Rroxscaffold_1G00026870

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014888
Physical Location & Seq
Forward (+)
33812122 .. 33812793
672 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00026870.1

Sequence Viewer

Length: 672 bp
ATGGCGGACTCGGACAACGACTCGGGAGGCGGGCACAACAGCCCCGGAGGTTATACGAAGAGCGAGCTGTCACCTCGGGAACAGGACCGGCTGTTACCAATTGCCAACGTCAGCAGGATCATGAAGAAGGCGCTGCCGGCCAACGCCAAGATCTCCAAGGACGCCAAGGAGACCGTGCAGGAGTGCGTCTCCGAGTTCATAAGCTTCATCACCGGCGAGGCCTCCGACAAGTGTCAGCGCGAGAAGCGGAAGACCATCAACGGCGACGATTTGCTCTGGGCCATGACCACCCTCGGCTTCGAGGAGTACGTCGAGCCGCTCAAGGTCTACTTGCAGCGGTTTAGGGAGATGGAGGGGGAGAAGAGTAGCATGGCCGCGCGTGATAAGGACCCGACCGGCGGGGTTGTTGTGTTTGAGGGCGCTGGGAGTGGCGGCGGCGGCGGCGGCGGTGGAGGAGGAGGGGGGGAGGAGTCTATTGGCAGCAGCAGCAGCCTCAGCAGCAGCAGCAGCCACATCAGGGACACGTGTACGGCGCTGGAGGGTTTCATCAGATGGGAGTGGGTGGGGTTGGGATTGGAAAGGGTGGGCCCGGGTCCAACATGGGTAGGCCCAGATGATTATAAAAGCTACTTCCTGCTTTTGGGGATCCCTTTATATAATTTCCATTGCTAA

Protein Analysis

223

Amino Acids

23.88

Weight (kDa)

5.02

Isoelectric Point (pI)

43.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 26 - 95 7.3e-06 Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF PF00808 31 - 95 2.7e-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)
AanI TTATAA 1 cut(s) 621
AccBSI CCGCTC 1 cut(s) 319
AccI GTMKAC 1 cut(s) 327
AccII CGCG 3 cut(s) 240, 377, 379
AclWI GGATC 3 cut(s) 125, 640, 653
AcoI YGGCCR 2 cut(s) 138, 372
AcvI CACGTG 1 cut(s) 525
AcyI GRCGYC 1 cut(s) 162
AfaI GTAC 2 cut(s) 308, 529
AfiI CCNNNNNNNGG 3 cut(s) 398, 517, 640
AflIII ACRYGT 2 cut(s) 522, 524
AluBI AGCT 3 cut(s) 67, 204, 627
AluI AGCT 3 cut(s) 67, 204, 627
Alw26I GTCTC 2 cut(s) 164, 193
AlwI GGATC 3 cut(s) 125, 640, 653
Ama87I CYCGRG 3 cut(s) 22, 75, 589
AoxI GGCC 6 cut(s) 138, 219, 279, 372, 586, 607
ApaI GGGCCC 1 cut(s) 590
AspLEI GCGC 5 cut(s) 133, 240, 379, 422, 535
AspS9I GGNCC 7 cut(s) 85, 279, 388, 586, 587, 593, 608
AsuC2I CCSGG 3 cut(s) 45, 590, 591
AsuHPI GGTGA 2 cut(s) 63, 202
AvaI CYCGRG 3 cut(s) 22, 75, 589
AvaII GGWCC 3 cut(s) 85, 388, 593
BaeGI GKGCMC 2 cut(s) 36, 590
BamHI GGATCC 1 cut(s) 645
BanII GRGCYC 1 cut(s) 590
BbrPI CACGTG 1 cut(s) 525
BbsI GAAGAC 1 cut(s) 257
BbvCI CCTCAGC 1 cut(s) 494
BccI CCATC 3 cut(s) 263, 343, 546
BceAI ACGGC 2 cut(s) 277, 546
BcnI CCSGG 3 cut(s) 45, 590, 591
BcoDI GTCTC 2 cut(s) 164, 193
BfoI RGCGCY 3 cut(s) 134, 423, 536
BglII AGATCT 1 cut(s) 150
Bme1390I CCNGG 3 cut(s) 45, 590, 591
Bme18I GGWCC 3 cut(s) 85, 388, 593
BmeT110I CYCGRG 3 cut(s) 22, 75, 589
BmgT120I GGNCC 7 cut(s) 85, 279, 388, 586, 587, 593, 608
BmiI GGNNCC 4 cut(s) 390, 588, 594, 647
BmrFI CCNGG 3 cut(s) 45, 590, 591
BoxI GACNNNNGTC 1 cut(s) 231
BpiI GAAGAC 1 cut(s) 257
BplI GAGNNNNNCTC 2 cut(s) 173, 205
BpmI CTGGAG 1 cut(s) 557
Bpu10I CCTNAGC 1 cut(s) 494
BpuEI CTTGAG 1 cut(s) 305
BpuMI CCSGG 3 cut(s) 45, 590, 591
BsaAI YACGTR 1 cut(s) 525
BsaHI GRCGYC 1 cut(s) 162
BsaI GGTCTC 1 cut(s) 164
BsaJI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 589
Bsc4I CCNNNNNNNGG 3 cut(s) 398, 517, 640
Bse118I RCCGGY 4 cut(s) 87, 136, 212, 395
Bse3DI GCAATG 1 cut(s) 664
BseDI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 589
BseLI CCNNNNNNNGG 3 cut(s) 398, 517, 640
BseMI GCAATG 1 cut(s) 664
BseMII CTCAG 1 cut(s) 508
BseRI GAGGAG 4 cut(s) 317, 468, 471, 482
BseSI GKGCMC 2 cut(s) 36, 590
BseYI CCCAGC 1 cut(s) 422
BsgI GTGCAG 1 cut(s) 197
Bsh1236I CGCG 3 cut(s) 240, 377, 379
Bsh1285I CGRYCG 1 cut(s) 396
BshFI GGCC 6 cut(s) 140, 221, 281, 374, 588, 609
BsiEI CGRYCG 1 cut(s) 396
BsiHKCI CYCGRG 3 cut(s) 22, 75, 589
BsiSI CCGG 6 cut(s) 45, 88, 137, 213, 396, 590
BslFI GGGAC 1 cut(s) 533
BslI CCNNNNNNNGG 3 cut(s) 398, 517, 640
BsmAI GTCTC 2 cut(s) 164, 193
BsmBI CGTCTC 1 cut(s) 193
BsmFI GGGAC 1 cut(s) 533
BsnI GGCC 6 cut(s) 140, 221, 281, 374, 588, 609
Bso31I GGTCTC 1 cut(s) 164
BsoBI CYCGRG 3 cut(s) 22, 75, 589
Bsp120I GGGCCC 1 cut(s) 586
Bsp1286I GDGCHC 2 cut(s) 36, 590
Bsp143I GATC 3 cut(s) 117, 150, 645
BspANI GGCC 6 cut(s) 140, 221, 281, 374, 588, 609
BspCNI CTCAG 1 cut(s) 507
BspFNI CGCG 3 cut(s) 240, 377, 379
BspHI TCATGA 1 cut(s) 120
BspLI GGNNCC 4 cut(s) 390, 588, 594, 647
BspPI GGATC 3 cut(s) 125, 640, 653
BspQI GCTCTTC 1 cut(s) 53
BspTNI GGTCTC 1 cut(s) 164
BsrBI CCGCTC 1 cut(s) 319
BsrDI GCAATG 1 cut(s) 664
BsrFI RCCGGY 4 cut(s) 87, 136, 212, 395
BssAI RCCGGY 4 cut(s) 87, 136, 212, 395
BssECI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 589
BssMI GATC 3 cut(s) 117, 150, 645
BssNI GRCGYC 1 cut(s) 162
BssT1I CCWWGG 2 cut(s) 156, 165
Bst4CI ACNGT 1 cut(s) 175
Bst6I CTCTTC 2 cut(s) 53, 356
BstACI GRCGYC 1 cut(s) 162
BstBAI YACGTR 1 cut(s) 525
BstC8I GCNNGC 3 cut(s) 32, 65, 138
BstDEI CTNAG 1 cut(s) 494
BstFNI CGCG 3 cut(s) 240, 377, 379
BstH2I RGCGCY 3 cut(s) 134, 423, 536
BstHHI GCGC 5 cut(s) 133, 240, 379, 422, 535
BstKTI GATC 3 cut(s) 120, 153, 648
BstMAI GTCTC 2 cut(s) 164, 193
BstMBI GATC 3 cut(s) 117, 150, 645
BstMCI CGRYCG 1 cut(s) 396
BstPAI GACNNNNGTC 1 cut(s) 231
BstSCI CCNGG 3 cut(s) 43, 588, 589
BstSLI GKGCMC 2 cut(s) 36, 590
BstUI CGCG 3 cut(s) 240, 377, 379
BstV2I GAAGAC 1 cut(s) 257
BstX2I RGATCY 2 cut(s) 150, 645
BstYI RGATCY 2 cut(s) 150, 645
BsuRI GGCC 6 cut(s) 140, 221, 281, 374, 588, 609
Cac8I GCNNGC 3 cut(s) 32, 65, 138
CciI TCATGA 1 cut(s) 120
CfoI GCGC 5 cut(s) 133, 240, 379, 422, 535
Cfr10I RCCGGY 4 cut(s) 87, 136, 212, 395
Cfr13I GGNCC 7 cut(s) 85, 279, 388, 586, 587, 593, 608
Cfr9I CCCGGG 1 cut(s) 589
CseI GACGC 2 cut(s) 170, 175
Csp6I GTAC 2 cut(s) 307, 528
CviAII CATG 4 cut(s) 121, 283, 370, 600
CviQI GTAC 2 cut(s) 307, 528
DdeI CTNAG 1 cut(s) 494
DpnI GATC 3 cut(s) 119, 152, 647
DpnII GATC 3 cut(s) 117, 150, 645
EaeI YGGCCR 2 cut(s) 138, 372
Eam1104I CTCTTC 2 cut(s) 53, 356
EarI CTCTTC 2 cut(s) 53, 356
EciI GGCGGA 1 cut(s) 20
Eco130I CCWWGG 2 cut(s) 156, 165
Eco147I AGGCCT 1 cut(s) 221
Eco24I GRGCYC 1 cut(s) 590
Eco31I GGTCTC 1 cut(s) 164
Eco47I GGWCC 3 cut(s) 85, 388, 593
Eco72I CACGTG 1 cut(s) 525
Eco88I CYCGRG 3 cut(s) 22, 75, 589
EcoO109I RGGNCCY 1 cut(s) 388
EcoT14I CCWWGG 2 cut(s) 156, 165
EcoT38I GRGCYC 1 cut(s) 590
ErhI CCWWGG 2 cut(s) 156, 165
Esp3I CGTCTC 1 cut(s) 193
FaeI CATG 4 cut(s) 124, 286, 373, 603
FaiI YATR 9 cut(s) 54, 122, 200, 284, 371, 601, 621, 655, 657
FalI AAGNNNNNCTT 2 cut(s) 314, 346
FaqI GGGAC 1 cut(s) 533
FatI CATG 4 cut(s) 120, 282, 369, 599
FauI CCCGC 2 cut(s) 23, 392
FblI GTMKAC 1 cut(s) 327
FriOI GRGCYC 1 cut(s) 590
GlaI GCGC 5 cut(s) 132, 239, 378, 421, 534
GsaI CCCAGC 1 cut(s) 426
GsuI CTGGAG 1 cut(s) 557
HaeII RGCGCY 3 cut(s) 134, 423, 536
HaeIII GGCC 6 cut(s) 140, 221, 281, 374, 588, 609
HapII CCGG 6 cut(s) 45, 88, 137, 213, 396, 590
HgaI GACGC 2 cut(s) 170, 175
HhaI GCGC 5 cut(s) 133, 240, 379, 422, 535
Hin1I GRCGYC 1 cut(s) 162
Hin1II CATG 4 cut(s) 124, 286, 373, 603
Hin6I GCGC 5 cut(s) 131, 238, 377, 420, 533
HinP1I GCGC 5 cut(s) 131, 238, 377, 420, 533
HindIII AAGCTT 1 cut(s) 202
HinfI GANTC 3 cut(s) 8, 20, 470
HpaII CCGG 6 cut(s) 45, 88, 137, 213, 396, 590
HphI GGTGA 2 cut(s) 63, 202
Hpy166II GTNNAC 2 cut(s) 328, 528
Hpy188I TCNGA 4 cut(s) 13, 193, 226, 551
Hpy188III TCNNGA 3 cut(s) 24, 77, 121
Hpy8I GTNNAC 2 cut(s) 328, 528
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, 524
HpyCH4V TGCA 2 cut(s) 178, 334
HpyF3I CTNAG 1 cut(s) 494
HpySE526I ACGT 3 cut(s) 108, 309, 524
Hsp92I GRCGYC 1 cut(s) 162
Hsp92II CATG 4 cut(s) 124, 286, 373, 603
HspAI GCGC 5 cut(s) 131, 238, 377, 420, 533
KroI GCCGGC 1 cut(s) 136
KroNI GCCGGC 1 cut(s) 138
Kzo9I GATC 3 cut(s) 117, 150, 645
LguI GCTCTTC 1 cut(s) 53
MaeII ACGT 3 cut(s) 108, 309, 524
MaeIII GTNAC 2 cut(s) 69, 93
MalI GATC 3 cut(s) 119, 152, 647
MbiI CCGCTC 1 cut(s) 319
MboI GATC 3 cut(s) 117, 150, 645
MboII GAAGA 4 cut(s) 70, 136, 262, 373
MfeI CAATTG 1 cut(s) 99
MflI RGATCY 2 cut(s) 150, 645
MhlI GDGCHC 2 cut(s) 36, 590
MluCI AATT 2 cut(s) 99, 658
MlyI GAGTC 3 cut(s) 2, 14, 479
MmeI TCCRAC 2 cut(s) 249, 620
MroNI GCCGGC 1 cut(s) 136
MspA1I CMGCKG 1 cut(s) 337
MspI CCGG 6 cut(s) 45, 88, 137, 213, 396, 590
MspR9I CCNGG 3 cut(s) 45, 590, 591
MunI CAATTG 1 cut(s) 99
MvnI CGCG 3 cut(s) 240, 377, 379
NaeI GCCGGC 1 cut(s) 138
NciI CCSGG 3 cut(s) 45, 590, 591
NdeII GATC 3 cut(s) 117, 150, 645
NgoMIV GCCGGC 1 cut(s) 136
NlaIII CATG 4 cut(s) 124, 286, 373, 603
NlaIV GGNNCC 4 cut(s) 390, 588, 594, 647
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, 478
PmaCI CACGTG 1 cut(s) 525
PmlI CACGTG 1 cut(s) 525
PpsI GAGTC 3 cut(s) 2, 14, 478
Ppu21I YACGTR 1 cut(s) 525
PpuMI RGGWCCY 1 cut(s) 388
PshAI GACNNNNGTC 1 cut(s) 231
PsiI TTATAA 1 cut(s) 621
Psp5II RGGWCCY 1 cut(s) 388
PspCI CACGTG 1 cut(s) 525
PspFI CCCAGC 1 cut(s) 422
PspN4I GGNNCC 4 cut(s) 390, 588, 594, 647
PspOMI GGGCCC 1 cut(s) 586
PspPI GGNCC 7 cut(s) 85, 279, 388, 586, 587, 593, 608
PspPPI RGGWCCY 1 cut(s) 388
PsuI RGATCY 2 cut(s) 150, 645
RsaI GTAC 2 cut(s) 308, 529
RsaNI GTAC 2 cut(s) 307, 528
SapI GCTCTTC 1 cut(s) 53
Sau3AI GATC 3 cut(s) 117, 150, 645
Sau96I GGNCC 7 cut(s) 85, 279, 388, 586, 587, 593, 608
SchI GAGTC 3 cut(s) 2, 14, 479
ScrFI CCNGG 3 cut(s) 45, 590, 591
SduI GDGCHC 2 cut(s) 36, 590
SetI ASST 9 cut(s) 52, 69, 76, 111, 206, 312, 327, 527, 629
SgrAI CRCCGGYG 1 cut(s) 212
SinI GGWCC 3 cut(s) 85, 388, 593
SmaI CCCGGG 1 cut(s) 591
SmlI CTYRAG 1 cut(s) 320
SmoI CTYRAG 1 cut(s) 320
Sse9I AATT 2 cut(s) 99, 658
SseBI AGGCCT 1 cut(s) 221
StuI AGGCCT 1 cut(s) 221
StyD4I CCNGG 3 cut(s) 43, 588, 589
StyI CCWWGG 2 cut(s) 156, 165
TaaI ACNGT 1 cut(s) 175
TaiI ACGT 3 cut(s) 111, 312, 527
TaqI TCGA 2 cut(s) 300, 312
TasI AATT 2 cut(s) 99, 658
TauI GCSGC 7 cut(s) 319, 377, 435, 438, 441, 444, 447
TseFI GTSAC 1 cut(s) 69
Tsp45I GTSAC 1 cut(s) 69
TspDTI ATGAA 4 cut(s) 137, 187, 196, 535
TspMI CCCGGG 1 cut(s) 589
VpaK11BI GGWCC 3 cut(s) 85, 388, 593
XmaI CCCGGG 1 cut(s) 589
XmiI GTMKAC 1 cut(s) 327
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.