Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0008093

Physical Location & Seq

Genomic Coordinates Forward (+)

17808749 .. 17811518

Gene Structure 2770 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG169500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGGATCACTCGGAACAAACACAACAGCAGCAGCAGCAGCAACAACAACAACAGCAGCCTGTGGTTGGTGTTGTGGCCGGTTCTGGTCAGATGTCTTATGCTCCTCCGTCCTATCAAACTGCTCCGATGGTGGCTTCTGGAACTCCTGCTGTGGTCATCCCTTCCCCAACACAGCCACCCCCGACATTCTCTAATTCCCCACATCAGATAGCCTACCAGCAAGCCCAGCACTTCCACAGCCAACAGCAGCAGCAACAACAACAGCAGCTTCAGGTGTTCTGGGGCAACCAAATGCAAGACATTGAGCAAACAACTGACTTCAAGAATCACAGCCTTCCACTTGCTAGAATTAAGAAAATCATGAAAGCTGATGAGGATGTCCGAATGATATCAGCTGAGGCTCCAGTGATATTTGCAAAGGCATGTGAAATATTCATCTTGGAGCTGACTTTGCGCTCATGGATTCACACAGAAGAGAACAAGAGGAGAACATTACAAAAGAATGATATTGCAGCTGCTATTTCAAGGACTGATGTGTTCGACTTTCTGGTTGATATTCTCCCAAGAGATGAGTTGAAAGAGGAGGGACTTGGAGTGACCAAGGCCAACATCCCTGTGGTGGGTTCTGCGGCAGATGTTCCATACTACTATGTTCCACCACAGCATCCTGTTGGTGCTCCTGGGATGATCATGGGGAAGCCAGTGGATCAAGCGACAATGTATGGTGCTCAACAGCCTCGGCCACCTATGGCTTTCATGCCCTGGGCTCAGTCCCAACCTCAACAGCCGCTGCCACAGCAGCAACAACAAACCCAACAACAGCAGACAGACAATTAG

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

278

Amino Acids

31.2

Weight (kDa)

5.6

Isoelectric Point (pI)

76.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	103 - 174	9.9e-18	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	111 - 174	5.6e-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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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)	629, 788
AclWI	GGATC	2 cut(s)	12, 714
AcoI	YGGCCR	2 cut(s)	75, 740
AcuI	CTGAAG	1 cut(s)	254
AfiI	CCNNNNNNNGG	3 cut(s)	65, 619, 620
AgsI	TTSAA	3 cut(s)	322, 525, 577
AjnI	CCWGG	2 cut(s)	679, 761
AluBI	AGCT	5 cut(s)	268, 368, 395, 445, 515
AluI	AGCT	5 cut(s)	268, 368, 395, 445, 515
Alw21I	GWGCWC	2 cut(s)	679, 730
AlwI	GGATC	2 cut(s)	12, 714
AlwNI	CAGNNNCTG	1 cut(s)	790
AoxI	GGCC	3 cut(s)	75, 603, 740
AspLEI	GCGC	1 cut(s)	456
BanII	GRGCYC	1 cut(s)	769
Bbv12I	GWGCWC	2 cut(s)	679, 730
BbvCI	CCTCAGC	1 cut(s)	396
BccI	CCATC	1 cut(s)	121
BciT130I	CCWGG	2 cut(s)	681, 763
BclI	TGATCA	1 cut(s)	687
BfaI	CTAG	1 cut(s)	345
Bme1390I	CCNGG	2 cut(s)	681, 763
BmiI	GGNNCC	1 cut(s)	402
BmrFI	CCNGG	2 cut(s)	681, 763
BmsI	GCATC	1 cut(s)	673
BpmI	CTGGAG	1 cut(s)	387
Bpu10I	CCTNAGC	1 cut(s)	396
BsaJI	CCNNGG	5 cut(s)	600, 680, 737, 761, 762
Bsc4I	CCNNNNNNNGG	3 cut(s)	65, 619, 620
Bse118I	RCCGGY	1 cut(s)	77
Bse1I	ACTGG	2 cut(s)	404, 701
BseBI	CCWGG	2 cut(s)	681, 763
BseDI	CCNNGG	5 cut(s)	600, 680, 737, 761, 762
BseGI	GGATG	5 cut(s)	156, 382, 609, 664, 690
BseLI	CCNNNNNNNGG	3 cut(s)	65, 619, 620
BseMII	CTCAG	2 cut(s)	387, 782
BseNI	ACTGG	2 cut(s)	404, 701
BseRI	GAGGAG	3 cut(s)	93, 499, 596
BseYI	CCCAGC	1 cut(s)	225
BshFI	GGCC	3 cut(s)	77, 605, 742
BsiHKAI	GWGCWC	2 cut(s)	679, 730
BsiSI	CCGG	1 cut(s)	78
BslFI	GGGAC	2 cut(s)	600, 757
BslI	CCNNNNNNNGG	3 cut(s)	65, 619, 620
BsmFI	GGGAC	2 cut(s)	600, 757
BsnI	GGCC	3 cut(s)	77, 605, 742
Bsp1286I	GDGCHC	3 cut(s)	679, 730, 769
Bsp143I	GATC	3 cut(s)	4, 687, 706
BspACI	CCGC	2 cut(s)	629, 788
BspANI	GGCC	3 cut(s)	77, 605, 742
BspCNI	CTCAG	2 cut(s)	388, 781
BspHI	TCATGA	1 cut(s)	360
BspLI	GGNNCC	1 cut(s)	402
BspPI	GGATC	2 cut(s)	12, 714
BsrFI	RCCGGY	1 cut(s)	77
BsrI	ACTGG	2 cut(s)	404, 701
BssAI	RCCGGY	1 cut(s)	77
BssECI	CCNNGG	5 cut(s)	600, 680, 737, 761, 762
BssMI	GATC	3 cut(s)	4, 687, 706
BssT1I	CCWWGG	1 cut(s)	600
Bst2UI	CCWGG	2 cut(s)	681, 763
Bst6I	CTCTTC	1 cut(s)	468
BstC8I	GCNNGC	1 cut(s)	222
BstDEI	CTNAG	2 cut(s)	396, 768
BstF5I	GGATG	5 cut(s)	156, 382, 609, 664, 690
BstHHI	GCGC	1 cut(s)	456
BstKTI	GATC	3 cut(s)	7, 690, 709
BstMBI	GATC	3 cut(s)	4, 687, 706
BstMWI	GCNNNNNNNGC	6 cut(s)	34, 37, 226, 451, 796, 799
BstNI	CCWGG	2 cut(s)	681, 763
BstNSI	RCATGY	1 cut(s)	426
BstSCI	CCNGG	2 cut(s)	679, 761
BsuRI	GGCC	3 cut(s)	77, 605, 742
BtsCI	GGATG	5 cut(s)	156, 382, 609, 664, 690
BtsIMutI	CAGTG	2 cut(s)	411, 708
Cac8I	GCNNGC	1 cut(s)	222
CaiI	CAGNNNCTG	1 cut(s)	790
CciI	TCATGA	1 cut(s)	360
CfoI	GCGC	1 cut(s)	456
Cfr10I	RCCGGY	1 cut(s)	77
CviAII	CATG	5 cut(s)	361, 423, 459, 691, 757
DdeI	CTNAG	2 cut(s)	396, 768
DpnI	GATC	3 cut(s)	6, 689, 708
DpnII	GATC	3 cut(s)	4, 687, 706
EaeI	YGGCCR	2 cut(s)	75, 740
Eam1104I	CTCTTC	1 cut(s)	468
EarI	CTCTTC	1 cut(s)	468
Eco130I	CCWWGG	1 cut(s)	600
Eco24I	GRGCYC	1 cut(s)	769
Eco32I	GATATC	1 cut(s)	390
Eco57I	CTGAAG	1 cut(s)	254
EcoRII	CCWGG	2 cut(s)	679, 761
EcoRV	GATATC	1 cut(s)	390
EcoT14I	CCWWGG	1 cut(s)	600
EcoT38I	GRGCYC	1 cut(s)	769
ErhI	CCWWGG	1 cut(s)	600
FaeI	CATG	5 cut(s)	364, 426, 462, 694, 760
FaqI	GGGAC	2 cut(s)	600, 757
FatI	CATG	5 cut(s)	360, 422, 458, 690, 756
FbaI	TGATCA	1 cut(s)	687
FokI	GGATG	5 cut(s)	143, 389, 596, 651, 697
FriOI	GRGCYC	1 cut(s)	769
FspBI	CTAG	1 cut(s)	345
GlaI	GCGC	1 cut(s)	455
GsaI	CCCAGC	1 cut(s)	229
GsuI	CTGGAG	1 cut(s)	387
HaeIII	GGCC	3 cut(s)	77, 605, 742
HapII	CCGG	1 cut(s)	78
HhaI	GCGC	1 cut(s)	456
Hin1II	CATG	5 cut(s)	364, 426, 462, 694, 760
Hin6I	GCGC	1 cut(s)	454
HinP1I	GCGC	1 cut(s)	454
HinfI	GANTC	2 cut(s)	325, 463
HpaII	CCGG	1 cut(s)	78
Hpy188I	TCNGA	5 cut(s)	13, 90, 126, 207, 383
Hpy188III	TCNNGA	3 cut(s)	138, 322, 361
HpyAV	CCTTC	2 cut(s)	171, 344
HpyCH4V	TGCA	3 cut(s)	295, 416, 512
HpyF10VI	GCNNNNNNNGC	6 cut(s)	34, 37, 226, 451, 796, 799
HpyF3I	CTNAG	2 cut(s)	396, 768
Hsp92II	CATG	5 cut(s)	364, 426, 462, 694, 760
HspAI	GCGC	1 cut(s)	454
Ksp22I	TGATCA	1 cut(s)	687
Kzo9I	GATC	3 cut(s)	4, 687, 706
LmnI	GCTCC	5 cut(s)	106, 127, 406, 442, 682
LweI	GCATC	1 cut(s)	673
MaeI	CTAG	1 cut(s)	345
MaeIII	GTNAC	1 cut(s)	595
MalI	GATC	3 cut(s)	6, 689, 708
MboI	GATC	3 cut(s)	4, 687, 706
MboII	GAAGA	1 cut(s)	485
MhlI	GDGCHC	3 cut(s)	679, 730, 769
MluCI	AATT	3 cut(s)	193, 348, 832
MnlI	CCTC	8 cut(s)	114, 367, 391, 477, 574, 577, 747, 789
MseI	TTAA	1 cut(s)	351
MslI	CAYNNNNRTG	1 cut(s)	614
MspA1I	CMGCKG	3 cut(s)	395, 515, 790
MspI	CCGG	1 cut(s)	78
MspR9I	CCNGG	2 cut(s)	681, 763
MvaI	CCWGG	2 cut(s)	681, 763
MwoI	GCNNNNNNNGC	6 cut(s)	34, 37, 226, 451, 796, 799
NdeII	GATC	3 cut(s)	4, 687, 706
NlaIII	CATG	5 cut(s)	364, 426, 462, 694, 760
NlaIV	GGNNCC	1 cut(s)	402
NmeAIII	GCCGAG	1 cut(s)	718
NmuCI	GTSAC	1 cut(s)	595
NspI	RCATGY	1 cut(s)	426
PagI	TCATGA	1 cut(s)	360
PasI	CCCWGGG	1 cut(s)	762
PfeI	GAWTC	2 cut(s)	325, 463
Psp6I	CCWGG	2 cut(s)	679, 761
PspFI	CCCAGC	1 cut(s)	225
PspGI	CCWGG	2 cut(s)	679, 761
PspN4I	GGNNCC	1 cut(s)	402
PstNI	CAGNNNCTG	1 cut(s)	790
PvuII	CAGCTG	2 cut(s)	395, 515
RseI	CAYNNNNRTG	1 cut(s)	614
SaqAI	TTAA	1 cut(s)	351
Sau3AI	GATC	3 cut(s)	4, 687, 706
ScrFI	CCNGG	2 cut(s)	681, 763
SduI	GDGCHC	3 cut(s)	679, 730, 769
SetI	ASST	8 cut(s)	270, 276, 370, 397, 447, 517, 748, 781
SfaNI	GCATC	1 cut(s)	673
SmiMI	CAYNNNNRTG	1 cut(s)	614
Sse9I	AATT	3 cut(s)	193, 348, 832
SsiI	CCGC	2 cut(s)	629, 788
SspI	AATATT	1 cut(s)	432
SspMI	CTAG	1 cut(s)	345
StyD4I	CCNGG	2 cut(s)	679, 761
StyI	CCWWGG	1 cut(s)	600
TaqI	TCGA	1 cut(s)	540
TasI	AATT	3 cut(s)	193, 348, 832
TauI	GCSGC	2 cut(s)	632, 790
TfiI	GAWTC	2 cut(s)	325, 463
Tru1I	TTAA	1 cut(s)	351
Tru9I	TTAA	1 cut(s)	351
TscAI	CASTG	2 cut(s)	411, 708
TseFI	GTSAC	1 cut(s)	595
Tsp45I	GTSAC	1 cut(s)	595
TspDTI	ATGAA	3 cut(s)	377, 424, 745
TspGWI	ACGGA	1 cut(s)	96
TspRI	CASTG	2 cut(s)	411, 708
XceI	RCATGY	1 cut(s)	426
XcmI	CCANNNNNNNNNTGG	1 cut(s)	613
XspI	CTAG	1 cut(s)	345

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