Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001387

Physical Location & Seq

Genomic Coordinates Reverse (-)

45950240 .. 45953093

Gene Structure 2854 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG223100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGGATCAGCAAGGGCATGGGCATCCAACAACAATGGGAGTCCCAGGTAGTGCAGGTCAAGCATCATATGGTGTGAACCCATATCAGCCTAGCCAAATGATGGGACTCTCTCCAACTGGATCAGTTGGAATGATGCAATCTCCCACTCAGCCGGGAGGTCCTTCTGCCCCTTCTCAGCTTGCACAACACCAAGCTTATCAGCACATCCACCAGCAACAACAACAGCAACTACAACAACAACTCCAAAACTTTTGGTCAGGTCAGTATCAAGAAATTGAGCAGGCTAATGATTTCAAGAACCATAGTTTACCATTGGCCAGGATTAAGAAGATTATGAAGGCTGATGAGGATGTAAGGATGATATCTGCTGAAGCTCCGGTCATATTTGCCAGGGCCTGTGAGATGTTTATTCTGGAGTTGACGCTACGGTCTTGGAACCACACAGAGGAGAACAAAAGGAGAACATTGCAAAAGAATGACATTGCGGCAGCAATTACAAGGACTGATATATTTGATTTTCTAGTTGATATCGTCCCCAGAGAGGATTTGAAAGATGAGGTTCTGGCATCAATCCCAAGAGGTGGGAATGTTCCAGTTGTCGGTCCAGCTGATGGTCTTCCTTACTATTACATGCCTGCTCAACATCCACCACAGGTTGGTGCTCCTGGGATGATGGTGGGAAAGCCTGTGATGGATCAAAATATGTATGGCCAACCAACACATCCATACATGGCTCAGCCAGCTTGGCCTCAGCAACAACAGCCGCACAAAGATTCTGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009739 GO:0009740 GO:0009755 GO:0009889 GO:0009987 GO:0010029 GO:0010033 GO:0010099 GO:0010468 GO:0010476 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048580 GO:0048582 GO:0048583 GO:0048584 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071370 GO:0071396 GO:0071495 GO:0080090 GO:0097159 GO:0097305 GO:0097306 GO:0140110 GO:1900140 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000030 GO:2000112 GO:2000306 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

260

Amino Acids

28.95

Weight (kDa)

5.9

Isoelectric Point (pI)

65.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	94 - 165	4.2e-17	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	102 - 165	3.2e-17	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: OG0001387)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08970 AT1G08970 AT1G08970 AT1G08970 AT1G54830 AT1G54830 AT1G54830
fragaria_vesca	FvH4_4g14750 FvH4_6g05540 FvH4_6g05540
malus_domestica	MD04G1207500.v1.1 MD12G1221800.v1.1 MD13G1185200.v1.1 MD16G1185900.v1.1
prunus_persica	Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1
pyrus_communis	pycom04g18370 pycom12g20790 pycom13g15980 pycom16g15560
rosa_chinensis	RchiOBHm_Chr3g0454311 RchiOBHm_Chr4g0417851
rosa_laevigata	RLG00000007894 RLG00000025463
rosa_multiflora	Rmu_sc0001340.1_g000002 Rmu_sc0004911.1_g000014 Rmu_sc0005844.1_g000004 Rmu_sc0007543.1_g000006
rosa_roxburghii	Rroxscaffold_165G00437130 Rroxscaffold_5G00361270 Rroxscaffold_6G00425220
rosa_rugosa	Rorug02G0654100 Rorug04G0149700.1 Rorug04G0149800
rosa_samantha	Rh3AG058100 Rh3BG059800 Rh3CG059000 Rh3CG291100 Rh3DG060300 Rh4AG212100 Rh4BG218900 Rh4CG223100 Rh4DG209900
rosa_wichuraiana	Rw3G004450 Rw3G023190 Rw4G017990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	427
Acc36I	ACCTGC	1 cut(s)	44
AccB7I	CCANNNNNTGG	4 cut(s)	100, 581, 611, 656
AciI	CCGC	2 cut(s)	485, 764
AclWI	GGATC	3 cut(s)	12, 127, 702
AcoI	YGGCCR	2 cut(s)	315, 709
AcuI	CTGAAG	1 cut(s)	390
AfiI	CCNNNNNNNGG	7 cut(s)	100, 445, 541, 581, 599, 611, 656
AgsI	TTSAA	2 cut(s)	295, 550
AjnI	CCWGG	4 cut(s)	43, 317, 389, 664
AluBI	AGCT	5 cut(s)	178, 194, 374, 608, 743
AluI	AGCT	5 cut(s)	178, 194, 374, 608, 743
Alw21I	GWGCWC	1 cut(s)	664
AlwI	GGATC	3 cut(s)	12, 127, 702
AlwNI	CAGNNNCTG	1 cut(s)	396
AoxI	GGCC	4 cut(s)	315, 393, 709, 746
ApeKI	GCWGC	1 cut(s)	488
AspS9I	GGNCC	3 cut(s)	158, 393, 602
AsuC2I	CCSGG	1 cut(s)	153
AvaII	GGWCC	2 cut(s)	158, 602
BalI	TGGCCA	2 cut(s)	317, 711
BbsI	GAAGAC	1 cut(s)	608
Bbv12I	GWGCWC	1 cut(s)	664
BbvCI	CCTCAGC	1 cut(s)	750
BbvI	GCAGC	1 cut(s)	500
BccI	CCATC	4 cut(s)	94, 605, 667, 685
BciT130I	CCWGG	4 cut(s)	45, 319, 391, 666
BcnI	CCSGG	1 cut(s)	153
BfaI	CTAG	2 cut(s)	90, 521
BfuAI	ACCTGC	1 cut(s)	44
BglI	GCCNNNNNGGC	1 cut(s)	745
BisI	GCNGC	3 cut(s)	486, 489, 764
BlpI	GCTNAGC	1 cut(s)	735
BlsI	GCNGC	3 cut(s)	487, 490, 765
Bme1390I	CCNGG	5 cut(s)	45, 153, 319, 391, 666
Bme18I	GGWCC	2 cut(s)	158, 602
BmgT120I	GGNCC	3 cut(s)	158, 393, 602
BmiI	GGNNCC	1 cut(s)	437
BmrFI	CCNGG	5 cut(s)	45, 153, 319, 391, 666
BmsI	GCATC	4 cut(s)	31, 71, 123, 575
BpiI	GAAGAC	1 cut(s)	608
BpmI	CTGGAG	1 cut(s)	434
Bpu10I	CCTNAGC	1 cut(s)	750
Bpu1102I	GCTNAGC	1 cut(s)	735
BpuMI	CCSGG	1 cut(s)	153
BsaJI	CCNNGG	3 cut(s)	43, 390, 665
BsaWI	WCCGGW	1 cut(s)	376
BsaXI	ACNNNNNCTCC	2 cut(s)	225, 255
Bsc4I	CCNNNNNNNGG	7 cut(s)	100, 445, 541, 581, 599, 611, 656
Bse1I	ACTGG	2 cut(s)	121, 593
Bse3DI	GCAATG	2 cut(s)	464, 480
BseBI	CCWGG	4 cut(s)	45, 319, 391, 666
BseDI	CCNNGG	3 cut(s)	43, 390, 665
BseGI	GGATG	7 cut(s)	22, 204, 355, 363, 643, 675, 721
BseLI	CCNNNNNNNGG	7 cut(s)	100, 445, 541, 581, 599, 611, 656
BseMI	GCAATG	2 cut(s)	464, 480
BseMII	CTCAG	5 cut(s)	161, 188, 749, 764, 768
BseNI	ACTGG	2 cut(s)	121, 593
BseRI	GAGGAG	1 cut(s)	461
BseXI	GCAGC	1 cut(s)	500
BsgI	GTGCAG	1 cut(s)	72
BshFI	GGCC	4 cut(s)	317, 395, 711, 748
BsiHKAI	GWGCWC	1 cut(s)	664
BsiSI	CCGG	2 cut(s)	152, 377
BslFI	GGGAC	3 cut(s)	26, 117, 518
BslI	CCNNNNNNNGG	7 cut(s)	100, 445, 541, 581, 599, 611, 656
BsmFI	GGGAC	3 cut(s)	26, 117, 518
BsnI	GGCC	4 cut(s)	317, 395, 711, 748
Bsp1286I	GDGCHC	1 cut(s)	664
Bsp143I	GATC	3 cut(s)	4, 119, 694
Bsp1720I	GCTNAGC	1 cut(s)	735
BspACI	CCGC	2 cut(s)	485, 764
BspANI	GGCC	4 cut(s)	317, 395, 711, 748
BspCNI	CTCAG	5 cut(s)	160, 187, 748, 763, 769
BspLI	GGNNCC	1 cut(s)	437
BspMI	ACCTGC	1 cut(s)	44
BspPI	GGATC	3 cut(s)	12, 127, 702
BsrDI	GCAATG	2 cut(s)	464, 480
BsrI	ACTGG	2 cut(s)	121, 593
BssECI	CCNNGG	3 cut(s)	43, 390, 665
BssMI	GATC	3 cut(s)	4, 119, 694
Bst2UI	CCWGG	4 cut(s)	45, 319, 391, 666
Bst4CI	ACNGT	1 cut(s)	429
BstC8I	GCNNGC	4 cut(s)	180, 282, 636, 741
BstDEI	CTNAG	5 cut(s)	147, 174, 735, 750, 777
BstF5I	GGATG	7 cut(s)	22, 204, 355, 363, 643, 675, 721
BstKTI	GATC	3 cut(s)	7, 122, 697
BstMBI	GATC	3 cut(s)	4, 119, 694
BstMWI	GCNNNNNNNGC	4 cut(s)	59, 740, 745, 760
BstNI	CCWGG	4 cut(s)	45, 319, 391, 666
BstNSI	RCATGY	1 cut(s)	634
BstSCI	CCNGG	5 cut(s)	43, 151, 317, 389, 664
BstV1I	GCAGC	1 cut(s)	500
BstV2I	GAAGAC	1 cut(s)	608
BsuRI	GGCC	4 cut(s)	317, 395, 711, 748
BtsCI	GGATG	7 cut(s)	22, 204, 355, 363, 643, 675, 721
BveI	ACCTGC	1 cut(s)	44
Cac8I	GCNNGC	4 cut(s)	180, 282, 636, 741
CaiI	CAGNNNCTG	1 cut(s)	396
Cfr13I	GGNCC	3 cut(s)	158, 393, 602
CseI	GACGC	1 cut(s)	430
CviAII	CATG	3 cut(s)	17, 631, 730
DdeI	CTNAG	5 cut(s)	147, 174, 735, 750, 777
DpnI	GATC	3 cut(s)	6, 121, 696
DpnII	GATC	3 cut(s)	4, 119, 694
DrdI	GACNNNNNNGTC	1 cut(s)	427
DseDI	GACNNNNNNGTC	1 cut(s)	427
EaeI	YGGCCR	2 cut(s)	315, 709
Eco32I	GATATC	2 cut(s)	363, 529
Eco47I	GGWCC	2 cut(s)	158, 602
Eco57I	CTGAAG	1 cut(s)	390
EcoO109I	RGGNCCY	2 cut(s)	158, 393
EcoRII	CCWGG	4 cut(s)	43, 317, 389, 664
EcoRV	GATATC	2 cut(s)	363, 529
FaeI	CATG	3 cut(s)	20, 634, 733
FaqI	GGGAC	3 cut(s)	26, 117, 518
FatI	CATG	3 cut(s)	16, 630, 729
FauNDI	CATATG	1 cut(s)	67
Fnu4HI	GCNGC	3 cut(s)	486, 489, 764
FokI	GGATG	7 cut(s)	9, 191, 362, 370, 630, 682, 708
Fsp4HI	GCNGC	3 cut(s)	486, 489, 764
FspBI	CTAG	2 cut(s)	90, 521
GluI	GCNGC	3 cut(s)	486, 489, 764
GsuI	CTGGAG	1 cut(s)	434
HaeIII	GGCC	4 cut(s)	317, 395, 711, 748
HapII	CCGG	2 cut(s)	152, 377
HgaI	GACGC	1 cut(s)	430
Hin1II	CATG	3 cut(s)	20, 634, 733
HincII	GTYRAC	1 cut(s)	420
HindII	GTYRAC	1 cut(s)	420
HindIII	AAGCTT	1 cut(s)	192
HinfI	GANTC	3 cut(s)	39, 105, 773
HpaII	CCGG	2 cut(s)	152, 377
Hpy166II	GTNNAC	3 cut(s)	76, 308, 420
Hpy188I	TCNGA	1 cut(s)	778
Hpy188III	TCNNGA	3 cut(s)	269, 295, 413
Hpy8I	GTNNAC	3 cut(s)	76, 308, 420
HpyAV	CCTTC	3 cut(s)	171, 180, 331
HpyCH4III	ACNGT	1 cut(s)	429
HpyCH4V	TGCA	4 cut(s)	53, 136, 182, 469
HpyF10VI	GCNNNNNNNGC	4 cut(s)	59, 740, 745, 760
HpyF3I	CTNAG	5 cut(s)	147, 174, 735, 750, 777
Hsp92II	CATG	3 cut(s)	20, 634, 733
Kzo9I	GATC	3 cut(s)	4, 119, 694
LmnI	GCTCC	2 cut(s)	379, 667
Lsp1109I	GCAGC	1 cut(s)	500
LweI	GCATC	4 cut(s)	31, 71, 123, 575
MaeI	CTAG	2 cut(s)	90, 521
MalI	GATC	3 cut(s)	6, 121, 696
MboI	GATC	3 cut(s)	4, 119, 694
MboII	GAAGA	2 cut(s)	340, 608
MhlI	GDGCHC	1 cut(s)	664
MlsI	TGGCCA	2 cut(s)	317, 711
MluCI	AATT	2 cut(s)	273, 492
MluNI	TGGCCA	2 cut(s)	317, 711
MlyI	GAGTC	2 cut(s)	48, 99
MmeI	TCCRAC	3 cut(s)	50, 106, 137
MnlI	CCTC	7 cut(s)	149, 340, 439, 535, 550, 572, 759
Mox20I	TGGCCA	2 cut(s)	317, 711
MscI	TGGCCA	2 cut(s)	317, 711
MseI	TTAA	1 cut(s)	324
Msp20I	TGGCCA	2 cut(s)	317, 711
MspA1I	CMGCKG	1 cut(s)	608
MspI	CCGG	2 cut(s)	152, 377
MspR9I	CCNGG	5 cut(s)	45, 153, 319, 391, 666
MvaI	CCWGG	4 cut(s)	45, 319, 391, 666
MwoI	GCNNNNNNNGC	4 cut(s)	59, 740, 745, 760
NciI	CCSGG	1 cut(s)	153
NdeI	CATATG	1 cut(s)	67
NdeII	GATC	3 cut(s)	4, 119, 694
NlaIII	CATG	3 cut(s)	20, 634, 733
NlaIV	GGNNCC	1 cut(s)	437
NspI	RCATGY	1 cut(s)	634
PfeI	GAWTC	1 cut(s)	773
PflMI	CCANNNNNTGG	4 cut(s)	100, 581, 611, 656
PkrI	GCNGC	3 cut(s)	487, 490, 765
PleI	GAGTC	2 cut(s)	47, 99
PpsI	GAGTC	2 cut(s)	47, 99
PpuMI	RGGWCCY	1 cut(s)	158
Psp5II	RGGWCCY	1 cut(s)	158
Psp6I	CCWGG	4 cut(s)	43, 317, 389, 664
PspGI	CCWGG	4 cut(s)	43, 317, 389, 664
PspN4I	GGNNCC	1 cut(s)	437
PspPI	GGNCC	3 cut(s)	158, 393, 602
PspPPI	RGGWCCY	1 cut(s)	158
PstNI	CAGNNNCTG	1 cut(s)	396
PvuII	CAGCTG	1 cut(s)	608
SaqAI	TTAA	1 cut(s)	324
SatI	GCNGC	3 cut(s)	486, 489, 764
Sau3AI	GATC	3 cut(s)	4, 119, 694
Sau96I	GGNCC	3 cut(s)	158, 393, 602
SchI	GAGTC	2 cut(s)	48, 99
ScrFI	CCNGG	5 cut(s)	45, 153, 319, 391, 666
SduI	GDGCHC	1 cut(s)	664
SfaNI	GCATC	4 cut(s)	31, 71, 123, 575
SinI	GGWCC	2 cut(s)	158, 602
Sse9I	AATT	2 cut(s)	273, 492
SsiI	CCGC	2 cut(s)	485, 764
SspMI	CTAG	2 cut(s)	90, 521
StyD4I	CCNGG	5 cut(s)	43, 151, 317, 389, 664
TaaI	ACNGT	1 cut(s)	429
TaqII	GACCGA	1 cut(s)	590
TasI	AATT	2 cut(s)	273, 492
TauI	GCSGC	2 cut(s)	488, 766
TfiI	GAWTC	1 cut(s)	773
Tru1I	TTAA	1 cut(s)	324
Tru9I	TTAA	1 cut(s)	324
TseI	GCWGC	1 cut(s)	488
TspDTI	ATGAA	1 cut(s)	350
Van91I	CCANNNNNTGG	4 cut(s)	100, 581, 611, 656
VpaK11BI	GGWCC	2 cut(s)	158, 602
XceI	RCATGY	1 cut(s)	634
XspI	CTAG	2 cut(s)	90, 521

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