Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001132

Physical Location & Seq

Genomic Coordinates Reverse (-)

11172810 .. 11174291

Gene Structure 1482 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG075500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

ATGAGGCATACTACAAAGAACTATGTGTTGATTGAGGATAGTGTCGAGGCTGACGGCGCTCAGGGTTTCTACCTCTCCTTTCTCTCTCAAAGCTTAGAACAGCTTTTTGGTGGGGGGAGTGCTGATAAAACTTCCATCTCAAGTTCAAAGTCCAGGAAGAGAAAGACGAAGAGGGATTCTGAAATTGAAGAGACTACCCTAGTGATATCCCCGACAGTGAAAGAGAGCAATGCTTCCAGTCTAGGAAATGGTGATGGCGGAAATGAAGGAATGATTGAAATAGGCGCTGAGTCGAGAGAGAGGAAGAAGAGTAGGTACTTGTCTTACCCATACGTAAATTGGGGGCAGAAAGGATTGTCTGCGGAAGGAATGGCAGCAACTACTGATAGTGGACCCAATTTGGAGATTACTCTTCTCAACCCAATTTGGATACATTCGAGGGTTTCCGGCAAGCCGTTTTACGCGATTTTGCATAGGATTGATGTTGGGATTGTCATTGATTTGGAGCCTGCTAGAACAGAGGACCCGGCTCTGTCTATAGCCGGGGCGGTGCAGTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PWWP

Protein Analysis

186

Amino Acids

20.15

Weight (kDa)

5.68

Isoelectric Point (pI)

56.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAS_2	PF08446	132 - 171	2.7e-11	PAS fold

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)

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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: OG0001132)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48187
fragaria_vesca	FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_3g28680 FvH4_5g29880 FvH4_5g29880 FvH4_5g29880 FvH4_5g29880 FvH4_5g29880 FvH4_5g29880
malus_domestica	MD06G1173400.v1.1 MD14G1179900.v1.1
prunus_persica	Prupe.5G172900_v2.0.a1
pyrus_communis	pycom06g15450 pycom06g15460 pycom14g14970
rosa_chinensis	RchiOBHm_Chr3g0469511 RchiOBHm_Chr7g0223481 RchiOBHm_Chr7g0223491 RchiOBHm_Chr7g0232001
rosa_laevigata	RLG00000001961 RLG00000001963
rosa_multiflora	Rmu_co8352987.1_g000001 Rmu_sc0001825.1_g000011 Rmu_sc0002224.1_g000002 Rmu_sc0007408.1_g000001 Rmu_sc0015894.1_g000001 Rmu_sc0023342.1_g000003
rosa_roxburghii	Rroxscaffold_1G00023900 Rroxscaffold_3G00235670 Rroxscaffold_3G00235680 Rroxscaffold_4G00279490
rosa_rugosa	Rorug07G0217400 Rorug07G0217500 Rorug07G0217500 Rorug07G0217600
rosa_samantha	Rh1AG475500 Rh2BG423300 Rh3AG151300 Rh3BG174900 Rh3CG166000 Rh4DG075500 Rh6BG142500 Rh6DG126600 Rh7AG360800 Rh7AG361000 Rh7BG351300 Rh7BG351500 Rh7CG379200 Rh7CG379500 Rh7DG356100 Rh7DG356300
rosa_wichuraiana	Rw7G030680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	464
AciI	CCGC	3 cut(s)	258, 362, 548
AfaI	GTAC	1 cut(s)	317
AgsI	TTSAA	3 cut(s)	147, 188, 278
AjnI	CCWGG	1 cut(s)	152
AjuI	GAANNNNNNNTTGG	2 cut(s)	90, 122
AluBI	AGCT	2 cut(s)	93, 103
AluI	AGCT	2 cut(s)	93, 103
Alw26I	GTCTC	1 cut(s)	185
ApeKI	GCWGC	1 cut(s)	374
AspLEI	GCGC	2 cut(s)	59, 287
AspS9I	GGNCC	2 cut(s)	392, 523
AsuC2I	CCSGG	2 cut(s)	527, 544
AsuHPI	GGTGA	1 cut(s)	263
AvaII	GGWCC	2 cut(s)	392, 523
BarI	GAAGNNNNNNTAC	2 cut(s)	299, 331
BbvI	GCAGC	1 cut(s)	386
BccI	CCATC	2 cut(s)	143, 248
BceAI	ACGGC	2 cut(s)	70, 439
BciT130I	CCWGG	1 cut(s)	154
BciVI	GTATCC	1 cut(s)	423
BcnI	CCSGG	2 cut(s)	527, 544
BcoDI	GTCTC	1 cut(s)	185
BfaI	CTAG	3 cut(s)	200, 242, 513
BfmI	CTRYAG	1 cut(s)	537
BfoI	RGCGCY	2 cut(s)	60, 288
BfuI	GTATCC	1 cut(s)	423
BisI	GCNGC	1 cut(s)	375
BlsI	GCNGC	1 cut(s)	376
Bme1390I	CCNGG	3 cut(s)	154, 527, 544
Bme18I	GGWCC	2 cut(s)	392, 523
BmgT120I	GGNCC	2 cut(s)	392, 523
BmiI	GGNNCC	3 cut(s)	394, 507, 525
BmrFI	CCNGG	3 cut(s)	154, 527, 544
Bpu10I	CCTNAGC	1 cut(s)	60
BpuEI	CTTGAG	1 cut(s)	124
BpuMI	CCSGG	2 cut(s)	527, 544
BsaAI	YACGTR	1 cut(s)	334
BsaJI	CCNNGG	1 cut(s)	543
Bse1I	ACTGG	1 cut(s)	237
Bse3DI	GCAATG	1 cut(s)	235
BseBI	CCWGG	1 cut(s)	154
BseDI	CCNNGG	1 cut(s)	543
BseMI	GCAATG	1 cut(s)	235
BseMII	CTCAG	2 cut(s)	74, 279
BseNI	ACTGG	1 cut(s)	237
BseXI	GCAGC	1 cut(s)	386
Bsh1236I	CGCG	1 cut(s)	464
BsiSI	CCGG	3 cut(s)	447, 527, 543
BsmAI	GTCTC	1 cut(s)	185
BspACI	CCGC	3 cut(s)	258, 362, 548
BspCNI	CTCAG	2 cut(s)	73, 280
BspFNI	CGCG	1 cut(s)	464
BspLI	GGNNCC	3 cut(s)	394, 507, 525
BsrDI	GCAATG	1 cut(s)	235
BsrI	ACTGG	1 cut(s)	237
BssECI	CCNNGG	1 cut(s)	543
Bst2UI	CCWGG	1 cut(s)	154
Bst4CI	ACNGT	1 cut(s)	217
Bst6I	CTCTTC	5 cut(s)	152, 164, 183, 302, 417
BstBAI	YACGTR	1 cut(s)	334
BstC8I	GCNNGC	2 cut(s)	452, 510
BstDEI	CTNAG	4 cut(s)	60, 94, 288, 558
BstFNI	CGCG	1 cut(s)	464
BstH2I	RGCGCY	2 cut(s)	60, 288
BstHHI	GCGC	2 cut(s)	59, 287
BstMAI	GTCTC	1 cut(s)	185
BstMWI	GCNNNNNNNGC	1 cut(s)	56
BstNI	CCWGG	1 cut(s)	154
BstSCI	CCNGG	3 cut(s)	152, 525, 542
BstSFI	CTRYAG	1 cut(s)	537
BstSNI	TACGTA	1 cut(s)	334
BstUI	CGCG	1 cut(s)	464
BstV1I	GCAGC	1 cut(s)	386
BsuI	GTATCC	1 cut(s)	423
BtsIMutI	CAGTG	1 cut(s)	222
Cac8I	GCNNGC	2 cut(s)	452, 510
CfoI	GCGC	2 cut(s)	59, 287
Cfr13I	GGNCC	2 cut(s)	392, 523
Csp6I	GTAC	1 cut(s)	316
CviJI	RGCY	7 cut(s)	50, 93, 103, 454, 508, 530, 542
CviKI_1	RGCY	7 cut(s)	50, 93, 103, 454, 508, 530, 542
CviQI	GTAC	1 cut(s)	316
DdeI	CTNAG	4 cut(s)	60, 94, 288, 558
Eam1104I	CTCTTC	5 cut(s)	152, 164, 183, 302, 417
EarI	CTCTTC	5 cut(s)	152, 164, 183, 302, 417
EciI	GGCGGA	1 cut(s)	273
Eco105I	TACGTA	1 cut(s)	334
Eco32I	GATATC	1 cut(s)	207
Eco47I	GGWCC	2 cut(s)	392, 523
EcoO109I	RGGNCCY	1 cut(s)	523
EcoRII	CCWGG	1 cut(s)	152
EcoRV	GATATC	1 cut(s)	207
FaiI	YATR	5 cut(s)	9, 24, 331, 474, 539
Fnu4HI	GCNGC	1 cut(s)	375
Fsp4HI	GCNGC	1 cut(s)	375
FspBI	CTAG	3 cut(s)	200, 242, 513
GlaI	GCGC	2 cut(s)	58, 286
GluI	GCNGC	1 cut(s)	375
HaeII	RGCGCY	2 cut(s)	60, 288
HapII	CCGG	3 cut(s)	447, 527, 543
HhaI	GCGC	2 cut(s)	59, 287
Hin6I	GCGC	2 cut(s)	57, 285
HinP1I	GCGC	2 cut(s)	57, 285
HindIII	AAGCTT	1 cut(s)	91
HinfI	GANTC	2 cut(s)	176, 290
HpaII	CCGG	3 cut(s)	447, 527, 543
HphI	GGTGA	1 cut(s)	263
Hpy166II	GTNNAC	1 cut(s)	392
Hpy188I	TCNGA	1 cut(s)	181
Hpy188III	TCNNGA	1 cut(s)	294
Hpy8I	GTNNAC	1 cut(s)	392
HpyAV	CCTTC	2 cut(s)	260, 359
HpyCH4III	ACNGT	1 cut(s)	217
HpyCH4IV	ACGT	1 cut(s)	333
HpyCH4V	TGCA	2 cut(s)	472, 553
HpyF10VI	GCNNNNNNNGC	1 cut(s)	56
HpyF3I	CTNAG	4 cut(s)	60, 94, 288, 558
HpySE526I	ACGT	1 cut(s)	333
HspAI	GCGC	2 cut(s)	57, 285
LmnI	GCTCC	1 cut(s)	505
LpnPI	CCDG	8 cut(s)	47, 139, 166, 250, 460, 522, 540, 556
Lsp1109I	GCAGC	1 cut(s)	386
MaeI	CTAG	3 cut(s)	200, 242, 513
MaeII	ACGT	1 cut(s)	333
MboII	GAAGA	6 cut(s)	169, 181, 200, 316, 319, 404
MluCI	AATT	4 cut(s)	183, 337, 397, 423
MlyI	GAGTC	1 cut(s)	299
MnlI	CCTC	7 cut(s)	28, 40, 83, 165, 294, 432, 514
MspI	CCGG	3 cut(s)	447, 527, 543
MspR9I	CCNGG	3 cut(s)	154, 527, 544
MvaI	CCWGG	1 cut(s)	154
MvnI	CGCG	1 cut(s)	464
MwoI	GCNNNNNNNGC	1 cut(s)	56
NciI	CCSGG	2 cut(s)	527, 544
NlaIV	GGNNCC	3 cut(s)	394, 507, 525
PfeI	GAWTC	1 cut(s)	176
PfoI	TCCNGGA	1 cut(s)	152
PkrI	GCNGC	1 cut(s)	376
PleI	GAGTC	1 cut(s)	298
PpsI	GAGTC	1 cut(s)	298
Ppu21I	YACGTR	1 cut(s)	334
PpuMI	RGGWCCY	1 cut(s)	523
Psp5II	RGGWCCY	1 cut(s)	523
Psp6I	CCWGG	1 cut(s)	152
PspGI	CCWGG	1 cut(s)	152
PspN4I	GGNNCC	3 cut(s)	394, 507, 525
PspPI	GGNCC	2 cut(s)	392, 523
PspPPI	RGGWCCY	1 cut(s)	523
RsaI	GTAC	1 cut(s)	317
RsaNI	GTAC	1 cut(s)	316
SatI	GCNGC	1 cut(s)	375
Sau96I	GGNCC	2 cut(s)	392, 523
SchI	GAGTC	1 cut(s)	299
ScrFI	CCNGG	3 cut(s)	154, 527, 544
SetI	ASST	5 cut(s)	75, 95, 105, 317, 336
SfcI	CTRYAG	1 cut(s)	537
SinI	GGWCC	2 cut(s)	392, 523
SmlI	CTYRAG	1 cut(s)	139
SmoI	CTYRAG	1 cut(s)	139
SnaBI	TACGTA	1 cut(s)	334
Sse9I	AATT	4 cut(s)	183, 337, 397, 423
SsiI	CCGC	3 cut(s)	258, 362, 548
SspMI	CTAG	3 cut(s)	200, 242, 513
StyD4I	CCNGG	3 cut(s)	152, 525, 542
TaaI	ACNGT	1 cut(s)	217
TaiI	ACGT	1 cut(s)	336
TaqI	TCGA	3 cut(s)	45, 293, 437
TasI	AATT	4 cut(s)	183, 337, 397, 423
TfiI	GAWTC	1 cut(s)	176
TscAI	CASTG	1 cut(s)	222
TseI	GCWGC	1 cut(s)	374
TspDTI	ATGAA	1 cut(s)	279
TspRI	CASTG	1 cut(s)	222
VpaK11BI	GGWCC	2 cut(s)	392, 523
XcmI	CCANNNNNNNNNTGG	1 cut(s)	336
XspI	CTAG	3 cut(s)	200, 242, 513

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