Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0003506

Physical Location & Seq

Genomic Coordinates Forward (+)

21597207 .. 21601873

Gene Structure 4667 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G019130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGGAAGGCAGGAAGACCAGAGGACGGCAGAAGATTGAAATAAAGAAAATTGCAAATGCAGACGATCGCCATGTCACTTTTTCAAAGAGGAGATCTGGCGTTTACAAAAAGTGCAACGAGCTAGCAACCCTATGCGGTGCAGAGGTTGGTGTCGTGGTGTTCTCCGAATCTGAGAAACCATTCTCATACATGGAGATACTAAACAAGCACAATGCGTTAGAAGACAAGCTCAGGGATGAACAGCTTCGAGAGAAAGTACTTCTGCAGAAAGAAAGAGCAAGAGCAACCGGCGGCTTTGCAGAAGGATCCGGGTGGTTTTGGCAAACGGGTTCGGATCTGGGATCCGGGTGGAGATTGGGCTTGGTCTATGGCTCACTATCTTTGGTGGGTTGTATATCAGCTGCAAGATTGGTTTGGGACTTGTGCATTACTGTCAACAATCATTCTCTCTCTTCTCTCAGGCGAGGTCACAAAAGCTATTGTCACCAGCAACAAAAGCTATTAGACCATTGGTCGTTGCCGTTAAACATCATTTTCCGTCACTCCAAATCGCCGGAGCCTAGCTCCAGATCCACGACCCTAGCTCGCATACTAGATCTTGTGGACGACAAGGATGACGATCTGGTCGCTGCGGAAGATGGAGGAGACTCTGACAGTGGTCGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051049 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04011 ko04111 map04011 map04111

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

221

Amino Acids

24.77

Weight (kDa)

8.78

Isoelectric Point (pI)

52.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	16 - 63	1.7e-21	SRF-type transcription factor (DNA-binding and dimerisation domain)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28450 AT1G28460 AT1G29962 AT1G54760 AT3G04100
fragaria_vesca	FvH4_6g21070
malus_domestica	MD05G1287200.v1.1 MD10G1264600.v1.1 MD13G1257500.v1.1
prunus_persica	Prupe.1G087700_v2.0.a1 Prupe.4G077700_v2.0.a1 Prupe.5G243900_v2.0.a1
pyrus_communis	pycom05g26570 pycom10g22070
rosa_chinensis	RchiOBHm_Chr3g0477441 RchiOBHm_Chr3g0477451
rosa_laevigata	RLG00000023719 RLG00000023721
rosa_multiflora	Rmu_sc0005234.1_g000012 Rmu_ssc0000341.1_g000014 Rmu_ssc0000341.1_g000016
rosa_roxburghii	Rroxscaffold_6G00404150 Rroxscaffold_6G00404620 Rroxscaffold_6G00404630
rosa_rugosa	Rorug03G0160800 Rorug03G0160900
rosa_samantha	Rh3AG211100 Rh3AG211200 Rh3BG244500 Rh3BG244600 Rh3CG238300 Rh3CG238500 Rh3DG238000
rosa_wichuraiana	Rw3G019130 Rw3G019140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	623
AciI	CCGC	3 cut(s)	135, 291, 632
AclWI	GGATC	6 cut(s)	300, 313, 336, 342, 349, 564
AfaI	GTAC	1 cut(s)	258
AfiI	CCNNNNNNNGG	1 cut(s)	24
AgsI	TTSAA	2 cut(s)	38, 84
AhdI	GACNNNNNGTC	1 cut(s)	511
AluBI	AGCT	8 cut(s)	121, 229, 244, 401, 477, 499, 564, 584
AluI	AGCT	8 cut(s)	121, 229, 244, 401, 477, 499, 564, 584
Alw26I	GTCTC	1 cut(s)	639
AlwI	GGATC	6 cut(s)	300, 313, 336, 342, 349, 564
ApeKI	GCWGC	2 cut(s)	401, 629
Asp700I	GAANNNNTTC	2 cut(s)	179, 243
AsuC2I	CCSGG	2 cut(s)	310, 346
AsuHPI	GGTGA	1 cut(s)	476
AsuNHI	GCTAGC	1 cut(s)	121
BamHI	GGATCC	2 cut(s)	305, 341
BbsI	GAAGAC	2 cut(s)	20, 228
BbvI	GCAGC	2 cut(s)	388, 616
BccI	CCATC	1 cut(s)	632
BceAI	ACGGC	2 cut(s)	41, 505
BcnI	CCSGG	2 cut(s)	310, 346
BcoDI	GTCTC	1 cut(s)	639
BfaI	CTAG	4 cut(s)	122, 561, 581, 593
BfmI	CTRYAG	1 cut(s)	263
BglII	AGATCT	2 cut(s)	92, 595
BisI	GCNGC	3 cut(s)	292, 402, 630
BlsI	GCNGC	3 cut(s)	293, 403, 631
BmcAI	AGTACT	1 cut(s)	258
Bme1390I	CCNGG	2 cut(s)	310, 346
BmeRI	GACNNNNNGTC	1 cut(s)	511
BmiI	GGNNCC	3 cut(s)	307, 343, 558
BmrFI	CCNGG	2 cut(s)	310, 346
BmtI	GCTAGC	1 cut(s)	125
BoxI	GACNNNNGTC	1 cut(s)	657
BpiI	GAAGAC	2 cut(s)	20, 228
BplI	GAGNNNNNCTC	2 cut(s)	548, 580
BpmI	CTGGAG	1 cut(s)	550
Bpu10I	CCTNAGC	1 cut(s)	230
BpuMI	CCSGG	2 cut(s)	310, 346
BsaBI	GATNNNNATC	1 cut(s)	618
Bsc4I	CCNNNNNNNGG	1 cut(s)	24
Bse118I	RCCGGY	1 cut(s)	287
Bse8I	GATNNNNATC	1 cut(s)	618
BseGI	GGATG	2 cut(s)	241, 619
BseJI	GATNNNNATC	1 cut(s)	618
BseLI	CCNNNNNNNGG	1 cut(s)	24
BseMII	CTCAG	3 cut(s)	162, 244, 472
BseRI	GAGGAG	2 cut(s)	103, 657
BseXI	GCAGC	2 cut(s)	388, 616
BsgI	GTGCAG	1 cut(s)	159
Bsh1285I	CGRYCG	1 cut(s)	67
BsiEI	CGRYCG	1 cut(s)	67
BsiSI	CCGG	4 cut(s)	288, 309, 345, 554
BslFI	GGGAC	1 cut(s)	431
BslI	CCNNNNNNNGG	1 cut(s)	24
BsmAI	GTCTC	1 cut(s)	639
BsmFI	GGGAC	1 cut(s)	431
Bsp143I	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
BspACI	CCGC	3 cut(s)	135, 291, 632
BspCNI	CTCAG	3 cut(s)	163, 243, 471
BspLI	GGNNCC	3 cut(s)	307, 343, 558
BspMAI	CTGCAG	1 cut(s)	267
BspOI	GCTAGC	1 cut(s)	125
BspPI	GGATC	6 cut(s)	300, 313, 336, 342, 349, 564
BsrFI	RCCGGY	1 cut(s)	287
BssAI	RCCGGY	1 cut(s)	287
BssMI	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
Bst4CI	ACNGT	2 cut(s)	433, 656
Bst6I	CTCTTC	1 cut(s)	457
BstC8I	GCNNGC	2 cut(s)	123, 586
BstDEI	CTNAG	3 cut(s)	171, 230, 458
BstF5I	GGATG	2 cut(s)	241, 619
BstKTI	GATC	8 cut(s)	67, 95, 308, 337, 344, 572, 598, 622
BstMAI	GTCTC	1 cut(s)	639
BstMBI	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
BstMCI	CGRYCG	1 cut(s)	67
BstMWI	GCNNNNNNNGC	1 cut(s)	496
BstPAI	GACNNNNGTC	1 cut(s)	657
BstSCI	CCNGG	2 cut(s)	308, 344
BstSFI	CTRYAG	1 cut(s)	263
BstV1I	GCAGC	2 cut(s)	388, 616
BstV2I	GAAGAC	2 cut(s)	20, 228
BstX2I	RGATCY	6 cut(s)	92, 305, 334, 341, 569, 595
BstYI	RGATCY	6 cut(s)	92, 305, 334, 341, 569, 595
BtsCI	GGATG	2 cut(s)	241, 619
BtsIMutI	CAGTG	1 cut(s)	661
Cac8I	GCNNGC	2 cut(s)	123, 586
Cfr10I	RCCGGY	1 cut(s)	287
Csp6I	GTAC	1 cut(s)	257
CviAII	CATG	2 cut(s)	71, 190
CviQI	GTAC	1 cut(s)	257
DdeI	CTNAG	3 cut(s)	171, 230, 458
DpnI	GATC	8 cut(s)	66, 94, 307, 336, 343, 571, 597, 621
DpnII	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
DrdI	GACNNNNNNGTC	1 cut(s)	623
DriI	GACNNNNNGTC	1 cut(s)	511
DseDI	GACNNNNNNGTC	1 cut(s)	623
Eam1104I	CTCTTC	1 cut(s)	457
Eam1105I	GACNNNNNGTC	1 cut(s)	511
EarI	CTCTTC	1 cut(s)	457
FaeI	CATG	2 cut(s)	74, 193
FaiI	YATR	7 cut(s)	72, 133, 187, 191, 369, 395, 590
FaqI	GGGAC	1 cut(s)	431
FatI	CATG	2 cut(s)	70, 189
Fnu4HI	GCNGC	3 cut(s)	292, 402, 630
FokI	GGATG	2 cut(s)	248, 626
Fsp4HI	GCNGC	3 cut(s)	292, 402, 630
FspBI	CTAG	4 cut(s)	122, 561, 581, 593
GluI	GCNGC	3 cut(s)	292, 402, 630
GsuI	CTGGAG	1 cut(s)	550
HapII	CCGG	4 cut(s)	288, 309, 345, 554
Hin1II	CATG	2 cut(s)	74, 193
HincII	GTYRAC	1 cut(s)	436
HindII	GTYRAC	1 cut(s)	436
HinfI	GANTC	2 cut(s)	167, 647
HpaII	CCGG	4 cut(s)	288, 309, 345, 554
HphI	GGTGA	1 cut(s)	476
Hpy166II	GTNNAC	3 cut(s)	103, 436, 604
Hpy188I	TCNGA	4 cut(s)	166, 172, 334, 652
Hpy188III	TCNNGA	2 cut(s)	248, 567
Hpy8I	GTNNAC	3 cut(s)	103, 436, 604
HpyAV	CCTTC	1 cut(s)	296
HpyCH4III	ACNGT	2 cut(s)	433, 656
HpyCH4V	TGCA	8 cut(s)	53, 59, 114, 140, 265, 299, 404, 426
HpyF10VI	GCNNNNNNNGC	1 cut(s)	496
HpyF3I	CTNAG	3 cut(s)	171, 230, 458
Hsp92II	CATG	2 cut(s)	74, 193
Kzo9I	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
LmnI	GCTCC	2 cut(s)	556, 569
Lsp1109I	GCAGC	2 cut(s)	388, 616
MaeI	CTAG	4 cut(s)	122, 561, 581, 593
MaeIII	GTNAC	4 cut(s)	73, 467, 482, 539
MalI	GATC	8 cut(s)	66, 94, 307, 336, 343, 571, 597, 621
MboI	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
MboII	GAAGA	5 cut(s)	25, 43, 233, 444, 647
MflI	RGATCY	6 cut(s)	92, 305, 334, 341, 569, 595
MluCI	AATT	1 cut(s)	48
MlyI	GAGTC	1 cut(s)	641
MnlI	CCTC	5 cut(s)	14, 81, 136, 458, 635
MroXI	GAANNNNTTC	2 cut(s)	179, 243
MseI	TTAA	1 cut(s)	524
MspA1I	CMGCKG	1 cut(s)	401
MspI	CCGG	4 cut(s)	288, 309, 345, 554
MspR9I	CCNGG	2 cut(s)	310, 346
MwoI	GCNNNNNNNGC	1 cut(s)	496
NciI	CCSGG	2 cut(s)	310, 346
NdeII	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
NheI	GCTAGC	1 cut(s)	121
NlaIII	CATG	2 cut(s)	74, 193
NlaIV	GGNNCC	3 cut(s)	307, 343, 558
NmuCI	GTSAC	4 cut(s)	73, 467, 482, 539
PdmI	GAANNNNTTC	2 cut(s)	179, 243
PfeI	GAWTC	1 cut(s)	167
PkrI	GCNGC	3 cut(s)	293, 403, 631
Ple19I	CGATCG	1 cut(s)	67
PleI	GAGTC	1 cut(s)	641
PpsI	GAGTC	1 cut(s)	641
PshAI	GACNNNNGTC	1 cut(s)	657
PspN4I	GGNNCC	3 cut(s)	307, 343, 558
PstI	CTGCAG	1 cut(s)	267
PsuI	RGATCY	6 cut(s)	92, 305, 334, 341, 569, 595
PvuI	CGATCG	1 cut(s)	67
PvuII	CAGCTG	1 cut(s)	401
RsaI	GTAC	1 cut(s)	258
RsaNI	GTAC	1 cut(s)	257
SaqAI	TTAA	1 cut(s)	524
SatI	GCNGC	3 cut(s)	292, 402, 630
Sau3AI	GATC	8 cut(s)	64, 92, 305, 334, 341, 569, 595, 619
ScaI	AGTACT	1 cut(s)	258
SchI	GAGTC	1 cut(s)	641
ScrFI	CCNGG	2 cut(s)	310, 346
SfcI	CTRYAG	1 cut(s)	263
Sse9I	AATT	1 cut(s)	48
SsiI	CCGC	3 cut(s)	135, 291, 632
SspMI	CTAG	4 cut(s)	122, 561, 581, 593
StyD4I	CCNGG	2 cut(s)	308, 344
TaaI	ACNGT	2 cut(s)	433, 656
TaqI	TCGA	2 cut(s)	247, 661
TasI	AATT	1 cut(s)	48
TatI	WGTACW	1 cut(s)	256
TauI	GCSGC	1 cut(s)	294
TfiI	GAWTC	1 cut(s)	167
Tru1I	TTAA	1 cut(s)	524
Tru9I	TTAA	1 cut(s)	524
TscAI	CASTG	1 cut(s)	661
TseFI	GTSAC	4 cut(s)	73, 467, 482, 539
TseI	GCWGC	2 cut(s)	401, 629
Tsp45I	GTSAC	4 cut(s)	73, 467, 482, 539
TspDTI	ATGAA	1 cut(s)	252
TspGWI	ACGGA	1 cut(s)	527
TspRI	CASTG	1 cut(s)	661
XmnI	GAANNNNTTC	2 cut(s)	179, 243
XspI	CTAG	4 cut(s)	122, 561, 581, 593
ZrmI	AGTACT	1 cut(s)	258

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