Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0009988

Physical Location & Seq

Genomic Coordinates Forward (+)

65122967 .. 65126057

Gene Structure 3091 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG401400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGGCGACCCCCAAGAAAGGCACGCCCCCAAAGAAAACCAAGGAAGCACAGAAGCCAAGCACCAAAAGCAGCAAGAACGACGGCAACAAAATCAAAAAGAAGACCGGTAACGGCACCGCTGCTGCGGCGGCGGCTGTGAGATCCCCGAGCTCAAAGCCCCAGAAGAGCAGAGAGCAAAATGGGGGCAAAAGTACGAAAACACCCACCCCGAAATCCAAGAAGCCCCAGCAGAACGGAAAGCGAGTCCGGGAGGAAGAGGTGGAAGAGAAAGAGGATGTGAAGTCGTACACTTTTCCGATGGAGCGGGTTAAGAGGATTATCAGGGCCGAAGATTCCGACTTGCGCATCAGCTCCGACGCCGTTTTTCTCGTCAACAAAGCCACCGAGAAGTTCCTTGAGAAGTTGAGTGAAGATGCGCATAAATGTTGTGTTAAGGATCGCAAGAAGGCTCTTGCTTACAAGCACCTATGTAAGTTCTGTTCCCAATTTCCCATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

165

Amino Acids

18.39

Weight (kDa)

9.96

Isoelectric Point (pI)

43.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	85 - 157	2.7e-11	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	97 - 157	3.3e-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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009988)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07980 AT1G07980
fragaria_vesca	FvH4_3g32640
malus_domestica	MD03G1114400.v1.1
prunus_persica	Prupe.6G099600_v2.0.a1 Prupe.6G099600_v2.0.a1 Prupe.6G099600_v2.0.a1 Prupe.6G099600_v2.0.a1 Prupe.6G099600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0059711
rosa_laevigata	RLG00000035322
rosa_multiflora	Rmu_sc0000660.1_g000043 Rmu_sc0033761.1_g000002
rosa_roxburghii	Rroxscaffold_1G00020900
rosa_rugosa	Rorug05G0324300 Rorug05G0324400
rosa_samantha	Rh5AG389800 Rh5BG401400 Rh5CG425500 Rh5DG417800
rosa_wichuraiana	Rw5G036680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	344, 417
AccB1I	GGYRCC	1 cut(s)	113
AccBSI	CCGCTC	1 cut(s)	304
AciI	CCGC	5 cut(s)	117, 125, 128, 131, 304
AclWI	GGATC	2 cut(s)	135, 444
AcyI	GRCGYC	1 cut(s)	357
AfaI	GTAC	2 cut(s)	193, 287
AfiI	CCNNNNNNNGG	1 cut(s)	17
AgeI	ACCGGT	1 cut(s)	104
AluBI	AGCT	2 cut(s)	150, 351
AluI	AGCT	2 cut(s)	150, 351
Alw21I	GWGCWC	1 cut(s)	152
AlwI	GGATC	2 cut(s)	135, 444
Ama87I	CYCGRG	1 cut(s)	145
AoxI	GGCC	1 cut(s)	324
ApeKI	GCWGC	3 cut(s)	69, 119, 122
AsiGI	ACCGGT	1 cut(s)	104
AspLEI	GCGC	2 cut(s)	345, 418
AspS9I	GGNCC	1 cut(s)	324
AsuC2I	CCSGG	1 cut(s)	248
AvaI	CYCGRG	1 cut(s)	145
BanI	GGYRCC	1 cut(s)	113
BanII	GRGCYC	1 cut(s)	152
BbsI	GAAGAC	1 cut(s)	107
Bbv12I	GWGCWC	1 cut(s)	152
BbvI	GCAGC	3 cut(s)	81, 106, 109
BccI	CCATC	1 cut(s)	292
BceAI	ACGGC	3 cut(s)	97, 127, 344
BcnI	CCSGG	1 cut(s)	248
BisI	GCNGC	6 cut(s)	70, 120, 123, 126, 129, 132
BlsI	GCNGC	6 cut(s)	71, 121, 124, 127, 130, 133
Bme1390I	CCNGG	1 cut(s)	248
BmeT110I	CYCGRG	1 cut(s)	145
BmgT120I	GGNCC	1 cut(s)	324
BmiI	GGNNCC	1 cut(s)	115
BmrFI	CCNGG	1 cut(s)	248
BmsI	GCATC	2 cut(s)	354, 403
BpiI	GAAGAC	1 cut(s)	107
BpuEI	CTTGAG	1 cut(s)	416
BpuMI	CCSGG	1 cut(s)	248
BsaHI	GRCGYC	1 cut(s)	357
BsaJI	CCNNGG	1 cut(s)	39
BsaWI	WCCGGW	1 cut(s)	104
Bsc4I	CCNNNNNNNGG	1 cut(s)	17
Bse118I	RCCGGY	1 cut(s)	104
BseDI	CCNNGG	1 cut(s)	39
BseGI	GGATG	1 cut(s)	280
BseLI	CCNNNNNNNGG	1 cut(s)	17
BseXI	GCAGC	3 cut(s)	81, 106, 109
BseYI	CCCAGC	1 cut(s)	225
BshFI	GGCC	1 cut(s)	326
BshNI	GGYRCC	1 cut(s)	113
BshTI	ACCGGT	1 cut(s)	104
BsiHKAI	GWGCWC	1 cut(s)	152
BsiHKCI	CYCGRG	1 cut(s)	145
BsiSI	CCGG	2 cut(s)	105, 247
BslI	CCNNNNNNNGG	1 cut(s)	17
BsnI	GGCC	1 cut(s)	326
BsoBI	CYCGRG	1 cut(s)	145
Bsp1286I	GDGCHC	1 cut(s)	152
Bsp143I	GATC	2 cut(s)	140, 436
BspACI	CCGC	5 cut(s)	117, 125, 128, 131, 304
BspANI	GGCC	1 cut(s)	326
BspLI	GGNNCC	1 cut(s)	115
BspPI	GGATC	2 cut(s)	135, 444
BspQI	GCTCTTC	1 cut(s)	158
BspT107I	GGYRCC	1 cut(s)	113
BsrBI	CCGCTC	1 cut(s)	304
BsrFI	RCCGGY	1 cut(s)	104
BssAI	RCCGGY	1 cut(s)	104
BssECI	CCNNGG	1 cut(s)	39
BssMI	GATC	2 cut(s)	140, 436
BssNI	GRCGYC	1 cut(s)	357
BssT1I	CCWWGG	1 cut(s)	39
Bst6I	CTCTTC	3 cut(s)	158, 249, 258
BstACI	GRCGYC	1 cut(s)	357
BstC8I	GCNNGC	1 cut(s)	23
BstF5I	GGATG	1 cut(s)	280
BstHHI	GCGC	2 cut(s)	345, 418
BstKTI	GATC	2 cut(s)	143, 439
BstMBI	GATC	2 cut(s)	140, 436
BstMWI	GCNNNNNNNGC	4 cut(s)	66, 125, 128, 131
BstSCI	CCNGG	1 cut(s)	246
BstV1I	GCAGC	3 cut(s)	81, 106, 109
BstV2I	GAAGAC	1 cut(s)	107
BstX2I	RGATCY	1 cut(s)	140
BstYI	RGATCY	1 cut(s)	140
BsuRI	GGCC	1 cut(s)	326
BtsCI	GGATG	1 cut(s)	280
Cac8I	GCNNGC	1 cut(s)	23
CfoI	GCGC	2 cut(s)	345, 418
Cfr10I	RCCGGY	1 cut(s)	104
Cfr13I	GGNCC	1 cut(s)	324
CseI	GACGC	1 cut(s)	365
Csp6I	GTAC	2 cut(s)	192, 286
CspAI	ACCGGT	1 cut(s)	104
CviJI	RGCY	9 cut(s)	55, 134, 150, 157, 223, 326, 351, 380, 449
CviKI_1	RGCY	9 cut(s)	55, 134, 150, 157, 223, 326, 351, 380, 449
CviQI	GTAC	2 cut(s)	192, 286
DpnI	GATC	2 cut(s)	142, 438
DpnII	GATC	2 cut(s)	140, 436
Eam1104I	CTCTTC	3 cut(s)	158, 249, 258
EarI	CTCTTC	3 cut(s)	158, 249, 258
Ecl136II	GAGCTC	1 cut(s)	150
Eco130I	CCWWGG	1 cut(s)	39
Eco24I	GRGCYC	1 cut(s)	152
Eco53kI	GAGCTC	1 cut(s)	150
Eco88I	CYCGRG	1 cut(s)	145
EcoICRI	GAGCTC	1 cut(s)	150
EcoT14I	CCWWGG	1 cut(s)	39
EcoT38I	GRGCYC	1 cut(s)	152
ErhI	CCWWGG	1 cut(s)	39
FaiI	YATR	4 cut(s)	420, 469, 494, 496
FauI	CCCGC	1 cut(s)	297
Fnu4HI	GCNGC	6 cut(s)	70, 120, 123, 126, 129, 132
FokI	GGATG	1 cut(s)	287
FriOI	GRGCYC	1 cut(s)	152
Fsp4HI	GCNGC	6 cut(s)	70, 120, 123, 126, 129, 132
FspAI	RTGCGCAY	1 cut(s)	417
FspI	TGCGCA	2 cut(s)	344, 417
GlaI	GCGC	2 cut(s)	344, 417
GluI	GCNGC	6 cut(s)	70, 120, 123, 126, 129, 132
GsaI	CCCAGC	1 cut(s)	229
HaeIII	GGCC	1 cut(s)	326
HapII	CCGG	2 cut(s)	105, 247
HgaI	GACGC	1 cut(s)	365
HhaI	GCGC	2 cut(s)	345, 418
Hin1I	GRCGYC	1 cut(s)	357
Hin6I	GCGC	2 cut(s)	343, 416
HinP1I	GCGC	2 cut(s)	343, 416
HincII	GTYRAC	1 cut(s)	373
HindII	GTYRAC	1 cut(s)	373
HinfI	GANTC	2 cut(s)	243, 332
HpaII	CCGG	2 cut(s)	105, 247
Hpy166II	GTNNAC	2 cut(s)	288, 373
Hpy188I	TCNGA	3 cut(s)	297, 337, 355
Hpy8I	GTNNAC	2 cut(s)	288, 373
Hpy99I	CGWCG	2 cut(s)	83, 359
HpyAV	CCTTC	1 cut(s)	439
HpyF10VI	GCNNNNNNNGC	4 cut(s)	66, 125, 128, 131
Hsp92I	GRCGYC	1 cut(s)	357
HspAI	GCGC	2 cut(s)	343, 416
Kzo9I	GATC	2 cut(s)	140, 436
LguI	GCTCTTC	1 cut(s)	158
LmnI	GCTCC	2 cut(s)	301, 356
LpnPI	CCDG	5 cut(s)	118, 173, 239, 260, 307
Lsp1109I	GCAGC	3 cut(s)	81, 106, 109
LweI	GCATC	2 cut(s)	354, 403
MaeIII	GTNAC	1 cut(s)	107
MalI	GATC	2 cut(s)	142, 438
MbiI	CCGCTC	1 cut(s)	304
MboI	GATC	2 cut(s)	140, 436
MboII	GAAGA	6 cut(s)	112, 175, 266, 275, 341, 422
MflI	RGATCY	1 cut(s)	140
MhlI	GDGCHC	1 cut(s)	152
MluCI	AATT	1 cut(s)	485
MlyI	GAGTC	1 cut(s)	252
MmeI	TCCRAC	2 cut(s)	360, 378
MnlI	CCTC	4 cut(s)	244, 250, 265, 306
MseI	TTAA	2 cut(s)	309, 432
MspA1I	CMGCKG	1 cut(s)	119
MspI	CCGG	2 cut(s)	105, 247
MspR9I	CCNGG	1 cut(s)	248
MwoI	GCNNNNNNNGC	4 cut(s)	66, 125, 128, 131
NciI	CCSGG	1 cut(s)	248
NdeII	GATC	2 cut(s)	140, 436
NlaIV	GGNNCC	1 cut(s)	115
NsbI	TGCGCA	2 cut(s)	344, 417
PciSI	GCTCTTC	1 cut(s)	158
PfeI	GAWTC	1 cut(s)	332
PfoI	TCCNGGA	1 cut(s)	246
PinAI	ACCGGT	1 cut(s)	104
PkrI	GCNGC	6 cut(s)	71, 121, 124, 127, 130, 133
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
Psp124BI	GAGCTC	1 cut(s)	152
PspFI	CCCAGC	1 cut(s)	225
PspN4I	GGNNCC	1 cut(s)	115
PspPI	GGNCC	1 cut(s)	324
PsrI	GAACNNNNNNTAC	2 cut(s)	463, 495
PsuI	RGATCY	1 cut(s)	140
RsaI	GTAC	2 cut(s)	193, 287
RsaNI	GTAC	2 cut(s)	192, 286
SacI	GAGCTC	1 cut(s)	152
SapI	GCTCTTC	1 cut(s)	158
SaqAI	TTAA	2 cut(s)	309, 432
SatI	GCNGC	6 cut(s)	70, 120, 123, 126, 129, 132
Sau3AI	GATC	2 cut(s)	140, 436
Sau96I	GGNCC	1 cut(s)	324
SchI	GAGTC	1 cut(s)	252
ScrFI	CCNGG	1 cut(s)	248
SduI	GDGCHC	1 cut(s)	152
SetI	ASST	4 cut(s)	152, 261, 353, 468
SfaNI	GCATC	2 cut(s)	354, 403
SmlI	CTYRAG	1 cut(s)	395
SmoI	CTYRAG	1 cut(s)	395
Sse9I	AATT	1 cut(s)	485
SsiI	CCGC	5 cut(s)	117, 125, 128, 131, 304
SstI	GAGCTC	1 cut(s)	152
StyD4I	CCNGG	1 cut(s)	246
StyI	CCWWGG	1 cut(s)	39
TasI	AATT	1 cut(s)	485
TauI	GCSGC	3 cut(s)	128, 131, 134
TfiI	GAWTC	1 cut(s)	332
Tru1I	TTAA	2 cut(s)	309, 432
Tru9I	TTAA	2 cut(s)	309, 432
TseI	GCWGC	3 cut(s)	69, 119, 122
TspGWI	ACGGA	1 cut(s)	249

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