Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0005796

Physical Location & Seq

Genomic Coordinates Forward (+)

68587946 .. 68591974

Gene Structure 4029 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG379100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGGAGTCGGAGTCGGGTTTACTAGAGCAATCAATCAATAGTCGTTACTCGCTTTGGGTCCAAGAAGCTCTGAACGAATTGCCGGACAGTTTTACGGTGACTGATCCTTATATTTCCGGCCAACCCATCGTTTTTGCGAGCAAAGGGTTCCTGAAAATGATGGGGTACTCGAAAACCGAGGTGATTGGGAGGAATGGGAGGATATTTCAAGGGCCAGGTACTTGTAGAAGGTCGGTTATGGAAATAAGGGAGGCCATTAGAGAAGAGAGAGGTATTCAGATTAATTTGGTGAATTATAGGAGGGATGGGACACCCTTCTGGATGCTGTTTCATATGTGCCCTGTGTTTAGCAAAGAGGATGGGAGGGTGATTCATTTTGTGGCAGTTCAAGTTCCCATTTTGCGAAAACCGAGGAGGAGGAATGGGGTTGGTTTGGTGTATGAGGAGGAGAGTAGGGTGAATGAGAGTGTTTATGGGTCTTGTAGAAGAGAAGTGTGCTCTGATTCTTTGGTGGATTTGGGCAGTGCTTTGTCTCTGGAGTGTGCATTGGATGATGCTGATAATAGAGGACTGGAGATTGAAGAGACGTGTGAGGCAAGTGAATTAGAGAAGCAAAGAGCTGCGTCTTCCATGAATAACATCTTGTCTGTGCTAACACATTATAGCGAGTTAACAGGCAGACTGGTGTGTGGAAAGAGATGCAACTTAACTGGGGTGGGCCTTCTCAGTTCATCCTTAAATATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTAACAGATCCGCACTTACCTGACATGCCTATAGTTTACGCAAGTGAGGCCTTCTTCAAATTGACAGGTTATGCCAGACACGAAGTCATGGGACGCAATTGTAGATTTCTAAGTGGCGAGGATACGGATTCCTCAGCGACATATCGGATAAAGGAAAGCGTTCAGAATGAAAAAGCATGCACAGAAGGATAA

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

PAS_9

Protein Analysis

321

Amino Acids

35.98

Weight (kDa)

5.72

Isoelectric Point (pI)

56.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAS_9	PF13426	40 - 130	2.3e-16	PAS domain
PAS_9	PF13426	257 - 313	2.1e-06	PAS domain

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: OG0005796)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02710 AT2G02710 AT2G02710 AT2G02710
fragaria_vesca	FvH4_4g31970 FvH4_4g31970 FvH4_4g31970 FvH4_4g31970 FvH4_4g31970
malus_domestica	MD13G1079100.v1.1 MD16G1078900.v1.1
prunus_persica	Prupe.1G267700_v2.0.a1 Prupe.1G267700_v2.0.a1
pyrus_communis	pycom13g06870 pycom16g06820
rosa_chinensis	RchiOBHm_Chr4g0440651
rosa_laevigata	RLG00000006163
rosa_multiflora	Rmu_co8473601.1_g000001 Rmu_sc0008018.1_g000008 Rmu_sc0032009.1_g000003
rosa_roxburghii	Rroxscaffold_5G00381460
rosa_rugosa	Rorug04G0327300.1 Rorug04G0327400
rosa_samantha	Rh4AG379100 Rh4BG391900 Rh4CG406400 Rh4DG385600
rosa_wichuraiana	Rw4G032600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	785
AclWI	GGATC	2 cut(s)	98, 776
AcoI	YGGCCR	1 cut(s)	118
AfaI	GTAC	2 cut(s)	167, 220
AflIII	ACRYGT	1 cut(s)	587
AgsI	TTSAA	4 cut(s)	209, 389, 581, 832
AhdI	GACNNNNNGTC	1 cut(s)	857
AjiI	CACGTC	1 cut(s)	588
AjnI	CCWGG	1 cut(s)	214
AluBI	AGCT	3 cut(s)	68, 620, 768
AluI	AGCT	3 cut(s)	68, 620, 768
Alw21I	GWGCWC	1 cut(s)	500
Alw26I	GTCTC	2 cut(s)	537, 578
AlwI	GGATC	2 cut(s)	98, 776
AoxI	GGCC	5 cut(s)	118, 212, 252, 718, 822
ApeKI	GCWGC	1 cut(s)	620
AseI	ATTAAT	1 cut(s)	282
Asp700I	GAANNNNTTC	1 cut(s)	933
AspS9I	GGNCC	3 cut(s)	58, 212, 718
AsuHPI	GGTGA	5 cut(s)	109, 193, 301, 379, 469
AvaII	GGWCC	1 cut(s)	58
BaeGI	GKGCMC	1 cut(s)	341
BbsI	GAAGAC	1 cut(s)	618
Bbv12I	GWGCWC	1 cut(s)	500
BbvCI	CCTCAGC	1 cut(s)	907
BbvI	GCAGC	1 cut(s)	607
BccI	CCATC	4 cut(s)	134, 154, 299, 353
BciT130I	CCWGG	1 cut(s)	216
BciVI	GTATCC	1 cut(s)	889
BcoDI	GTCTC	2 cut(s)	537, 578
BfaI	CTAG	1 cut(s)	23
BfmI	CTRYAG	1 cut(s)	804
BfuI	GTATCC	1 cut(s)	889
BisI	GCNGC	1 cut(s)	621
BlsI	GCNGC	1 cut(s)	622
Bme1390I	CCNGG	1 cut(s)	216
Bme18I	GGWCC	1 cut(s)	58
BmeRI	GACNNNNNGTC	1 cut(s)	857
BmgBI	CACGTC	1 cut(s)	588
BmgT120I	GGNCC	3 cut(s)	58, 212, 718
BmiI	GGNNCC	2 cut(s)	59, 149
BmrFI	CCNGG	1 cut(s)	216
BmrI	ACTGGG	1 cut(s)	720
BmsI	GCATC	3 cut(s)	312, 544, 689
BmuI	ACTGGG	1 cut(s)	720
BpiI	GAAGAC	1 cut(s)	618
BpmI	CTGGAG	2 cut(s)	557, 593
Bpu10I	CCTNAGC	1 cut(s)	907
BsaJI	CCNNGG	2 cut(s)	177, 410
BsaXI	ACNNNNNCTCC	1 cut(s)	26
Bse1I	ACTGG	3 cut(s)	576, 687, 715
BseBI	CCWGG	1 cut(s)	216
BseDI	CCNNGG	2 cut(s)	177, 410
BseGI	GGATG	5 cut(s)	310, 327, 364, 556, 731
BseMII	CTCAG	2 cut(s)	739, 921
BseNI	ACTGG	3 cut(s)	576, 687, 715
BseRI	GAGGAG	4 cut(s)	427, 430, 458, 461
BseSI	GKGCMC	1 cut(s)	341
BseXI	GCAGC	1 cut(s)	607
BshFI	GGCC	5 cut(s)	120, 214, 254, 720, 824
BsiHKAI	GWGCWC	1 cut(s)	500
BsiSI	CCGG	2 cut(s)	83, 117
BslFI	GGGAC	2 cut(s)	322, 879
BsmAI	GTCTC	2 cut(s)	537, 578
BsmBI	CGTCTC	1 cut(s)	578
BsmFI	GGGAC	2 cut(s)	322, 879
BsnI	GGCC	5 cut(s)	120, 214, 254, 720, 824
Bsp1286I	GDGCHC	2 cut(s)	341, 500
Bsp143I	GATC	2 cut(s)	103, 781
BspACI	CCGC	1 cut(s)	785
BspANI	GGCC	5 cut(s)	120, 214, 254, 720, 824
BspCNI	CTCAG	2 cut(s)	738, 920
BspLI	GGNNCC	2 cut(s)	59, 149
BspPI	GGATC	2 cut(s)	98, 776
BsrI	ACTGG	3 cut(s)	576, 687, 715
BssECI	CCNNGG	2 cut(s)	177, 410
BssMI	GATC	2 cut(s)	103, 781
Bst2UI	CCWGG	1 cut(s)	216
Bst4CI	ACNGT	2 cut(s)	89, 97
Bst6I	CTCTTC	3 cut(s)	258, 481, 576
BstC8I	GCNNGC	2 cut(s)	139, 952
BstDEI	CTNAG	3 cut(s)	725, 884, 907
BstF5I	GGATG	5 cut(s)	310, 327, 364, 556, 731
BstKTI	GATC	2 cut(s)	106, 784
BstMAI	GTCTC	2 cut(s)	537, 578
BstMBI	GATC	2 cut(s)	103, 781
BstMWI	GCNNNNNNNGC	1 cut(s)	821
BstNI	CCWGG	1 cut(s)	216
BstNSI	RCATGY	2 cut(s)	802, 954
BstSCI	CCNGG	1 cut(s)	214
BstSFI	CTRYAG	1 cut(s)	804
BstSLI	GKGCMC	1 cut(s)	341
BstV1I	GCAGC	1 cut(s)	607
BstV2I	GAAGAC	1 cut(s)	618
BstX2I	RGATCY	1 cut(s)	781
BstYI	RGATCY	1 cut(s)	781
BsuI	GTATCC	1 cut(s)	889
BsuRI	GGCC	5 cut(s)	120, 214, 254, 720, 824
BtrI	CACGTC	1 cut(s)	588
BtsCI	GGATG	5 cut(s)	310, 327, 364, 556, 731
BtsI	GCAGTG	1 cut(s)	529
BtsIMutI	CAGTG	1 cut(s)	529
Cac8I	GCNNGC	2 cut(s)	139, 952
Cfr13I	GGNCC	3 cut(s)	58, 212, 718
CseI	GACGC	2 cut(s)	612, 876
Csp6I	GTAC	2 cut(s)	166, 219
CviAII	CATG	4 cut(s)	631, 799, 862, 951
CviJI	RGCY	8 cut(s)	68, 120, 214, 254, 620, 720, 768, 824
CviKI_1	RGCY	8 cut(s)	68, 120, 214, 254, 620, 720, 768, 824
CviQI	GTAC	2 cut(s)	166, 219
DdeI	CTNAG	3 cut(s)	725, 884, 907
DpnI	GATC	2 cut(s)	105, 783
DpnII	GATC	2 cut(s)	103, 781
DriI	GACNNNNNGTC	1 cut(s)	857
EaeI	YGGCCR	1 cut(s)	118
Eam1104I	CTCTTC	3 cut(s)	258, 481, 576
Eam1105I	GACNNNNNGTC	1 cut(s)	857
EarI	CTCTTC	3 cut(s)	258, 481, 576
Eco147I	AGGCCT	1 cut(s)	824
Eco47I	GGWCC	1 cut(s)	58
EcoRII	CCWGG	1 cut(s)	214
Esp3I	CGTCTC	1 cut(s)	578
FaeI	CATG	4 cut(s)	634, 802, 865, 954
FaqI	GGGAC	2 cut(s)	322, 879
FatI	CATG	4 cut(s)	630, 798, 861, 950
FauNDI	CATATG	1 cut(s)	333
Fnu4HI	GCNGC	1 cut(s)	621
FokI	GGATG	5 cut(s)	317, 334, 371, 563, 718
Fsp4HI	GCNGC	1 cut(s)	621
FspBI	CTAG	1 cut(s)	23
GluI	GCNGC	1 cut(s)	621
GsuI	CTGGAG	2 cut(s)	557, 593
HaeIII	GGCC	5 cut(s)	120, 214, 254, 720, 824
HapII	CCGG	2 cut(s)	83, 117
HgaI	GACGC	2 cut(s)	612, 876
Hin1II	CATG	4 cut(s)	634, 802, 865, 954
HincII	GTYRAC	1 cut(s)	672
HindII	GTYRAC	1 cut(s)	672
HindIII	AAGCTT	1 cut(s)	766
HinfI	GANTC	6 cut(s)	5, 11, 370, 503, 756, 902
HpaI	GTTAAC	1 cut(s)	672
HpaII	CCGG	2 cut(s)	83, 117
HphI	GGTGA	5 cut(s)	109, 193, 301, 379, 469
Hpy166II	GTNNAC	3 cut(s)	20, 672, 811
Hpy188I	TCNGA	6 cut(s)	10, 72, 279, 502, 921, 939
Hpy188III	TCNNGA	3 cut(s)	151, 319, 536
Hpy8I	GTNNAC	3 cut(s)	20, 672, 811
HpyAV	CCTTC	5 cut(s)	222, 325, 731, 835, 953
HpyCH4III	ACNGT	2 cut(s)	89, 97
HpyCH4IV	ACGT	1 cut(s)	587
HpyCH4V	TGCA	3 cut(s)	545, 702, 954
HpyF10VI	GCNNNNNNNGC	1 cut(s)	821
HpyF3I	CTNAG	3 cut(s)	725, 884, 907
HpySE526I	ACGT	1 cut(s)	587
Hsp92II	CATG	4 cut(s)	634, 802, 865, 954
KspAI	GTTAAC	1 cut(s)	672
Kzo9I	GATC	2 cut(s)	103, 781
Lsp1109I	GCAGC	1 cut(s)	607
LweI	GCATC	3 cut(s)	312, 544, 689
MaeI	CTAG	1 cut(s)	23
MaeII	ACGT	1 cut(s)	587
MaeIII	GTNAC	2 cut(s)	44, 97
MalI	GATC	2 cut(s)	105, 783
MboI	GATC	2 cut(s)	103, 781
MboII	GAAGA	5 cut(s)	275, 498, 593, 618, 820
MfeI	CAATTG	1 cut(s)	871
MflI	RGATCY	1 cut(s)	781
MhlI	GDGCHC	2 cut(s)	341, 500
MluCI	AATT	6 cut(s)	77, 283, 292, 602, 833, 871
MlyI	GAGTC	2 cut(s)	14, 20
MroXI	GAANNNNTTC	1 cut(s)	933
MseI	TTAA	5 cut(s)	282, 671, 707, 737, 776
MspI	CCGG	2 cut(s)	83, 117
MspR9I	CCNGG	1 cut(s)	216
MunI	CAATTG	1 cut(s)	871
MvaI	CCWGG	1 cut(s)	216
MwoI	GCNNNNNNNGC	1 cut(s)	821
NdeI	CATATG	1 cut(s)	333
NdeII	GATC	2 cut(s)	103, 781
NlaIII	CATG	4 cut(s)	634, 802, 865, 954
NlaIV	GGNNCC	2 cut(s)	59, 149
NmuCI	GTSAC	1 cut(s)	97
NspI	RCATGY	2 cut(s)	802, 954
PaeI	GCATGC	1 cut(s)	954
PceI	AGGCCT	1 cut(s)	824
PdmI	GAANNNNTTC	1 cut(s)	933
PfeI	GAWTC	4 cut(s)	370, 503, 756, 902
PkrI	GCNGC	1 cut(s)	622
PleI	GAGTC	2 cut(s)	13, 19
PpsI	GAGTC	2 cut(s)	13, 19
PshBI	ATTAAT	1 cut(s)	282
Psp6I	CCWGG	1 cut(s)	214
PspGI	CCWGG	1 cut(s)	214
PspN4I	GGNNCC	2 cut(s)	59, 149
PspPI	GGNCC	3 cut(s)	58, 212, 718
PsuI	RGATCY	1 cut(s)	781
RsaI	GTAC	2 cut(s)	167, 220
RsaNI	GTAC	2 cut(s)	166, 219
SaqAI	TTAA	5 cut(s)	282, 671, 707, 737, 776
SatI	GCNGC	1 cut(s)	621
Sau3AI	GATC	2 cut(s)	103, 781
Sau96I	GGNCC	3 cut(s)	58, 212, 718
SchI	GAGTC	2 cut(s)	14, 20
ScrFI	CCNGG	1 cut(s)	216
SduI	GDGCHC	2 cut(s)	341, 500
SfaNI	GCATC	3 cut(s)	312, 544, 689
SfcI	CTRYAG	1 cut(s)	804
SinI	GGWCC	1 cut(s)	58
SphI	GCATGC	1 cut(s)	954
Sse9I	AATT	6 cut(s)	77, 283, 292, 602, 833, 871
SseBI	AGGCCT	1 cut(s)	824
SsiI	CCGC	1 cut(s)	785
SspI	AATATT	1 cut(s)	742
SspMI	CTAG	1 cut(s)	23
StuI	AGGCCT	1 cut(s)	824
StyD4I	CCNGG	1 cut(s)	214
TaaI	ACNGT	2 cut(s)	89, 97
TaiI	ACGT	1 cut(s)	590
TaqI	TCGA	1 cut(s)	170
TasI	AATT	6 cut(s)	77, 283, 292, 602, 833, 871
TfiI	GAWTC	4 cut(s)	370, 503, 756, 902
Tru1I	TTAA	5 cut(s)	282, 671, 707, 737, 776
Tru9I	TTAA	5 cut(s)	282, 671, 707, 737, 776
TscAI	CASTG	1 cut(s)	529
TseFI	GTSAC	1 cut(s)	97
TseI	GCWGC	1 cut(s)	620
Tsp45I	GTSAC	1 cut(s)	97
TspDTI	ATGAA	5 cut(s)	320, 362, 647, 720, 957
TspGWI	ACGGA	1 cut(s)	914
TspRI	CASTG	1 cut(s)	529
VpaK11BI	GGWCC	1 cut(s)	58
VspI	ATTAAT	1 cut(s)	282
XceI	RCATGY	2 cut(s)	802, 954
XmnI	GAANNNNTTC	1 cut(s)	933
XspI	CTAG	1 cut(s)	23

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