Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0010554

Physical Location & Seq

Genomic Coordinates Reverse (-)

5649397 .. 5652621

Gene Structure 3225 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG031400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGTACGCCAGAGAAGAACTGCCTGGAGAAGGGGTTGAAGTGATTGCGGCTGATGCTCCCTCGGAGTACCAGATGGCTCCTAGGGCGGTGGAGCACAAGGACAAGGCGGCTACTGGTTCAGGAGAGGGGACGGGTGAGCCAAAGAAGAGAGGGAGAGGGAGGCCTCCACAGAAGAATGTAGGGGAAGGGCAGTCCTCCTCAGCCACGGGGAGAAAGGAGAAGGGCCAAGGAAGCAGCGGCGGGGGTGGAGGAGGTGGAAGTGGAGGTGCCGGTGGCAGTGGCAGTGGGGGCGGAGGAGGAGGAGGAGGAGGAGGCGGTGGGGGCGGGGGCGGCGGCCAGGGCAATCCCGGTGCAGCTTATAATGGAAGAAGCTTCACGCCCCACCTCATCTCTGTCAATGCTGGGGAGAATGTCTGCGGGAGCGTTATGAGATATTTCCATGAAAGACCACGAGCAATCTGCGTGATTTCTGCAAGTGGAGTAATCTCTAGTGTTAATCTGCGCCAACAGGATGACGAGGCCATCACATATGAGGGACGTTTCGAAATCCTGAGCTTGTCTGGATGCCTTCTGCCCCATAACGGGGCCTGGCGTGGTGCAATGAGTGTCTCTCTGGCAGGCGCCAACGGTGCAATTTTAGGGGGAGGCATTAATGGAATTCTGAGAGCTGCCACTCCTGTGCAAGTGAGGCTTCTCTCAAATATACAAGTTTTCTCATTTGTTTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003680 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005730 GO:0005737 GO:0005739 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0070013 GO:0097159 GO:0098687 GO:1901363 GO:1990837

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF296

Protein Analysis

242

Amino Acids

23.93

Weight (kDa)

8.84

Isoelectric Point (pI)

44.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCC	PF03479	127 - 232	1.9e-19	Plants and Prokaryotes Conserved (PCC) 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: OG0010554)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g03060 FvH4_4g03060 FvH4_4g03060 FvH4_4g03060 FvH4_4g03060
malus_domestica	MD03G1133200.v1.1
rosa_chinensis	RchiOBHm_Chr4g0391351
rosa_laevigata	RLG00000009870
rosa_multiflora	Rmu_sc0005322.1_g000032 Rmu_sc0028307.1_g000001 Rmu_sc0033364.1_g000001
rosa_roxburghii	Rroxscaffold_4G00304640 Rroxscaffold_5G00337090
rosa_rugosa	Rorug03G0335600
rosa_samantha	Rh1BG196400 Rh1DG224400 Rh4AG036700 Rh4BG031400 Rh4CG040000 Rh4DG034300
rosa_wichuraiana	Rw4G002880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	360
AccB1I	GGYRCC	2 cut(s)	266, 620
AcoI	YGGCCR	1 cut(s)	334
AcsI	RAATTY	1 cut(s)	657
AcyI	GRCGYC	1 cut(s)	621
AfaI	GTAC	2 cut(s)	5, 68
AfiI	CCNNNNNNNGG	4 cut(s)	29, 581, 582, 583
AgsI	TTSAA	1 cut(s)	38
AjnI	CCWGG	3 cut(s)	22, 336, 587
AleI	CACNNNNGTG	1 cut(s)	677
AluBI	AGCT	4 cut(s)	356, 372, 555, 668
AluI	AGCT	4 cut(s)	356, 372, 555, 668
Alw21I	GWGCWC	1 cut(s)	96
Alw26I	GTCTC	1 cut(s)	613
AoxI	GGCC	5 cut(s)	161, 223, 334, 519, 585
ApeKI	GCWGC	3 cut(s)	234, 353, 668
ApoI	RAATTY	1 cut(s)	657
AseI	ATTAAT	1 cut(s)	651
AspA2I	CCTAGG	1 cut(s)	80
AspLEI	GCGC	2 cut(s)	504, 623
AspS9I	GGNCC	2 cut(s)	223, 585
AsuC2I	CCSGG	1 cut(s)	348
AsuHPI	GGTGA	1 cut(s)	146
AsuII	TTCGAA	1 cut(s)	543
AvrII	CCTAGG	1 cut(s)	80
BanI	GGYRCC	2 cut(s)	266, 620
BauI	CACGAG	1 cut(s)	450
Bbv12I	GWGCWC	1 cut(s)	96
BbvCI	CCTCAGC	1 cut(s)	199
BbvI	GCAGC	3 cut(s)	246, 365, 655
BccI	CCATC	2 cut(s)	67, 530
BcgI	CGANNNNNNTGC	2 cut(s)	441, 475
BciT130I	CCWGG	3 cut(s)	24, 338, 589
BcnI	CCSGG	1 cut(s)	348
BcoDI	GTCTC	1 cut(s)	613
BfaI	CTAG	2 cut(s)	81, 489
BfoI	RGCGCY	1 cut(s)	624
BisI	GCNGC	8 cut(s)	48, 108, 235, 238, 331, 334, 354, 669
BlnI	CCTAGG	1 cut(s)	80
BlsI	GCNGC	8 cut(s)	49, 109, 236, 239, 332, 335, 355, 670
Bme1390I	CCNGG	4 cut(s)	24, 338, 348, 589
BmgT120I	GGNCC	2 cut(s)	223, 585
BmiI	GGNNCC	4 cut(s)	78, 268, 586, 622
BmrFI	CCNGG	4 cut(s)	24, 338, 348, 589
BmsI	GCATC	2 cut(s)	43, 554
BplI	GAGNNNNNCTC	2 cut(s)	595, 627
BpmI	CTGGAG	1 cut(s)	45
Bpu10I	CCTNAGC	2 cut(s)	199, 551
Bpu14I	TTCGAA	1 cut(s)	543
BpuMI	CCSGG	1 cut(s)	348
BsaHI	GRCGYC	1 cut(s)	621
BsaJI	CCNNGG	5 cut(s)	60, 80, 204, 226, 337
BsaXI	ACNNNNNCTCC	2 cut(s)	18, 48
Bsc4I	CCNNNNNNNGG	4 cut(s)	29, 581, 582, 583
Bse118I	RCCGGY	1 cut(s)	269
Bse1I	ACTGG	1 cut(s)	118
Bse3DI	GCAATG	1 cut(s)	606
BseBI	CCWGG	3 cut(s)	24, 338, 589
BseDI	CCNNGG	5 cut(s)	60, 80, 204, 226, 337
BseGI	GGATG	2 cut(s)	517, 569
BseLI	CCNNNNNNNGG	4 cut(s)	29, 581, 582, 583
BseMI	GCAATG	1 cut(s)	606
BseMII	CTCAG	3 cut(s)	213, 542, 653
BseNI	ACTGG	1 cut(s)	118
BseRI	GAGGAG	8 cut(s)	187, 264, 309, 312, 315, 318, 321, 324
BseXI	GCAGC	3 cut(s)	246, 365, 655
BseYI	CCCAGC	1 cut(s)	401
BsgI	GTGCAG	1 cut(s)	372
BshFI	GGCC	5 cut(s)	163, 225, 336, 521, 587
BshNI	GGYRCC	2 cut(s)	266, 620
BsiHKAI	GWGCWC	1 cut(s)	96
BsiSI	CCGG	2 cut(s)	270, 348
BslFI	GGGAC	2 cut(s)	142, 549
BslI	CCNNNNNNNGG	4 cut(s)	29, 581, 582, 583
BsmAI	GTCTC	1 cut(s)	613
BsmFI	GGGAC	2 cut(s)	142, 549
BsnI	GGCC	5 cut(s)	163, 225, 336, 521, 587
Bsp119I	TTCGAA	1 cut(s)	543
Bsp1286I	GDGCHC	1 cut(s)	96
BspANI	GGCC	5 cut(s)	163, 225, 336, 521, 587
BspCNI	CTCAG	3 cut(s)	212, 543, 654
BspLI	GGNNCC	4 cut(s)	78, 268, 586, 622
BspT104I	TTCGAA	1 cut(s)	543
BspT107I	GGYRCC	2 cut(s)	266, 620
BsrDI	GCAATG	1 cut(s)	606
BsrFI	RCCGGY	1 cut(s)	269
BsrI	ACTGG	1 cut(s)	118
BssAI	RCCGGY	1 cut(s)	269
BssECI	CCNNGG	5 cut(s)	60, 80, 204, 226, 337
BssNI	GRCGYC	1 cut(s)	621
BssSI	CACGAG	1 cut(s)	450
BssT1I	CCWWGG	2 cut(s)	80, 226
Bst2BI	CACGAG	1 cut(s)	450
Bst2UI	CCWGG	3 cut(s)	24, 338, 589
Bst4CI	ACNGT	1 cut(s)	629
Bst6I	CTCTTC	1 cut(s)	140
BstACI	GRCGYC	1 cut(s)	621
BstBI	TTCGAA	1 cut(s)	543
BstC8I	GCNNGC	1 cut(s)	619
BstDEI	CTNAG	3 cut(s)	199, 551, 662
BstDSI	CCRYGG	1 cut(s)	204
BstENI	CCTNNNNNAGG	1 cut(s)	27
BstF5I	GGATG	2 cut(s)	517, 569
BstH2I	RGCGCY	1 cut(s)	624
BstHHI	GCGC	2 cut(s)	504, 623
BstMAI	GTCTC	1 cut(s)	613
BstMWI	GCNNNNNNNGC	9 cut(s)	53, 83, 231, 288, 321, 330, 339, 629, 688
BstNI	CCWGG	3 cut(s)	24, 338, 589
BstSCI	CCNGG	4 cut(s)	22, 336, 346, 587
BstV1I	GCAGC	3 cut(s)	246, 365, 655
BsuRI	GGCC	5 cut(s)	163, 225, 336, 521, 587
BtgI	CCRYGG	1 cut(s)	204
BtsCI	GGATG	2 cut(s)	517, 569
BtsI	GCAGTG	2 cut(s)	283, 289
BtsIMutI	CAGTG	2 cut(s)	283, 289
Cac8I	GCNNGC	1 cut(s)	619
CfoI	GCGC	2 cut(s)	504, 623
Cfr10I	RCCGGY	1 cut(s)	269
Cfr13I	GGNCC	2 cut(s)	223, 585
Csp6I	GTAC	2 cut(s)	4, 67
CviAII	CATG	1 cut(s)	440
CviQI	GTAC	2 cut(s)	4, 67
DdeI	CTNAG	3 cut(s)	199, 551, 662
DinI	GGCGCC	1 cut(s)	622
EaeI	YGGCCR	1 cut(s)	334
Eam1104I	CTCTTC	1 cut(s)	140
EarI	CTCTTC	1 cut(s)	140
EciI	GGCGGA	1 cut(s)	306
Eco130I	CCWWGG	2 cut(s)	80, 226
Eco147I	AGGCCT	1 cut(s)	163
EcoNI	CCTNNNNNAGG	1 cut(s)	27
EcoO109I	RGGNCCY	1 cut(s)	585
EcoRI	GAATTC	1 cut(s)	657
EcoRII	CCWGG	3 cut(s)	22, 336, 587
EcoT14I	CCWWGG	2 cut(s)	80, 226
EgeI	GGCGCC	1 cut(s)	622
EheI	GGCGCC	1 cut(s)	622
ErhI	CCWWGG	2 cut(s)	80, 226
FaeI	CATG	1 cut(s)	443
FaiI	YATR	7 cut(s)	360, 428, 441, 529, 531, 579, 704
FalI	AAGNNNNNCTT	2 cut(s)	675, 707
FaqI	GGGAC	2 cut(s)	142, 549
FatI	CATG	1 cut(s)	439
FauI	CCCGC	3 cut(s)	233, 317, 410
FauNDI	CATATG	1 cut(s)	529
Fnu4HI	GCNGC	8 cut(s)	48, 108, 235, 238, 331, 334, 354, 669
FokI	GGATG	2 cut(s)	524, 576
Fsp4HI	GCNGC	8 cut(s)	48, 108, 235, 238, 331, 334, 354, 669
FspBI	CTAG	2 cut(s)	81, 489
GlaI	GCGC	2 cut(s)	503, 622
GluI	GCNGC	8 cut(s)	48, 108, 235, 238, 331, 334, 354, 669
GsaI	CCCAGC	1 cut(s)	405
GsuI	CTGGAG	1 cut(s)	45
HaeII	RGCGCY	1 cut(s)	624
HaeIII	GGCC	5 cut(s)	163, 225, 336, 521, 587
HapII	CCGG	2 cut(s)	270, 348
HhaI	GCGC	2 cut(s)	504, 623
Hin1I	GRCGYC	1 cut(s)	621
Hin1II	CATG	1 cut(s)	443
Hin6I	GCGC	2 cut(s)	502, 621
HinP1I	GCGC	2 cut(s)	502, 621
HindIII	AAGCTT	1 cut(s)	370
HpaII	CCGG	2 cut(s)	270, 348
HphI	GGTGA	1 cut(s)	146
Hpy188I	TCNGA	2 cut(s)	64, 663
Hpy188III	TCNNGA	3 cut(s)	120, 550, 561
HpyAV	CCTTC	4 cut(s)	23, 179, 214, 578
HpyCH4III	ACNGT	1 cut(s)	629
HpyCH4IV	ACGT	1 cut(s)	538
HpyCH4V	TGCA	5 cut(s)	353, 473, 599, 632, 682
HpyF10VI	GCNNNNNNNGC	9 cut(s)	53, 83, 231, 288, 321, 330, 339, 629, 688
HpyF3I	CTNAG	3 cut(s)	199, 551, 662
HpySE526I	ACGT	1 cut(s)	538
Hsp92I	GRCGYC	1 cut(s)	621
Hsp92II	CATG	1 cut(s)	443
HspAI	GCGC	2 cut(s)	502, 621
KasI	GGCGCC	1 cut(s)	620
LmnI	GCTCC	4 cut(s)	61, 82, 91, 420
Lsp1109I	GCAGC	3 cut(s)	246, 365, 655
LweI	GCATC	2 cut(s)	43, 554
MaeI	CTAG	2 cut(s)	81, 489
MaeII	ACGT	1 cut(s)	538
MboII	GAAGA	4 cut(s)	26, 157, 184, 378
MhlI	GDGCHC	1 cut(s)	96
MluCI	AATT	2 cut(s)	633, 657
Mly113I	GGCGCC	1 cut(s)	621
MseI	TTAA	3 cut(s)	495, 651, 727
MslI	CAYNNNNRTG	1 cut(s)	677
MspA1I	CMGCKG	1 cut(s)	237
MspI	CCGG	2 cut(s)	270, 348
MspR9I	CCNGG	4 cut(s)	24, 338, 348, 589
MvaI	CCWGG	3 cut(s)	24, 338, 589
MwoI	GCNNNNNNNGC	9 cut(s)	53, 83, 231, 288, 321, 330, 339, 629, 688
NarI	GGCGCC	1 cut(s)	621
NciI	CCSGG	1 cut(s)	348
NdeI	CATATG	1 cut(s)	529
NlaIII	CATG	1 cut(s)	443
NlaIV	GGNNCC	4 cut(s)	78, 268, 586, 622
NspV	TTCGAA	1 cut(s)	543
OliI	CACNNNNGTG	1 cut(s)	677
PceI	AGGCCT	1 cut(s)	163
PkrI	GCNGC	8 cut(s)	49, 109, 236, 239, 332, 335, 355, 670
PluTI	GGCGCC	1 cut(s)	624
PshBI	ATTAAT	1 cut(s)	651
PsiI	TTATAA	1 cut(s)	360
Psp6I	CCWGG	3 cut(s)	22, 336, 587
PspFI	CCCAGC	1 cut(s)	401
PspGI	CCWGG	3 cut(s)	22, 336, 587
PspN4I	GGNNCC	4 cut(s)	78, 268, 586, 622
PspPI	GGNCC	2 cut(s)	223, 585
RsaI	GTAC	2 cut(s)	5, 68
RsaNI	GTAC	2 cut(s)	4, 67
RseI	CAYNNNNRTG	1 cut(s)	677
SaqAI	TTAA	3 cut(s)	495, 651, 727
SatI	GCNGC	8 cut(s)	48, 108, 235, 238, 331, 334, 354, 669
Sau96I	GGNCC	2 cut(s)	223, 585
ScrFI	CCNGG	4 cut(s)	24, 338, 348, 589
SduI	GDGCHC	1 cut(s)	96
SetI	ASST	8 cut(s)	256, 268, 358, 374, 387, 541, 557, 670
SfaNI	GCATC	2 cut(s)	43, 554
SfoI	GGCGCC	1 cut(s)	622
SfuI	TTCGAA	1 cut(s)	543
SmiMI	CAYNNNNRTG	1 cut(s)	677
Sse9I	AATT	2 cut(s)	633, 657
SseBI	AGGCCT	1 cut(s)	163
SspDI	GGCGCC	1 cut(s)	620
SspMI	CTAG	2 cut(s)	81, 489
StuI	AGGCCT	1 cut(s)	163
StyD4I	CCNGG	4 cut(s)	22, 336, 346, 587
StyI	CCWWGG	2 cut(s)	80, 226
TaaI	ACNGT	1 cut(s)	629
TaiI	ACGT	1 cut(s)	541
TaqI	TCGA	1 cut(s)	543
TasI	AATT	2 cut(s)	633, 657
TauI	GCSGC	5 cut(s)	50, 110, 240, 333, 336
Tru1I	TTAA	3 cut(s)	495, 651, 727
Tru9I	TTAA	3 cut(s)	495, 651, 727
TscAI	CASTG	2 cut(s)	283, 289
TseI	GCWGC	3 cut(s)	234, 353, 668
TspDTI	ATGAA	1 cut(s)	456
TspRI	CASTG	2 cut(s)	283, 289
VspI	ATTAAT	1 cut(s)	651
XagI	CCTNNNNNAGG	1 cut(s)	27
XapI	RAATTY	1 cut(s)	657
XmaJI	CCTAGG	1 cut(s)	80
XspI	CTAG	2 cut(s)	81, 489

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