RchiOBHm_Chr5g0053731

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0014888
Physical Location & Seq
Reverse (-)
56071531 .. 56072931
1401 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ33099

Sequence Viewer

Length: 603 bp
ATGGCGGACTCGGACAACGACTCGGGAGGCGGGCACAACAGCCCCGGAGGTTATACGAAGAGCGAGCTGTCACCTCGGGAACAGGACCGGCTGTTACCAATTGCCAACGTCAGTAGGATCATGAAGAAGGCGCTGCCGGCCAACGCCAAGATCTCCAAGGACGCCAAGGAGACCGTGCAGGAGTGCGTCTCCGAGTTCATAAGCTTCATCACCGGCGAGGCCTCCGACAAGTGTCAGCGCGAGAAGCGGAAGACCATCAACGGCGACGATTTGCTCTGGGCCATGACCACCCTCGGCTTCGAGGAGTACGTCGAGCCGCTCAAGGTCTACTTGCAGCGGTTTAGGGAGATGGAGGGCGAGAAGAGTAGCATGGCAGCGCGTGATAAGGACCCCAGCGGCGGGGTTGTTGTGTTCGAGGGCGCTGGGAGCGGCGGTGGCGGCGGTGGCGGTGGAGGAGGGGGAGGAGTCTATTGGCAGCAGCCGCAGCCGCAGCAGCAGCAGCAGCCGCATCAGGGACACGTGTACGGCGGTGGCGGGTTTCATCAGATGGGAGTTGGGATTGGAAAGGGTGGGCCCGGGTCCAACATGGGTAGGCCCAGATGA

Protein Analysis

200

Amino Acids

21.2

Weight (kDa)

6.44

Isoelectric Point (pI)

48.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 26 - 95 5.8e-06 Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF PF00808 31 - 95 2.2e-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 1 cut(s) 327
AccII CGCG 2 cut(s) 240, 379
AclWI GGATC 1 cut(s) 125
AcoI YGGCCR 1 cut(s) 138
AcvI CACGTG 1 cut(s) 520
AcyI GRCGYC 1 cut(s) 162
AfaI GTAC 2 cut(s) 308, 524
AfiI CCNNNNNNNGG 3 cut(s) 398, 399, 512
AflIII ACRYGT 2 cut(s) 517, 519
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, 575
AoxI GGCC 5 cut(s) 138, 219, 279, 572, 593
ApaI GGGCCC 1 cut(s) 576
AspLEI GCGC 4 cut(s) 133, 240, 379, 422
AspS9I GGNCC 7 cut(s) 85, 279, 388, 572, 573, 579, 594
AsuC2I CCSGG 3 cut(s) 45, 576, 577
AsuHPI GGTGA 2 cut(s) 63, 202
AvaI CYCGRG 3 cut(s) 22, 75, 575
AvaII GGWCC 3 cut(s) 85, 388, 579
BaeGI GKGCMC 2 cut(s) 36, 576
BanII GRGCYC 1 cut(s) 576
BbrPI CACGTG 1 cut(s) 520
BbsI GAAGAC 1 cut(s) 257
BccI CCATC 3 cut(s) 263, 343, 541
BceAI ACGGC 2 cut(s) 277, 541
BcnI CCSGG 3 cut(s) 45, 576, 577
BcoDI GTCTC 2 cut(s) 164, 193
BfoI RGCGCY 2 cut(s) 134, 423
BglII AGATCT 1 cut(s) 150
Bme1390I CCNGG 3 cut(s) 45, 576, 577
Bme18I GGWCC 3 cut(s) 85, 388, 579
BmeT110I CYCGRG 3 cut(s) 22, 75, 575
BmgT120I GGNCC 7 cut(s) 85, 279, 388, 572, 573, 579, 594
BmiI GGNNCC 3 cut(s) 390, 574, 580
BmrFI CCNGG 3 cut(s) 45, 576, 577
BmsI GCATC 1 cut(s) 517
BoxI GACNNNNGTC 1 cut(s) 231
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, 576, 577
BsaAI YACGTR 1 cut(s) 520
BsaHI GRCGYC 1 cut(s) 162
BsaI GGTCTC 1 cut(s) 164
BsaJI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 575
BsaXI ACNNNNNCTCC 2 cut(s) 418, 448
Bsc4I CCNNNNNNNGG 3 cut(s) 398, 399, 512
Bse118I RCCGGY 3 cut(s) 87, 136, 212
BseDI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 575
BseLI CCNNNNNNNGG 3 cut(s) 398, 399, 512
BseRI GAGGAG 3 cut(s) 317, 468, 477
BseSI GKGCMC 2 cut(s) 36, 576
BseYI CCCAGC 2 cut(s) 392, 422
BsgI GTGCAG 1 cut(s) 197
Bsh1236I CGCG 2 cut(s) 240, 379
BshFI GGCC 5 cut(s) 140, 221, 281, 574, 595
BsiHKCI CYCGRG 3 cut(s) 22, 75, 575
BsiSI CCGG 5 cut(s) 45, 88, 137, 213, 576
BslFI GGGAC 1 cut(s) 528
BslI CCNNNNNNNGG 3 cut(s) 398, 399, 512
BsmAI GTCTC 2 cut(s) 164, 193
BsmBI CGTCTC 1 cut(s) 193
BsmFI GGGAC 1 cut(s) 528
BsnI GGCC 5 cut(s) 140, 221, 281, 574, 595
Bso31I GGTCTC 1 cut(s) 164
BsoBI CYCGRG 3 cut(s) 22, 75, 575
Bsp120I GGGCCC 1 cut(s) 572
Bsp1286I GDGCHC 2 cut(s) 36, 576
Bsp143I GATC 2 cut(s) 117, 150
BspANI GGCC 5 cut(s) 140, 221, 281, 574, 595
BspFNI CGCG 2 cut(s) 240, 379
BspHI TCATGA 1 cut(s) 120
BspLI GGNNCC 3 cut(s) 390, 574, 580
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
BssAI RCCGGY 3 cut(s) 87, 136, 212
BssECI CCNNGG 6 cut(s) 43, 74, 156, 165, 292, 575
BssMI GATC 2 cut(s) 117, 150
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) 520
BstC8I GCNNGC 3 cut(s) 32, 65, 138
BstFNI CGCG 2 cut(s) 240, 379
BstH2I RGCGCY 2 cut(s) 134, 423
BstHHI GCGC 4 cut(s) 133, 240, 379, 422
BstKTI GATC 2 cut(s) 120, 153
BstMAI GTCTC 2 cut(s) 164, 193
BstMBI GATC 2 cut(s) 117, 150
BstPAI GACNNNNGTC 1 cut(s) 231
BstSCI CCNGG 3 cut(s) 43, 574, 575
BstSLI GKGCMC 2 cut(s) 36, 576
BstUI CGCG 2 cut(s) 240, 379
BstV2I GAAGAC 1 cut(s) 257
BstX2I RGATCY 1 cut(s) 150
BstYI RGATCY 1 cut(s) 150
BsuRI GGCC 5 cut(s) 140, 221, 281, 574, 595
Cac8I GCNNGC 3 cut(s) 32, 65, 138
CciI TCATGA 1 cut(s) 120
CfoI GCGC 4 cut(s) 133, 240, 379, 422
Cfr10I RCCGGY 3 cut(s) 87, 136, 212
Cfr13I GGNCC 7 cut(s) 85, 279, 388, 572, 573, 579, 594
Cfr9I CCCGGG 1 cut(s) 575
CseI GACGC 2 cut(s) 170, 175
Csp6I GTAC 2 cut(s) 307, 523
CviAII CATG 4 cut(s) 121, 283, 370, 586
CviQI GTAC 2 cut(s) 307, 523
DpnI GATC 2 cut(s) 119, 152
DpnII GATC 2 cut(s) 117, 150
EaeI YGGCCR 1 cut(s) 138
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) 576
Eco31I GGTCTC 1 cut(s) 164
Eco47I GGWCC 3 cut(s) 85, 388, 579
Eco72I CACGTG 1 cut(s) 520
Eco88I CYCGRG 3 cut(s) 22, 75, 575
EcoO109I RGGNCCY 1 cut(s) 388
EcoT14I CCWWGG 2 cut(s) 156, 165
EcoT38I GRGCYC 1 cut(s) 576
ErhI CCWWGG 2 cut(s) 156, 165
Esp3I CGTCTC 1 cut(s) 193
FaeI CATG 4 cut(s) 124, 286, 373, 589
FaiI YATR 6 cut(s) 54, 122, 200, 284, 371, 587
FalI AAGNNNNNCTT 2 cut(s) 314, 346
FaqI GGGAC 1 cut(s) 528
FatI CATG 4 cut(s) 120, 282, 369, 585
FauI CCCGC 3 cut(s) 23, 392, 527
FblI GTMKAC 1 cut(s) 327
FriOI GRGCYC 1 cut(s) 576
GlaI GCGC 4 cut(s) 132, 239, 378, 421
GsaI CCCAGC 2 cut(s) 396, 426
HaeII RGCGCY 2 cut(s) 134, 423
HaeIII GGCC 5 cut(s) 140, 221, 281, 574, 595
HapII CCGG 5 cut(s) 45, 88, 137, 213, 576
HgaI GACGC 2 cut(s) 170, 175
HhaI GCGC 4 cut(s) 133, 240, 379, 422
Hin1I GRCGYC 1 cut(s) 162
Hin1II CATG 4 cut(s) 124, 286, 373, 589
Hin6I GCGC 4 cut(s) 131, 238, 377, 420
HinP1I GCGC 4 cut(s) 131, 238, 377, 420
HindIII AAGCTT 1 cut(s) 202
HinfI GANTC 3 cut(s) 8, 20, 465
HpaII CCGG 5 cut(s) 45, 88, 137, 213, 576
HphI GGTGA 2 cut(s) 63, 202
Hpy166II GTNNAC 2 cut(s) 328, 523
Hpy188I TCNGA 4 cut(s) 13, 193, 226, 546
Hpy188III TCNNGA 3 cut(s) 24, 77, 121
Hpy8I GTNNAC 2 cut(s) 328, 523
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, 519
HpyCH4V TGCA 2 cut(s) 178, 334
HpySE526I ACGT 3 cut(s) 108, 309, 519
Hsp92I GRCGYC 1 cut(s) 162
Hsp92II CATG 4 cut(s) 124, 286, 373, 589
HspAI GCGC 4 cut(s) 131, 238, 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
LweI GCATC 1 cut(s) 517
MaeII ACGT 3 cut(s) 108, 309, 519
MaeIII GTNAC 2 cut(s) 69, 93
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, 576
MluCI AATT 1 cut(s) 99
MlyI GAGTC 3 cut(s) 2, 14, 474
MmeI TCCRAC 1 cut(s) 249
MroNI GCCGGC 1 cut(s) 136
MspA1I CMGCKG 2 cut(s) 337, 396
MspI CCGG 5 cut(s) 45, 88, 137, 213, 576
MspR9I CCNGG 3 cut(s) 45, 576, 577
MunI CAATTG 1 cut(s) 99
MvnI CGCG 2 cut(s) 240, 379
NaeI GCCGGC 1 cut(s) 138
NciI CCSGG 3 cut(s) 45, 576, 577
NdeII GATC 2 cut(s) 117, 150
NgoMIV GCCGGC 1 cut(s) 136
NlaIII CATG 4 cut(s) 124, 286, 373, 589
NlaIV GGNNCC 3 cut(s) 390, 574, 580
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, 473
PmaCI CACGTG 1 cut(s) 520
PmlI CACGTG 1 cut(s) 520
PpsI GAGTC 3 cut(s) 2, 14, 473
Ppu21I YACGTR 1 cut(s) 520
PpuMI RGGWCCY 1 cut(s) 388
PshAI GACNNNNGTC 1 cut(s) 231
Psp5II RGGWCCY 1 cut(s) 388
PspCI CACGTG 1 cut(s) 520
PspFI CCCAGC 2 cut(s) 392, 422
PspN4I GGNNCC 3 cut(s) 390, 574, 580
PspOMI GGGCCC 1 cut(s) 572
PspPI GGNCC 7 cut(s) 85, 279, 388, 572, 573, 579, 594
PspPPI RGGWCCY 1 cut(s) 388
PsuI RGATCY 1 cut(s) 150
RsaI GTAC 2 cut(s) 308, 524
RsaNI GTAC 2 cut(s) 307, 523
SapI GCTCTTC 1 cut(s) 53
Sau3AI GATC 2 cut(s) 117, 150
Sau96I GGNCC 7 cut(s) 85, 279, 388, 572, 573, 579, 594
SchI GAGTC 3 cut(s) 2, 14, 474
ScrFI CCNGG 3 cut(s) 45, 576, 577
SduI GDGCHC 2 cut(s) 36, 576
SetI ASST 8 cut(s) 52, 69, 76, 111, 206, 312, 327, 522
SfaNI GCATC 1 cut(s) 517
SgrAI CRCCGGYG 1 cut(s) 212
SinI GGWCC 3 cut(s) 85, 388, 579
SmaI CCCGGG 1 cut(s) 577
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 3 cut(s) 43, 574, 575
StyI CCWWGG 2 cut(s) 156, 165
TaaI ACNGT 1 cut(s) 175
TaiI ACGT 3 cut(s) 111, 312, 522
TaqI TCGA 3 cut(s) 300, 312, 414
TasI AATT 1 cut(s) 99
TauI GCSGC 7 cut(s) 319, 399, 432, 441, 484, 490, 508
TseFI GTSAC 1 cut(s) 69
Tsp45I GTSAC 1 cut(s) 69
TspDTI ATGAA 4 cut(s) 137, 187, 196, 530
TspMI CCCGGG 1 cut(s) 575
VpaK11BI GGWCC 3 cut(s) 85, 388, 579
XmaI CCCGGG 1 cut(s) 575
XmiI GTMKAC 1 cut(s) 327
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.