Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0008093

Physical Location & Seq

Genomic Coordinates Reverse (-)

76450729 .. 76453568

Gene Structure 2840 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00055060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 741 bp

ATGCTCCTGCATCCTATCAAACTGCTCCGATGGTGGCTTCTGGAACTCCTGCTGTGGCCATCCCCTTCCCCAACACAGCCACCCCCGACATTCTCTAATTCCCCACATCAGATAGCCTACCAGCAAGCCCAGCACTTCCACAGCCAGCAGCAGCAGCAGCAGCAACAGCAGCTTCAGGTGTTCTGGGGCAACCAAATGCAAGACATTGAGCAAACAACGGACTTCAAGAATCACAGCCTTCCACTTGCTAGAATTAAGAAAATCATGAAAGCTGATGAGGATGTCCGAATGATATCAGCTGAGGCTCCAGTGATATTTGCAAAGGCATGTGAAATATTCATCTTGGAGCTGACTTTGCGCTCATGGATTCACACAGAAGAGAACAAGAGGAGAACATTACAAAAGAATGATATTGCAGCTGCTATTTCAAGGACTGATGTGTTCGATTTTCTGGTTGATATTATACCAAGAGATGAGTTGAAAGAGGAGGGACTTGGAGTGACCAAGGCCAACATCCCTGTGGTGGGTTCTGCGGCAGATGTTCCATACTACTATGTTCCACCACAGCATCCTGTTGGTGCTCCTGGGATGATCATGGGGAAGCCAGTGGATCAAGCAACAATGTATGGTGCTCAACAGCCTCGGCCACCTATGGCTTTCATGCCCTGGGCTCAGTCCCAACCTCAACAGCCGCTGCCACAGAAGCAACAACAAACCCAACAGCAGCAGACAGACAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0005737 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016602 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0090575 GO:0140110 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

246

Amino Acids

28.22

Weight (kDa)

6.37

Isoelectric Point (pI)

71.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	71 - 142	7.8e-18	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	79 - 142	4.5e-16	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008093)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56170 AT1G56170
fragaria_vesca	FvH4_3g14690 FvH4_3g14690 FvH4_3g14690
malus_domestica	MD05G1229600.v1.1 MD10G1208800.v1.1
prunus_persica	Prupe.4G132200_v2.0.a1
pyrus_communis	pycom05g21060 pycom10g17760
rosa_chinensis	RchiOBHm_Chr5g0024181
rosa_laevigata	RLG00000032777
rosa_multiflora	Rmu_co8304163.1_g000001 Rmu_sc0004033.1_g000008 Rmu_sc0039918.1_g000001
rosa_roxburghii	Rroxscaffold_1G00055060 Rroxscaffold_1G00055710
rosa_rugosa	Rorug05G0082300 Rorug05G0082400
rosa_samantha	Rh5AG172900 Rh5BG169500 Rh5CG185400 Rh5DG171900
rosa_wichuraiana	Rw5G015600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	533, 692
AclWI	GGATC	1 cut(s)	618
AcoI	YGGCCR	2 cut(s)	56, 644
AcuI	CTGAAG	1 cut(s)	158
AfiI	CCNNNNNNNGG	2 cut(s)	523, 524
AgsI	TTSAA	3 cut(s)	226, 429, 481
AjnI	CCWGG	2 cut(s)	583, 665
AluBI	AGCT	5 cut(s)	172, 272, 299, 349, 419
AluI	AGCT	5 cut(s)	172, 272, 299, 349, 419
Alw21I	GWGCWC	2 cut(s)	583, 634
AlwI	GGATC	1 cut(s)	618
AlwNI	CAGNNNCTG	1 cut(s)	694
AoxI	GGCC	3 cut(s)	56, 507, 644
AspLEI	GCGC	1 cut(s)	360
BalI	TGGCCA	1 cut(s)	58
BanII	GRGCYC	1 cut(s)	673
Bbv12I	GWGCWC	2 cut(s)	583, 634
BbvCI	CCTCAGC	1 cut(s)	300
BccI	CCATC	2 cut(s)	24, 67
BciT130I	CCWGG	2 cut(s)	585, 667
BclI	TGATCA	1 cut(s)	591
BfaI	CTAG	1 cut(s)	249
Bme1390I	CCNGG	2 cut(s)	585, 667
BmiI	GGNNCC	1 cut(s)	306
BmrFI	CCNGG	2 cut(s)	585, 667
BmsI	GCATC	2 cut(s)	19, 577
BpmI	CTGGAG	1 cut(s)	291
Bpu10I	CCTNAGC	1 cut(s)	300
BsaJI	CCNNGG	5 cut(s)	504, 584, 641, 665, 666
Bsc4I	CCNNNNNNNGG	2 cut(s)	523, 524
Bse1I	ACTGG	2 cut(s)	308, 605
BseBI	CCWGG	2 cut(s)	585, 667
BseDI	CCNNGG	5 cut(s)	504, 584, 641, 665, 666
BseGI	GGATG	6 cut(s)	10, 59, 286, 513, 568, 594
BseLI	CCNNNNNNNGG	2 cut(s)	523, 524
BseMII	CTCAG	2 cut(s)	291, 686
BseNI	ACTGG	2 cut(s)	308, 605
BseRI	GAGGAG	2 cut(s)	403, 500
BseYI	CCCAGC	1 cut(s)	129
BshFI	GGCC	3 cut(s)	58, 509, 646
BsiHKAI	GWGCWC	2 cut(s)	583, 634
BslFI	GGGAC	2 cut(s)	504, 661
BslI	CCNNNNNNNGG	2 cut(s)	523, 524
BsmFI	GGGAC	2 cut(s)	504, 661
BsnI	GGCC	3 cut(s)	58, 509, 646
Bsp1286I	GDGCHC	3 cut(s)	583, 634, 673
Bsp143I	GATC	2 cut(s)	591, 610
BspACI	CCGC	2 cut(s)	533, 692
BspANI	GGCC	3 cut(s)	58, 509, 646
BspCNI	CTCAG	2 cut(s)	292, 685
BspHI	TCATGA	1 cut(s)	264
BspLI	GGNNCC	1 cut(s)	306
BspPI	GGATC	1 cut(s)	618
BsrI	ACTGG	2 cut(s)	308, 605
BssECI	CCNNGG	5 cut(s)	504, 584, 641, 665, 666
BssMI	GATC	2 cut(s)	591, 610
BssT1I	CCWWGG	1 cut(s)	504
Bst2UI	CCWGG	2 cut(s)	585, 667
Bst6I	CTCTTC	1 cut(s)	372
BstC8I	GCNNGC	2 cut(s)	126, 146
BstDEI	CTNAG	2 cut(s)	300, 672
BstF5I	GGATG	6 cut(s)	10, 59, 286, 513, 568, 594
BstHHI	GCGC	1 cut(s)	360
BstKTI	GATC	2 cut(s)	594, 613
BstMBI	GATC	2 cut(s)	591, 610
BstMWI	GCNNNNNNNGC	8 cut(s)	130, 154, 157, 160, 166, 169, 355, 703
BstNI	CCWGG	2 cut(s)	585, 667
BstNSI	RCATGY	1 cut(s)	330
BstSCI	CCNGG	2 cut(s)	583, 665
BsuRI	GGCC	3 cut(s)	58, 509, 646
BtsCI	GGATG	6 cut(s)	10, 59, 286, 513, 568, 594
BtsIMutI	CAGTG	2 cut(s)	315, 612
Cac8I	GCNNGC	2 cut(s)	126, 146
CaiI	CAGNNNCTG	1 cut(s)	694
CciI	TCATGA	1 cut(s)	264
CfoI	GCGC	1 cut(s)	360
CviAII	CATG	5 cut(s)	265, 327, 363, 595, 661
DdeI	CTNAG	2 cut(s)	300, 672
DpnI	GATC	2 cut(s)	593, 612
DpnII	GATC	2 cut(s)	591, 610
EaeI	YGGCCR	2 cut(s)	56, 644
Eam1104I	CTCTTC	1 cut(s)	372
EarI	CTCTTC	1 cut(s)	372
Eco130I	CCWWGG	1 cut(s)	504
Eco24I	GRGCYC	1 cut(s)	673
Eco32I	GATATC	1 cut(s)	294
Eco57I	CTGAAG	1 cut(s)	158
EcoRII	CCWGG	2 cut(s)	583, 665
EcoRV	GATATC	1 cut(s)	294
EcoT14I	CCWWGG	1 cut(s)	504
EcoT38I	GRGCYC	1 cut(s)	673
ErhI	CCWWGG	1 cut(s)	504
FaeI	CATG	5 cut(s)	268, 330, 366, 598, 664
FaqI	GGGAC	2 cut(s)	504, 661
FatI	CATG	5 cut(s)	264, 326, 362, 594, 660
FbaI	TGATCA	1 cut(s)	591
FokI	GGATG	5 cut(s)	46, 293, 500, 555, 601
FriOI	GRGCYC	1 cut(s)	673
FspBI	CTAG	1 cut(s)	249
GlaI	GCGC	1 cut(s)	359
GsaI	CCCAGC	1 cut(s)	133
GsuI	CTGGAG	1 cut(s)	291
HaeIII	GGCC	3 cut(s)	58, 509, 646
HhaI	GCGC	1 cut(s)	360
Hin1II	CATG	5 cut(s)	268, 330, 366, 598, 664
Hin6I	GCGC	1 cut(s)	358
HinP1I	GCGC	1 cut(s)	358
HinfI	GANTC	2 cut(s)	229, 367
Hpy188I	TCNGA	3 cut(s)	29, 111, 287
Hpy188III	TCNNGA	3 cut(s)	41, 226, 265
HpyAV	CCTTC	2 cut(s)	75, 248
HpyCH4V	TGCA	4 cut(s)	10, 199, 320, 416
HpyF10VI	GCNNNNNNNGC	8 cut(s)	130, 154, 157, 160, 166, 169, 355, 703
HpyF3I	CTNAG	2 cut(s)	300, 672
Hsp92II	CATG	5 cut(s)	268, 330, 366, 598, 664
HspAI	GCGC	1 cut(s)	358
Ksp22I	TGATCA	1 cut(s)	591
Kzo9I	GATC	2 cut(s)	591, 610
LmnI	GCTCC	5 cut(s)	9, 30, 310, 346, 586
LweI	GCATC	2 cut(s)	19, 577
MaeI	CTAG	1 cut(s)	249
MaeIII	GTNAC	1 cut(s)	499
MalI	GATC	2 cut(s)	593, 612
MboI	GATC	2 cut(s)	591, 610
MboII	GAAGA	1 cut(s)	389
MhlI	GDGCHC	3 cut(s)	583, 634, 673
MlsI	TGGCCA	1 cut(s)	58
MluCI	AATT	3 cut(s)	97, 252, 736
MluNI	TGGCCA	1 cut(s)	58
MnlI	CCTC	7 cut(s)	271, 295, 381, 478, 481, 651, 693
Mox20I	TGGCCA	1 cut(s)	58
MscI	TGGCCA	1 cut(s)	58
MseI	TTAA	1 cut(s)	255
MslI	CAYNNNNRTG	1 cut(s)	518
Msp20I	TGGCCA	1 cut(s)	58
MspA1I	CMGCKG	3 cut(s)	299, 419, 694
MspR9I	CCNGG	2 cut(s)	585, 667
MvaI	CCWGG	2 cut(s)	585, 667
MwoI	GCNNNNNNNGC	8 cut(s)	130, 154, 157, 160, 166, 169, 355, 703
NdeII	GATC	2 cut(s)	591, 610
NlaIII	CATG	5 cut(s)	268, 330, 366, 598, 664
NlaIV	GGNNCC	1 cut(s)	306
NmeAIII	GCCGAG	1 cut(s)	622
NmuCI	GTSAC	1 cut(s)	499
NspI	RCATGY	1 cut(s)	330
PagI	TCATGA	1 cut(s)	264
PasI	CCCWGGG	1 cut(s)	666
PfeI	GAWTC	2 cut(s)	229, 367
Psp6I	CCWGG	2 cut(s)	583, 665
PspFI	CCCAGC	1 cut(s)	129
PspGI	CCWGG	2 cut(s)	583, 665
PspN4I	GGNNCC	1 cut(s)	306
PstNI	CAGNNNCTG	1 cut(s)	694
PvuII	CAGCTG	2 cut(s)	299, 419
RseI	CAYNNNNRTG	1 cut(s)	518
SaqAI	TTAA	1 cut(s)	255
Sau3AI	GATC	2 cut(s)	591, 610
ScrFI	CCNGG	2 cut(s)	585, 667
SduI	GDGCHC	3 cut(s)	583, 634, 673
SetI	ASST	8 cut(s)	174, 180, 274, 301, 351, 421, 652, 685
SfaNI	GCATC	2 cut(s)	19, 577
SmiMI	CAYNNNNRTG	1 cut(s)	518
Sse9I	AATT	3 cut(s)	97, 252, 736
SsiI	CCGC	2 cut(s)	533, 692
SspI	AATATT	1 cut(s)	336
SspMI	CTAG	1 cut(s)	249
StyD4I	CCNGG	2 cut(s)	583, 665
StyI	CCWWGG	1 cut(s)	504
TaqI	TCGA	1 cut(s)	444
TasI	AATT	3 cut(s)	97, 252, 736
TauI	GCSGC	2 cut(s)	536, 694
TfiI	GAWTC	2 cut(s)	229, 367
Tru1I	TTAA	1 cut(s)	255
Tru9I	TTAA	1 cut(s)	255
TscAI	CASTG	2 cut(s)	315, 612
TseFI	GTSAC	1 cut(s)	499
Tsp45I	GTSAC	1 cut(s)	499
TspDTI	ATGAA	3 cut(s)	281, 328, 649
TspGWI	ACGGA	1 cut(s)	233
TspRI	CASTG	2 cut(s)	315, 612
XceI	RCATGY	1 cut(s)	330
XcmI	CCANNNNNNNNNTGG	1 cut(s)	517
XspI	CTAG	1 cut(s)	249

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