Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0004939

Physical Location & Seq

Genomic Coordinates Forward (+)

2712366 .. 2715960

Gene Structure 3595 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00220460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGGTCGTGTTAAGCTGGAGATTAAGAGAATAGAAAACAACACCAATCGGCAAGTTACATTCTCAAAGCGCAGAAATGGACTCATTAAAAAAGCCTATGAGCTTTCCATCCTTTGTGACATTGACATTGCTCTTATCATGTTCTCTCCTTCTGGTCGTCTTAGCCACTTTTCCGGCAAAAGAAGGATTGAAGATGTGTTTACTCGTTACATCAATCTCCCAGACCAAGAAAGAGAGCATGCTATAATTTTCCCTGATCACAACAAACATCCTGATCTACAAAACAAAGAGGAACTTCAACAGGAAATTGGTGGGCTACAACAACAGGTTCGAATGGCGGAAGATCAAATAAGGATATATGAGCCTGACCCACTAAAAATCACATCTATGGCAGAGCTTGAATCATCTGAGAAAAGTCTTGTGGACACCTTGTCGCGTGTTACGCAGAGAAAGAGTTTAGCATATATAGATCTTGATTTTGGGGAAATTTTCATGCAGCAAATGTTGCCAGGTTCTTTTGAGAATGAGGTGGCAGGTTGGCTGGCTAACGGTGGTCACAACCACACCCAAATATACGATGCTTCTGCTCCTTTGGATCACCAACTTAGGAACTTGTCGTCGTCACTGTATGATCCTTTTTCACAAGGAACGAGTTCAAATGGTGGAGCAGATCCGAGTAGCATGGGAGAGTGTCATGTGAGTGTTACAAACGGCAGTGATGGAGAGCTTCCTCCTTGGCCTCAGCCATACACATCTTCCGGACACCATTCCACCCTTATGCAACCATCATTGATGCCTCAATATCAGCAGGCAATGGTAAGCTCAAACATGCCAGAAATAATACCACACGAGCAGGTGGAGATTCCAGTTAGCAGCTCCAACGTACAAGCTTACAATGAAGGTGCAGACAATTATCATGATCAAAACAATAAAGTTCCTCAGCTTAATGGACATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001558 GO:0003002 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009555 GO:0009653 GO:0009791 GO:0009889 GO:0009908 GO:0010016 GO:0010152 GO:0010229 GO:0010468 GO:0010556 GO:0010622 GO:0010769 GO:0019219 GO:0019222 GO:0021700 GO:0022414 GO:0022603 GO:0022604 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035670 GO:0040008 GO:0043900 GO:0045595 GO:0048229 GO:0048281 GO:0048283 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048444 GO:0048445 GO:0048467 GO:0048481 GO:0048482 GO:0048608 GO:0048638 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051128 GO:0051171 GO:0051239 GO:0051252 GO:0051510 GO:0060255 GO:0060284 GO:0061458 GO:0065007 GO:0080090 GO:0080092 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0099402 GO:0140110 GO:1903506 GO:1905392 GO:2000112 GO:2000241 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04013 ko04022 ko04371 ko05418 map04013 map04022 map04371 map05418

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

318

Amino Acids

35.83

Weight (kDa)

5.35

Isoelectric Point (pI)

55.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 57	3.1e-26	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004939)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77950 AT1G77950 AT1G77950 AT1G77950 AT1G77980
fragaria_vesca	FvH4_5g38110 FvH4_5g38110
malus_domestica	MD08G1177000.v1.1 MD08G1177100.v1.1 MD15G1362500.v1.1
prunus_persica	Prupe.1G511300_v2.0.a1
pyrus_communis	pycom08g15190 pycom15g32540
rosa_chinensis	RchiOBHm_Chr7g0240061 RchiOBHm_Chr7g0240131
rosa_laevigata	RLG00000000708
rosa_multiflora	Rmu_sc0009928.1_g000004
rosa_roxburghii	Rroxscaffold_3G00220460
rosa_rugosa	Rorug04G0113100 Rorug07G0332600 Rorug07G0332700 Rorug07G0332700 Rorug07G0332800 Rorug07G0332900
rosa_samantha	Rh7AG486000 Rh7BG459300 Rh7CG503400 Rh7DG471800
rosa_wichuraiana	Rw7G040760 Rw7G040830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	844
Acc36I	ACCTGC	2 cut(s)	524, 844
AccII	CGCG	1 cut(s)	436
AccIII	TCCGGA	1 cut(s)	758
AciI	CCGC	1 cut(s)	338
AclWI	GGATC	3 cut(s)	603, 626, 665
AcsI	RAATTY	1 cut(s)	486
AfaI	GTAC	1 cut(s)	885
AgsI	TTSAA	4 cut(s)	191, 299, 401, 657
AhdI	GACNNNNNGTC	1 cut(s)	430
AjnI	CCWGG	1 cut(s)	508
AluBI	AGCT	8 cut(s)	16, 103, 397, 727, 822, 876, 890, 943
AluI	AGCT	8 cut(s)	16, 103, 397, 727, 822, 876, 890, 943
AlwI	GGATC	3 cut(s)	603, 626, 665
Aor13HI	TCCGGA	1 cut(s)	758
AoxI	GGCC	1 cut(s)	737
ApeKI	GCWGC	2 cut(s)	496, 873
ApoI	RAATTY	1 cut(s)	486
Asp700I	GAANNNNTTC	1 cut(s)	652
AspLEI	GCGC	1 cut(s)	72
AsuHPI	GGTGA	1 cut(s)	590
AsuII	TTCGAA	1 cut(s)	331
BauI	CACGAG	1 cut(s)	848
BbvCI	CCTCAGC	2 cut(s)	741, 939
BbvI	GCAGC	2 cut(s)	508, 885
BccI	CCATC	3 cut(s)	116, 713, 793
BceAI	ACGGC	1 cut(s)	727
BcgI	CGANNNNNNTGC	2 cut(s)	566, 600
BciT130I	CCWGG	1 cut(s)	510
BclI	TGATCA	2 cut(s)	256, 919
BfuAI	ACCTGC	2 cut(s)	524, 844
BglII	AGATCT	1 cut(s)	469
BisI	GCNGC	2 cut(s)	497, 874
BlsI	GCNGC	2 cut(s)	498, 875
Bme1390I	CCNGG	1 cut(s)	510
BmeRI	GACNNNNNGTC	1 cut(s)	430
BmrFI	CCNGG	1 cut(s)	510
BmsI	GCATC	2 cut(s)	568, 783
BpmI	CTGGAG	1 cut(s)	38
Bpu10I	CCTNAGC	2 cut(s)	741, 939
Bpu14I	TTCGAA	1 cut(s)	331
BsaJI	CCNNGG	1 cut(s)	734
BsaWI	WCCGGW	1 cut(s)	758
Bse1I	ACTGG	1 cut(s)	866
Bse3DI	GCAATG	2 cut(s)	126, 819
BseAI	TCCGGA	1 cut(s)	758
BseBI	CCWGG	1 cut(s)	510
BseDI	CCNNGG	1 cut(s)	734
BseGI	GGATG	2 cut(s)	108, 268
BseMI	GCAATG	2 cut(s)	126, 819
BseMII	CTCAG	3 cut(s)	399, 755, 953
BseNI	ACTGG	1 cut(s)	866
BseXI	GCAGC	2 cut(s)	508, 885
BsgI	GTGCAG	1 cut(s)	924
Bsh1236I	CGCG	1 cut(s)	436
BshFI	GGCC	1 cut(s)	739
BsiSI	CCGG	2 cut(s)	174, 759
BsnI	GGCC	1 cut(s)	739
Bsp119I	TTCGAA	1 cut(s)	331
Bsp13I	TCCGGA	1 cut(s)	758
Bsp143I	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
BspACI	CCGC	1 cut(s)	338
BspANI	GGCC	1 cut(s)	739
BspCNI	CTCAG	3 cut(s)	400, 754, 952
BspEI	TCCGGA	1 cut(s)	758
BspFNI	CGCG	1 cut(s)	436
BspHI	TCATGA	1 cut(s)	916
BspMI	ACCTGC	2 cut(s)	524, 844
BspPI	GGATC	3 cut(s)	603, 626, 665
BspT104I	TTCGAA	1 cut(s)	331
BsrDI	GCAATG	2 cut(s)	126, 819
BsrI	ACTGG	1 cut(s)	866
BssECI	CCNNGG	1 cut(s)	734
BssMI	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
BssSI	CACGAG	1 cut(s)	848
BssT1I	CCWWGG	1 cut(s)	734
Bst2BI	CACGAG	1 cut(s)	848
Bst2UI	CCWGG	1 cut(s)	510
Bst4CI	ACNGT	2 cut(s)	551, 627
BstAPI	GCANNNNNTGC	1 cut(s)	505
BstBI	TTCGAA	1 cut(s)	331
BstC8I	GCNNGC	3 cut(s)	240, 543, 810
BstDEI	CTNAG	5 cut(s)	161, 408, 605, 741, 939
BstF5I	GGATG	2 cut(s)	108, 268
BstFNI	CGCG	1 cut(s)	436
BstHHI	GCGC	1 cut(s)	72
BstKTI	GATC	8 cut(s)	259, 277, 346, 472, 598, 634, 673, 922
BstMBI	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
BstMWI	GCNNNNNNNGC	2 cut(s)	442, 505
BstNI	CCWGG	1 cut(s)	510
BstNSI	RCATGY	2 cut(s)	242, 832
BstSCI	CCNGG	1 cut(s)	508
BstUI	CGCG	1 cut(s)	436
BstV1I	GCAGC	2 cut(s)	508, 885
BstX2I	RGATCY	2 cut(s)	469, 670
BstYI	RGATCY	2 cut(s)	469, 670
BsuRI	GGCC	1 cut(s)	739
BtsCI	GGATG	2 cut(s)	108, 268
BtsI	GCAGTG	1 cut(s)	721
BtsIMutI	CAGTG	2 cut(s)	623, 721
BveI	ACCTGC	2 cut(s)	524, 844
Cac8I	GCNNGC	3 cut(s)	240, 543, 810
CciI	TCATGA	1 cut(s)	916
CfoI	GCGC	1 cut(s)	72
Csp6I	GTAC	1 cut(s)	884
CviAII	CATG	7 cut(s)	139, 239, 493, 682, 695, 829, 917
CviQI	GTAC	1 cut(s)	884
DdeI	CTNAG	5 cut(s)	161, 408, 605, 741, 939
DpnI	GATC	8 cut(s)	258, 276, 345, 471, 597, 633, 672, 921
DpnII	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
DriI	GACNNNNNGTC	1 cut(s)	430
Eam1105I	GACNNNNNGTC	1 cut(s)	430
EciI	GGCGGA	1 cut(s)	353
Eco130I	CCWWGG	1 cut(s)	734
EcoRII	CCWGG	1 cut(s)	508
EcoT14I	CCWWGG	1 cut(s)	734
ErhI	CCWWGG	1 cut(s)	734
FaeI	CATG	7 cut(s)	142, 242, 496, 685, 698, 832, 920
FalI	AAGNNNNNCTT	2 cut(s)	279, 311
FatI	CATG	7 cut(s)	138, 238, 492, 681, 694, 828, 916
FbaI	TGATCA	2 cut(s)	256, 919
Fnu4HI	GCNGC	2 cut(s)	497, 874
FokI	GGATG	2 cut(s)	95, 255
Fsp4HI	GCNGC	2 cut(s)	497, 874
GlaI	GCGC	1 cut(s)	71
GluI	GCNGC	2 cut(s)	497, 874
GsuI	CTGGAG	1 cut(s)	38
HaeIII	GGCC	1 cut(s)	739
HapII	CCGG	2 cut(s)	174, 759
HhaI	GCGC	1 cut(s)	72
Hin1II	CATG	7 cut(s)	142, 242, 496, 685, 698, 832, 920
Hin6I	GCGC	1 cut(s)	70
HinP1I	GCGC	1 cut(s)	70
HindIII	AAGCTT	1 cut(s)	888
HinfI	GANTC	3 cut(s)	81, 401, 862
HpaII	CCGG	2 cut(s)	174, 759
HphI	GGTGA	1 cut(s)	590
Hpy166II	GTNNAC	2 cut(s)	201, 424
Hpy188I	TCNGA	2 cut(s)	409, 675
Hpy188III	TCNNGA	4 cut(s)	272, 473, 759, 917
Hpy8I	GTNNAC	2 cut(s)	201, 424
Hpy99I	CGWCG	1 cut(s)	622
HpyAV	CCTTC	3 cut(s)	159, 177, 893
HpyCH4III	ACNGT	2 cut(s)	551, 627
HpyCH4IV	ACGT	1 cut(s)	882
HpyCH4V	TGCA	3 cut(s)	496, 781, 905
HpyF10VI	GCNNNNNNNGC	2 cut(s)	442, 505
HpyF3I	CTNAG	5 cut(s)	161, 408, 605, 741, 939
HpySE526I	ACGT	1 cut(s)	882
Hsp92II	CATG	7 cut(s)	142, 242, 496, 685, 698, 832, 920
HspAI	GCGC	1 cut(s)	70
Kpn2I	TCCGGA	1 cut(s)	758
Ksp22I	TGATCA	2 cut(s)	256, 919
Kzo9I	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
LmnI	GCTCC	3 cut(s)	592, 665, 881
Lsp1109I	GCAGC	2 cut(s)	508, 885
LweI	GCATC	2 cut(s)	568, 783
MaeII	ACGT	1 cut(s)	882
MaeIII	GTNAC	7 cut(s)	55, 116, 206, 439, 554, 621, 703
MalI	GATC	8 cut(s)	258, 276, 345, 471, 597, 633, 672, 921
MboI	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
MboII	GAAGA	3 cut(s)	203, 353, 747
MflI	RGATCY	2 cut(s)	469, 670
MluCI	AATT	4 cut(s)	246, 306, 486, 910
MlyI	GAGTC	1 cut(s)	75
MmeI	TCCRAC	1 cut(s)	903
MnlI	CCTC	6 cut(s)	283, 520, 741, 750, 807, 948
MroI	TCCGGA	1 cut(s)	758
MroXI	GAANNNNTTC	1 cut(s)	652
MseI	TTAA	5 cut(s)	12, 24, 87, 945, 955
MslI	CAYNNNNRTG	3 cut(s)	386, 699, 776
MspI	CCGG	2 cut(s)	174, 759
MspR9I	CCNGG	1 cut(s)	510
MvaI	CCWGG	1 cut(s)	510
MvnI	CGCG	1 cut(s)	436
MwoI	GCNNNNNNNGC	2 cut(s)	442, 505
NdeII	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
NlaIII	CATG	7 cut(s)	142, 242, 496, 685, 698, 832, 920
NmuCI	GTSAC	3 cut(s)	116, 554, 621
NspI	RCATGY	2 cut(s)	242, 832
NspV	TTCGAA	1 cut(s)	331
PaeI	GCATGC	1 cut(s)	242
PagI	TCATGA	1 cut(s)	916
PaqCI	CACCTGC	1 cut(s)	844
PdmI	GAANNNNTTC	1 cut(s)	652
PfeI	GAWTC	2 cut(s)	401, 862
PkrI	GCNGC	2 cut(s)	498, 875
PleI	GAGTC	1 cut(s)	75
PpsI	GAGTC	1 cut(s)	75
Psp6I	CCWGG	1 cut(s)	508
PspGI	CCWGG	1 cut(s)	508
PsuI	RGATCY	2 cut(s)	469, 670
RsaI	GTAC	1 cut(s)	885
RsaNI	GTAC	1 cut(s)	884
RseI	CAYNNNNRTG	3 cut(s)	386, 699, 776
SaqAI	TTAA	5 cut(s)	12, 24, 87, 945, 955
SatI	GCNGC	2 cut(s)	497, 874
Sau3AI	GATC	8 cut(s)	256, 274, 343, 469, 595, 631, 670, 919
SchI	GAGTC	1 cut(s)	75
ScrFI	CCNGG	1 cut(s)	510
SfaNI	GCATC	2 cut(s)	568, 783
SfuI	TTCGAA	1 cut(s)	331
SmiMI	CAYNNNNRTG	3 cut(s)	386, 699, 776
SphI	GCATGC	1 cut(s)	242
Sse9I	AATT	4 cut(s)	246, 306, 486, 910
SsiI	CCGC	1 cut(s)	338
StyD4I	CCNGG	1 cut(s)	508
StyI	CCWWGG	1 cut(s)	734
TaaI	ACNGT	2 cut(s)	551, 627
TaiI	ACGT	1 cut(s)	885
TaqI	TCGA	1 cut(s)	331
TasI	AATT	4 cut(s)	246, 306, 486, 910
TfiI	GAWTC	2 cut(s)	401, 862
Tru1I	TTAA	5 cut(s)	12, 24, 87, 945, 955
Tru9I	TTAA	5 cut(s)	12, 24, 87, 945, 955
TscAI	CASTG	2 cut(s)	630, 721
TseFI	GTSAC	3 cut(s)	116, 554, 621
TseI	GCWGC	2 cut(s)	496, 873
Tsp45I	GTSAC	3 cut(s)	116, 554, 621
TspDTI	ATGAA	2 cut(s)	481, 912
TspRI	CASTG	2 cut(s)	630, 721
XapI	RAATTY	1 cut(s)	486
XceI	RCATGY	2 cut(s)	242, 832
XmnI	GAANNNNTTC	1 cut(s)	652

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