Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0008922

Physical Location & Seq

Genomic Coordinates Reverse (-)

308739 .. 310719

Gene Structure 1981 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG004500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGGAACAGGGAGGTTTCCATGGCTACCAAAAGACCCAAAACACGAGCTCCGGGCTGAAACTATCAGAGATCAACATGAGGCTGGCTGAGATCAACCACACCAAGAATAGCGCTGCTATCACCAACAATGGTGCTGCTGCTGCTACTACTGATGAGAATGAATGCATTGTGCGAGAGCAAGACCGTTTCATGCCCATTGCCAATGTGATCAGAATCATGCGCAAGATCCTGCCCCCGCATGCCAAGATCTCAGACGACGCCAAGGAAACAATCCAAGAGTGTGTCTCAGAGTACATCAGCTTCATCACAGGGGAGGCCAATGAGCGTTGCCAGCGTGAGCAGCGCAAGACCATTACTGCCGAAGACGTGCTGTGGGCAATGAGCAAGCTGGGGTTCGATGACTACATTGAGCCCCTCACTCTCTACCTCCACCGCTTCCGCGAGATGGAGGGAGATCGTGGCTCCATGAGGGCCGAGACTTTGATGAAGACTAGTAGCAGGGCAATGACTGCGGCAGAGTATCATGCAGCTGCAGCAGGCTCTTTCGCTGGTTTTGCTCCTTTTCATCACCATGGCTTTTTCGGATACTTGAAGGATGCGTCCATATCCAATGGGGCAGCTGGTACATCTTTGTCCCAGCAGGCTAATGCTGTTGCTGCAATGGCAAATGGTGATCACCAGGCATCACATTCCCAGTATGATGATAACAATAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003700 GO:0005488 GO:0005515 GO:0006355 GO:0007154 GO:0007165 GO:0008134 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032870 GO:0033613 GO:0033993 GO:0042221 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0140110 GO:1901700 GO:1901701 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

238

Amino Acids

26.27

Weight (kDa)

5.92

Isoelectric Point (pI)

29.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	50 - 127	1.1e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	63 - 127	5e-26	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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008922)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G47670 AT5G47670 AT5G47670
fragaria_vesca	FvH4_3g00320 FvH4_3g00320 FvH4_3g11540
malus_domestica	MD05G1361600.v1.1 MD10G1339000.v1.1
prunus_persica	Prupe.4G003800_v2.0.a1 Prupe.4G003800_v2.0.a1
pyrus_communis	pycom05g32810 pycom10g28870
rosa_chinensis	RchiOBHm_Chr5g0000501
rosa_laevigata	RLG00000030872
rosa_multiflora	Rmu_sc0003949.1_g000009
rosa_roxburghii	Rroxscaffold_1G00075680
rosa_rugosa	Rorug04G0384300
rosa_samantha	Rh5AG004100 Rh5BG005500 Rh5CG004500 Rh5DG004400
rosa_wichuraiana	Rw5G000410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	221
AccII	CGCG	1 cut(s)	441
AciI	CCGC	4 cut(s)	236, 433, 439, 512
AclWI	GGATC	1 cut(s)	220
AcyI	GRCGYC	1 cut(s)	258
AfaI	GTAC	2 cut(s)	293, 625
AfeI	AGCGCT	1 cut(s)	112
AfiI	CCNNNNNNNGG	1 cut(s)	445
AgsI	TTSAA	1 cut(s)	592
AhlI	ACTAGT	1 cut(s)	491
AjiI	CACGTC	1 cut(s)	367
AjnI	CCWGG	1 cut(s)	678
AluBI	AGCT	5 cut(s)	48, 300, 388, 530, 620
AluI	AGCT	5 cut(s)	48, 300, 388, 530, 620
Alw21I	GWGCWC	1 cut(s)	50
Alw26I	GTCTC	2 cut(s)	289, 470
AlwI	GGATC	1 cut(s)	220
Aor51HI	AGCGCT	1 cut(s)	112
AoxI	GGCC	2 cut(s)	315, 471
AspLEI	GCGC	3 cut(s)	113, 222, 345
AspS9I	GGNCC	1 cut(s)	471
AsuC2I	CCSGG	1 cut(s)	52
AsuHPI	GGTGA	4 cut(s)	112, 560, 668, 683
BanII	GRGCYC	2 cut(s)	50, 414
BarI	GAAGNNNNNNTAC	2 cut(s)	284, 316
BauI	CACGAG	1 cut(s)	43
BbsI	GAAGAC	2 cut(s)	369, 494
Bbv12I	GWGCWC	1 cut(s)	50
BccI	CCATC	1 cut(s)	439
BciT130I	CCWGG	1 cut(s)	680
BciVI	GTATCC	1 cut(s)	578
BclI	TGATCA	2 cut(s)	207, 673
BcnI	CCSGG	1 cut(s)	52
BcoDI	GTCTC	2 cut(s)	289, 470
BcuI	ACTAGT	1 cut(s)	491
BfaI	CTAG	1 cut(s)	492
BfmI	CTRYAG	1 cut(s)	531
BfoI	RGCGCY	1 cut(s)	114
BfuI	GTATCC	1 cut(s)	578
BglII	AGATCT	1 cut(s)	246
Bme1390I	CCNGG	2 cut(s)	52, 680
BmgBI	CACGTC	1 cut(s)	367
BmgT120I	GGNCC	1 cut(s)	471
BmiI	GGNNCC	1 cut(s)	463
BmrFI	CCNGG	2 cut(s)	52, 680
BmrI	ACTGGG	1 cut(s)	688
BmsI	GCATC	2 cut(s)	586, 692
BmuI	ACTGGG	1 cut(s)	688
BpiI	GAAGAC	2 cut(s)	369, 494
BplI	GAGNNNNNCTC	2 cut(s)	269, 301
BpuMI	CCSGG	1 cut(s)	52
BsaBI	GATNNNNATC	1 cut(s)	212
BsaHI	GRCGYC	1 cut(s)	258
BsaJI	CCNNGG	3 cut(s)	19, 261, 571
BsaXI	ACNNNNNCTCC	2 cut(s)	32, 62
Bsc4I	CCNNNNNNNGG	1 cut(s)	445
Bse1I	ACTGG	1 cut(s)	694
Bse3DI	GCAATG	4 cut(s)	195, 384, 510, 666
Bse8I	GATNNNNATC	1 cut(s)	212
BseBI	CCWGG	1 cut(s)	680
BseDI	CCNNGG	3 cut(s)	19, 261, 571
BseGI	GGATG	1 cut(s)	601
BseJI	GATNNNNATC	1 cut(s)	212
BseLI	CCNNNNNNNGG	1 cut(s)	445
BseMI	GCAATG	4 cut(s)	195, 384, 510, 666
BseMII	CTCAG	3 cut(s)	78, 264, 300
BseNI	ACTGG	1 cut(s)	694
BseYI	CCCAGC	2 cut(s)	388, 636
Bsh1236I	CGCG	1 cut(s)	441
BshFI	GGCC	2 cut(s)	317, 473
BsiHKAI	GWGCWC	1 cut(s)	50
BsiSI	CCGG	1 cut(s)	51
BslFI	GGGAC	1 cut(s)	619
BslI	CCNNNNNNNGG	1 cut(s)	445
BsmAI	GTCTC	2 cut(s)	289, 470
BsmFI	GGGAC	1 cut(s)	619
BsmI	GAATGC	1 cut(s)	167
BsnI	GGCC	2 cut(s)	317, 473
Bsp1286I	GDGCHC	2 cut(s)	50, 414
Bsp143I	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
Bsp19I	CCATGG	2 cut(s)	19, 571
BspACI	CCGC	4 cut(s)	236, 433, 439, 512
BspANI	GGCC	2 cut(s)	317, 473
BspCNI	CTCAG	3 cut(s)	79, 263, 299
BspFNI	CGCG	1 cut(s)	441
BspLI	GGNNCC	1 cut(s)	463
BspMAI	CTGCAG	1 cut(s)	535
BspPI	GGATC	1 cut(s)	220
BsrDI	GCAATG	4 cut(s)	195, 384, 510, 666
BsrI	ACTGG	1 cut(s)	694
BssECI	CCNNGG	3 cut(s)	19, 261, 571
BssMI	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
BssNI	GRCGYC	1 cut(s)	258
BssSI	CACGAG	1 cut(s)	43
BssT1I	CCWWGG	3 cut(s)	19, 261, 571
Bst2BI	CACGAG	1 cut(s)	43
Bst2UI	CCWGG	1 cut(s)	680
Bst4CI	ACNGT	1 cut(s)	185
BstACI	GRCGYC	1 cut(s)	258
BstAPI	GCANNNNNTGC	1 cut(s)	509
BstC8I	GCNNGC	6 cut(s)	84, 240, 332, 386, 538, 642
BstDEI	CTNAG	3 cut(s)	87, 250, 286
BstDSI	CCRYGG	2 cut(s)	19, 571
BstF5I	GGATG	1 cut(s)	601
BstFNI	CGCG	1 cut(s)	441
BstH2I	RGCGCY	1 cut(s)	114
BstHHI	GCGC	3 cut(s)	113, 222, 345
BstKTI	GATC	7 cut(s)	72, 93, 210, 228, 249, 457, 676
BstMAI	GTCTC	2 cut(s)	289, 470
BstMBI	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
BstMWI	GCNNNNNNNGC	8 cut(s)	140, 331, 340, 509, 533, 554, 656, 662
BstNI	CCWGG	1 cut(s)	680
BstNSI	RCATGY	1 cut(s)	242
BstSCI	CCNGG	2 cut(s)	50, 678
BstSFI	CTRYAG	1 cut(s)	531
BstUI	CGCG	1 cut(s)	441
BstV2I	GAAGAC	2 cut(s)	369, 494
BstX2I	RGATCY	2 cut(s)	225, 246
BstYI	RGATCY	2 cut(s)	225, 246
BsuI	GTATCC	1 cut(s)	578
BsuRI	GGCC	2 cut(s)	317, 473
BtgI	CCRYGG	2 cut(s)	19, 571
BtrI	CACGTC	1 cut(s)	367
BtsCI	GGATG	1 cut(s)	601
Cac8I	GCNNGC	6 cut(s)	84, 240, 332, 386, 538, 642
CfoI	GCGC	3 cut(s)	113, 222, 345
Cfr13I	GGNCC	1 cut(s)	471
CseI	GACGC	2 cut(s)	266, 588
Csp6I	GTAC	2 cut(s)	292, 624
CviAII	CATG	8 cut(s)	20, 76, 190, 217, 239, 466, 524, 572
CviQI	GTAC	2 cut(s)	292, 624
DdeI	CTNAG	3 cut(s)	87, 250, 286
DpnI	GATC	7 cut(s)	71, 92, 209, 227, 248, 456, 675
DpnII	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
Ecl136II	GAGCTC	1 cut(s)	48
Eco130I	CCWWGG	3 cut(s)	19, 261, 571
Eco24I	GRGCYC	2 cut(s)	50, 414
Eco47III	AGCGCT	1 cut(s)	112
Eco53kI	GAGCTC	1 cut(s)	48
EcoICRI	GAGCTC	1 cut(s)	48
EcoRII	CCWGG	1 cut(s)	678
EcoT14I	CCWWGG	3 cut(s)	19, 261, 571
EcoT22I	ATGCAT	1 cut(s)	167
EcoT38I	GRGCYC	2 cut(s)	50, 414
ErhI	CCWWGG	3 cut(s)	19, 261, 571
FaeI	CATG	8 cut(s)	23, 79, 193, 220, 242, 469, 527, 575
FaqI	GGGAC	1 cut(s)	619
FatI	CATG	8 cut(s)	19, 75, 189, 216, 238, 465, 523, 571
FauI	CCCGC	1 cut(s)	243
FbaI	TGATCA	2 cut(s)	207, 673
FokI	GGATG	1 cut(s)	608
FriOI	GRGCYC	2 cut(s)	50, 414
FspBI	CTAG	1 cut(s)	492
FspI	TGCGCA	1 cut(s)	221
GlaI	GCGC	3 cut(s)	112, 221, 344
GsaI	CCCAGC	2 cut(s)	392, 640
HaeII	RGCGCY	1 cut(s)	114
HaeIII	GGCC	2 cut(s)	317, 473
HapII	CCGG	1 cut(s)	51
HgaI	GACGC	2 cut(s)	266, 588
HhaI	GCGC	3 cut(s)	113, 222, 345
Hin1I	GRCGYC	1 cut(s)	258
Hin1II	CATG	8 cut(s)	23, 79, 193, 220, 242, 469, 527, 575
Hin6I	GCGC	3 cut(s)	111, 220, 343
HinP1I	GCGC	3 cut(s)	111, 220, 343
HinfI	GANTC	1 cut(s)	213
HpaII	CCGG	1 cut(s)	51
HphI	GGTGA	4 cut(s)	112, 560, 668, 683
Hpy188I	TCNGA	5 cut(s)	67, 212, 253, 289, 584
Hpy99I	CGWCG	1 cut(s)	260
HpyAV	CCTTC	1 cut(s)	586
HpyCH4III	ACNGT	1 cut(s)	185
HpyCH4IV	ACGT	1 cut(s)	366
HpyCH4V	TGCA	4 cut(s)	165, 527, 533, 659
HpyF10VI	GCNNNNNNNGC	8 cut(s)	140, 331, 340, 509, 533, 554, 656, 662
HpyF3I	CTNAG	3 cut(s)	87, 250, 286
HpySE526I	ACGT	1 cut(s)	366
Hsp92I	GRCGYC	1 cut(s)	258
Hsp92II	CATG	8 cut(s)	23, 79, 193, 220, 242, 469, 527, 575
HspAI	GCGC	3 cut(s)	111, 220, 343
Ksp22I	TGATCA	2 cut(s)	207, 673
Kzo9I	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
LmnI	GCTCC	3 cut(s)	53, 467, 562
LweI	GCATC	2 cut(s)	586, 692
MaeI	CTAG	1 cut(s)	492
MaeII	ACGT	1 cut(s)	366
MalI	GATC	7 cut(s)	71, 92, 209, 227, 248, 456, 675
MboI	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
MboII	GAAGA	2 cut(s)	374, 499
MflI	RGATCY	2 cut(s)	225, 246
MhlI	GDGCHC	2 cut(s)	50, 414
MnlI	CCTC	7 cut(s)	5, 72, 307, 425, 437, 442, 462
Mph1103I	ATGCAT	1 cut(s)	167
MslI	CAYNNNNRTG	1 cut(s)	570
MspA1I	CMGCKG	2 cut(s)	530, 620
MspI	CCGG	1 cut(s)	51
MspR9I	CCNGG	2 cut(s)	52, 680
Mva1269I	GAATGC	1 cut(s)	167
MvaI	CCWGG	1 cut(s)	680
MvnI	CGCG	1 cut(s)	441
MwoI	GCNNNNNNNGC	8 cut(s)	140, 331, 340, 509, 533, 554, 656, 662
NciI	CCSGG	1 cut(s)	52
NcoI	CCATGG	2 cut(s)	19, 571
NdeII	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
NlaIII	CATG	8 cut(s)	23, 79, 193, 220, 242, 469, 527, 575
NlaIV	GGNNCC	1 cut(s)	463
NmeAIII	GCCGAG	1 cut(s)	499
NsbI	TGCGCA	1 cut(s)	221
NsiI	ATGCAT	1 cut(s)	167
NspI	RCATGY	1 cut(s)	242
PaeI	GCATGC	1 cut(s)	242
PctI	GAATGC	1 cut(s)	167
PfeI	GAWTC	1 cut(s)	213
Psp124BI	GAGCTC	1 cut(s)	50
Psp6I	CCWGG	1 cut(s)	678
PspFI	CCCAGC	2 cut(s)	388, 636
PspGI	CCWGG	1 cut(s)	678
PspN4I	GGNNCC	1 cut(s)	463
PspPI	GGNCC	1 cut(s)	471
PstI	CTGCAG	1 cut(s)	535
PsuI	RGATCY	2 cut(s)	225, 246
PvuII	CAGCTG	2 cut(s)	530, 620
RsaI	GTAC	2 cut(s)	293, 625
RsaNI	GTAC	2 cut(s)	292, 624
RseI	CAYNNNNRTG	1 cut(s)	570
SacI	GAGCTC	1 cut(s)	50
Sau3AI	GATC	7 cut(s)	69, 90, 207, 225, 246, 454, 673
Sau96I	GGNCC	1 cut(s)	471
ScrFI	CCNGG	2 cut(s)	52, 680
SduI	GDGCHC	2 cut(s)	50, 414
SetI	ASST	8 cut(s)	16, 50, 302, 369, 390, 429, 532, 622
SfaNI	GCATC	2 cut(s)	586, 692
SfcI	CTRYAG	1 cut(s)	531
SmiMI	CAYNNNNRTG	1 cut(s)	570
SpeI	ACTAGT	1 cut(s)	491
SphI	GCATGC	1 cut(s)	242
SsiI	CCGC	4 cut(s)	236, 433, 439, 512
SspMI	CTAG	1 cut(s)	492
SstI	GAGCTC	1 cut(s)	50
StyD4I	CCNGG	2 cut(s)	50, 678
StyI	CCWWGG	3 cut(s)	19, 261, 571
TaaI	ACNGT	1 cut(s)	185
TaiI	ACGT	1 cut(s)	369
TaqI	TCGA	1 cut(s)	396
TatI	WGTACW	1 cut(s)	291
TauI	GCSGC	1 cut(s)	515
TfiI	GAWTC	1 cut(s)	213
TspDTI	ATGAA	5 cut(s)	174, 178, 292, 500, 554
XceI	RCATGY	1 cut(s)	242
XspI	CTAG	1 cut(s)	492
Zsp2I	ATGCAT	1 cut(s)	167

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.