut(s) 392, 422
BsgI GTGCAG 1 cut(s) 197
Bsh1236I CGCG 3 cut(s) 240, 377, 379
BshFI GGCC 6 cut(s) 140, 221, 281, 374, 541, 562
BsiHKCI CYCGRG 3 cut(s) 22, 75, 542
BsiSI CCGG 5 cut(s) 45, 88, 137, 213, 543
BslFI GGGAC 1 cut(s) 526
BslI CCNNNNNNNGG 3 cut(s) 398, 399, 509
BsmAI GTCTC 2 cut(s) 164, 193
BsmBI CGTCTC 1 cut(s) 193
BsmFI GGGAC 1 cut(s) 526
BsnI GGCC 6 cut(s) 140, 221, 281, 374, 541, 562
Bso31I GGTCTC 1 cut(s) 164
BsoBI CYCGRG 3 cut(s) 22, 75, 542
Bsp120I GGGCCC 1 cut(s) 539
Bsp1286I GDGCHC 2 cut(s) 36, 543
Bsp143I GATC 2 cut(s) 117, 150
BspANI GGCC 6 cut(s) 140, 221, 281, 374, 541, 562
BspFNI CGCG 3 cut(s) 240, 377, 379
BspHI TCATGA 1 cut(s) 120
BspLI GGNNCC 3 cut(s) 390, 541, 547
BspPI GGATC 1 cut(s) 125
BspQI GCTCTTC 1 cut(s) 53
BspTNI GGTCTC 1 cut(s) 164
BsrBI CCGCTC 2 cut(s) 319, 429
BsrFI RCCGGY 3 cut(s) 87, 136, 212
BsrI ACTGG 1 cut(s) 467
BssAI RCCGGY 3 cut(s) 87, 136, 212
BssECI CCNNGG 7 cut(s) 43, 74, 156, 165, 292, 509, 542
BssMI GATC 2 cut(s) 117, 150
BssNI GRCGYC 1 cut(s) 162
BssT1I CCWWGG 2 cut(s) 156, 165
Bst2UI CCWGG 1 cut(s) 510
Bst4CI ACNGT 1 cut(s) 175
Bst6I CTCTTC 2 cut(s) 53, 356
BstACI GRCGYC 1 cut(s) 162
BstC8I GCNNGC 4 cut(s) 32, 65, 138, 236
BstFNI CGCG 3 cut(s) 240, 377, 379
BstH2I RGCGCY 3 cut(s) 134, 340, 423
BstHHI GCGC 5 cut(s) 133, 240, 339, 379, 422
BstKTI GATC 2 cut(s) 120, 153
BstMAI GTCTC 2 cut(s) 164, 193
BstMBI GATC 2 cut(s) 117, 150
BstNI CCWGG 1 cut(s) 510
BstSCI CCNGG 4 cut(s) 43, 508, 541, 542
BstSLI GKGCMC 2 cut(s) 36, 543
BstUI CGCG 3 cut(s) 240, 377, 379
BstV2I GAAGAC 1 cut(s) 257
BstX2I RGATCY 1 cut(s) 150
BstYI RGATCY 1 cut(s) 150
BsuRI GGCC 6 cut(s) 140, 221, 281, 374, 541, 562
Cac8I GCNNGC 4 cut(s) 32, 65, 138, 236
CciI TCATGA 1 cut(s) 120
CfoI GCGC 5 cut(s) 133, 240, 339, 379, 422
Cfr10I RCCGGY 3 cut(s) 87, 136, 212
Cfr13I GGNCC 7 cut(s) 85, 279, 388, 539, 540, 546, 561
Cfr9I CCCGGG 1 cut(s) 542
CseI GACGC 2 cut(s) 170, 175
Csp6I GTAC 1 cut(s) 307
CviAII CATG 4 cut(s) 121, 283, 370, 553
CviQI GTAC 1 cut(s) 307
DpnI GATC 2 cut(s) 119, 152
DpnII GATC 2 cut(s) 117, 150
EaeI YGGCCR 2 cut(s) 138, 372
Eam1104I CTCTTC 2 cut(s) 53, 356
EarI CTCTTC 2 cut(s) 53, 356
EciI GGCGGA 2 cut(s) 20, 456
Eco130I CCWWGG 2 cut(s) 156, 165
Eco147I AGGCCT 1 cut(s) 221
Eco24I GRGCYC 1 cut(s) 543
Eco31I GGTCTC 1 cut(s) 164
Eco47I GGWCC 3 cut(s) 85, 388, 546
Eco47III AGCGCT 1 cut(s) 338
Eco57I CTGAAG 1 cut(s) 325
Eco88I CYCGRG 3 cut(s) 22, 75, 542
EcoO109I RGGNCCY 1 cut(s) 388
EcoRII CCWGG 1 cut(s) 508
EcoT14I CCWWGG 2 cut(s) 156, 165
EcoT38I GRGCYC 1 cut(s) 543
ErhI CCWWGG 2 cut(s) 156, 165
Esp3I CGTCTC 1 cut(s) 193
FaeI CATG 4 cut(s) 124, 286, 373, 556
FaiI YATR 5 cut(s) 122, 200, 284, 371, 554
FalI AAGNNNNNCTT 2 cut(s) 314, 346
FaqI GGGAC 1 cut(s) 526
FatI CATG 4 cut(s) 120, 282, 369, 552
FauI CCCGC 2 cut(s) 23, 392
FblI GTMKAC 2 cut(s) 327, 459
FriOI GRGCYC 1 cut(s) 543
GlaI GCGC 5 cut(s) 132, 239, 338, 378, 421
GsaI CCCAGC 2 cut(s) 396, 426
HaeII RGCGCY 3 cut(s) 134, 340, 423
HaeIII GGCC 6 cut(s) 140, 221, 281, 374, 541, 562
HapII CCGG 5 cut(s) 45, 88, 137, 213, 543
HgaI GACGC 2 cut(s) 170, 175
HhaI GCGC 5 cut(s) 133, 240, 339, 379, 422
Hin1I GRCGYC 1 cut(s) 162
Hin1II CATG 4 cut(s) 124, 286, 373, 556
Hin6I GCGC 5 cut(s) 131, 238, 337, 377, 420
HinP1I GCGC 5 cut(s) 131, 238, 337, 377, 420
HindIII AAGCTT 1 cut(s) 202
HinfI GANTC 3 cut(s) 8, 20, 456
HpaII CCGG 5 cut(s) 45, 88, 137, 213, 543
HphI GGTGA 2 cut(s) 63, 202
Hpy166II GTNNAC 2 cut(s) 328, 460
Hpy188I TCNGA 3 cut(s) 13, 193, 226
Hpy188III TCNNGA 3 cut(s) 24, 77, 121
Hpy8I GTNNAC 2 cut(s) 328, 460
Hpy99I CGWCG 2 cut(s) 269, 314
HpyAV CCTTC 1 cut(s) 121
HpyCH4III ACNGT 1 cut(s) 175
HpyCH4IV ACGT 3 cut(s) 108, 309, 517
HpyCH4V TGCA 2 cut(s) 178, 334
HpySE526I ACGT 3 cut(s) 108, 309, 517
Hsp92I GRCGYC 1 cut(s) 162
Hsp92II CATG 4 cut(s) 124, 286, 373, 556
HspAI GCGC 5 cut(s) 131, 238, 337, 377, 420
KroI GCCGGC 1 cut(s) 136
KroNI GCCGGC 1 cut(s) 138
Kzo9I GATC 2 cut(s) 117, 150
LguI GCTCTTC 1 cut(s) 53
LmnI GCTCC 1 cut(s) 426
MaeII ACGT 3 cut(s) 108, 309, 517
MaeIII GTNAC 2 cut(s) 50, 69
MalI GATC 2 cut(s) 119, 152
MbiI CCGCTC 2 cut(s) 319, 429
MboI GATC 2 cut(s) 117, 150
MboII GAAGA 4 cut(s) 70, 136, 262, 373
MfeI CAATTG 1 cut(s) 99
MflI RGATCY 1 cut(s) 150
MhlI GDGCHC 2 cut(s) 36, 543
MluCI AATT 1 cut(s) 99
MlyI GAGTC 3 cut(s) 2, 14, 465
MmeI TCCRAC 1 cut(s) 249
MroNI GCCGGC 1 cut(s) 136
MspA1I CMGCKG 1 cut(s) 396
MspI CCGG 5 cut(s) 45, 88, 137, 213, 543
MspR9I CCNGG 4 cut(s) 45, 510, 543, 544
MunI CAATTG 1 cut(s) 99
MvaI CCWGG 1 cut(s) 510
MvnI CGCG 3 cut(s) 240, 377, 379
NaeI GCCGGC 1 cut(s) 138
NciI CCSGG 3 cut(s) 45, 543, 544
NdeII GATC 2 cut(s) 117, 150
NgoMIV GCCGGC 1 cut(s) 136
NlaIII CATG 4 cut(s) 124, 286, 373, 556
NlaIV GGNNCC 3 cut(s) 390, 541, 547
NmeAIII GCCGAG 1 cut(s) 273
NmuCI GTSAC 1 cut(s) 69
PagI TCATGA 1 cut(s) 120
PceI AGGCCT 1 cut(s) 221
PciSI GCTCTTC 1 cut(s) 53
PcsI WCGNNNNNNNCGW 1 cut(s) 306
PdiI GCCGGC 1 cut(s) 138
PleI GAGTC 3 cut(s) 2, 14, 464
PpsI GAGTC 3 cut(s) 2, 14, 464
PpuMI RGGWCCY 1 cut(s) 388
Psp5II RGGWCCY 1 cut(s) 388
Psp6I CCWGG 1 cut(s) 508
PspFI CCCAGC 2 cut(s) 392, 422
PspGI CCWGG 1 cut(s) 508
PspN4I GGNNCC 3 cut(s) 390, 541, 547
PspOMI GGGCCC 1 cut(s) 539
PspPI GGNCC 7 cut(s) 85, 279, 388, 539, 540, 546, 561
PspPPI RGGWCCY 1 cut(s) 388
PsuI RGATCY 1 cut(s) 150
RsaI GTAC 1 cut(s) 308
RsaNI GTAC 1 cut(s) 307
SapI GCTCTTC 1 cut(s) 53
Sau3AI GATC 2 cut(s) 117, 150
Sau96I GGNCC 7 cut(s) 85, 279, 388, 539, 540, 546, 561
SchI GAGTC 3 cut(s) 2, 14, 465
ScrFI CCNGG 4 cut(s) 45, 510, 543, 544
SduI GDGCHC 2 cut(s) 36, 543
SetI ASST 8 cut(s) 52, 69, 76, 111, 206, 312, 327, 520
SgrAI CRCCGGYG 1 cut(s) 212
SinI GGWCC 3 cut(s) 85, 388, 546
SmaI CCCGGG 1 cut(s) 544
SmlI CTYRAG 1 cut(s) 320
SmoI CTYRAG 1 cut(s) 320
Sse9I AATT 1 cut(s) 99
SseBI AGGCCT 1 cut(s) 221
StuI AGGCCT 1 cut(s) 221
StyD4I CCNGG 4 cut(s) 43, 508, 541, 542
StyI CCWWGG 2 cut(s) 156, 165
TaaI ACNGT 1 cut(s) 175
TaiI ACGT 3 cut(s) 111, 312, 520
TaqI TCGA 3 cut(s) 300, 312, 414
TasI AATT 1 cut(s) 99
TseFI GTSAC 1 cut(s) 69
Tsp45I GTSAC 1 cut(s) 69
TspDTI ATGAA 3 cut(s) 137, 187, 196
TspMI CCCGGG 1 cut(s) 542
VpaK11BI GGWCC 3 cut(s) 85, 388, 546
XmaI CCCGGG 1 cut(s) 542
XmiI GTMKAC 2 cut(s) 327, 459
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.