Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0005329

Physical Location & Seq

Genomic Coordinates Reverse (-)

4035773 .. 4039012

Gene Structure 3240 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G002260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGATATGGCACCAAACACAAAATATCTCCAAAACACAACTTCCTTGGGACGCAGTTCACTCATCACTCTTCTACTCTGCTGTATGGCCATCACCACTGGCATATGTTCATCACCAAACCAACCTCCAACTCTCCCCACACTTTCACTCTCAAACATCTCACCACTCAAAACCCACTTGCCTTTTCCCTCCTCCAAATTTGGCGCCAACTTAGTCTCCAACGATGCATTGGTCAATGGAGCTGCCGCGGAGGCAGTGGCGCTCGCACGCGCTGTGGCGGAGGTGGCCAGAGATGCCGCGACGGTGAGGGAAGGGATTAGTGAGGTTTGGAGATGCAATGAGAGTGGGAATGAGAGTGGTGGTGGATTGATGGCGAGGAGGAAGAAGAGGAGGAGAAGGCGGAAAGGGTTGGAGTGTTTTGATGATGAGGAGAGGAAGAGGGAGTTTGAAGATGAGAGGGTTTCATTTGGGGTTGTGAGATATGGTTATCTGAGCCCAAGAGAGGAGGCAGAGTGCTGTCAGAGTCTCAAGGAGGGAGCAAAACTAGAATCTGAAAGAACAAGAGTCACAGAAGCTCAAGAGCATGAGCCAACTTCAAAACAGCTGGCAAATGTGATGAGGGTGAAGATGAGAAGTATAGATAAGGTTATCCGTAACAGAAGAGAGTCACAAGAAAGGATCATCAAGAGCTATCGAGGACTTGTTGTCTCTGTTGCCAGCAGTTATCAAGGGAAAGGATTAAGCTTGGAGGACCTCATTCAGGAAGGGAGCATTGGACTTCTTCGAGGGGCAGTGAAGTTTGATCCTGAGAGAGGATTTAAATTATCAACATATGTGTATTGGTGGATTAGACAAGCTATCATCAGAGCCATAGAAAAGAAGTCTAGAATAATCAGATTACCATTTGTTTGTGCAGGGACACATTTGTGGAGTGATGGCAAAAATTACAAAAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0071214 GO:0071478 GO:0071482 GO:0071704 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2000142 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

318

Amino Acids

35.59

Weight (kDa)

9.57

Isoelectric Point (pI)

54.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	228 - 296	3.2e-22	Sigma-70 region 2

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: OG0005329)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13730
fragaria_vesca	FvH4_7g01630
malus_domestica	MD02G1302300.v1.1 MD07G1021800.v1.1
prunus_persica	Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1
pyrus_communis	pycom02g25460 pycom07g01650
rosa_chinensis	RchiOBHm_Chr1g0317901
rosa_laevigata	RLG00000029590 RLG00000030578
rosa_multiflora	Rmu_sc0000654.1_g000054 Rmu_ssc0000008.1_g000049
rosa_roxburghii	Rroxscaffold_4G00330140
rosa_rugosa	Rorug01G0018500
rosa_samantha	Rh1AG030000 Rh1BG026000 Rh1BG026100 Rh1CG028600 Rh1DG041500
rosa_wichuraiana	Rw1G002260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	10, 203
AccII	CGCG	3 cut(s)	248, 270, 299
AciI	CCGC	5 cut(s)	246, 248, 278, 297, 400
AclWI	GGATC	2 cut(s)	686, 797
AcoI	YGGCCR	2 cut(s)	87, 285
AcsI	RAATTY	1 cut(s)	197
AcyI	GRCGYC	1 cut(s)	204
AfiI	CCNNNNNNNGG	3 cut(s)	502, 760, 812
AgsI	TTSAA	2 cut(s)	449, 597
AhdI	GACNNNNNGTC	1 cut(s)	704
AjuI	GAANNNNNNNTTGG	2 cut(s)	756, 788
AleI	CACNNNNGTG	1 cut(s)	925
AluBI	AGCT	7 cut(s)	242, 575, 604, 690, 744, 857, 954
AluI	AGCT	7 cut(s)	242, 575, 604, 690, 744, 857, 954
Alw26I	GTCTC	3 cut(s)	220, 530, 712
AlwI	GGATC	2 cut(s)	686, 797
AoxI	GGCC	2 cut(s)	87, 285
ApeKI	GCWGC	1 cut(s)	242
ApoI	RAATTY	1 cut(s)	197
AspLEI	GCGC	3 cut(s)	206, 262, 272
AspS9I	GGNCC	1 cut(s)	751
AsuHPI	GGTGA	5 cut(s)	85, 105, 153, 316, 634
AvaII	GGWCC	1 cut(s)	751
BalI	TGGCCA	2 cut(s)	89, 287
BanI	GGYRCC	2 cut(s)	10, 203
BanII	GRGCYC	1 cut(s)	497
BbvI	GCAGC	1 cut(s)	229
BccI	CCATC	3 cut(s)	98, 364, 929
BcoDI	GTCTC	3 cut(s)	220, 530, 712
BfaI	CTAG	2 cut(s)	545, 885
BfoI	RGCGCY	2 cut(s)	207, 263
BglI	GCCNNNNNGGC	1 cut(s)	251
BisI	GCNGC	3 cut(s)	243, 246, 297
BlsI	GCNGC	3 cut(s)	244, 247, 298
Bme18I	GGWCC	1 cut(s)	751
BmeRI	GACNNNNNGTC	1 cut(s)	704
BmgT120I	GGNCC	1 cut(s)	751
BmiI	GGNNCC	2 cut(s)	12, 205
BmsI	GCATC	3 cut(s)	214, 283, 323
BpuEI	CTTGAG	2 cut(s)	512, 561
BsaHI	GRCGYC	1 cut(s)	204
BsaJI	CCNNGG	2 cut(s)	45, 246
BsaXI	ACNNNNNCTCC	4 cut(s)	200, 230, 497, 527
Bsc4I	CCNNNNNNNGG	3 cut(s)	502, 760, 812
Bse1I	ACTGG	1 cut(s)	103
Bse3DI	GCAATG	1 cut(s)	343
BseDI	CCNNGG	2 cut(s)	45, 246
BseLI	CCNNNNNNNGG	3 cut(s)	502, 760, 812
BseMI	GCAATG	1 cut(s)	343
BseMII	CTCAG	2 cut(s)	482, 798
BseNI	ACTGG	1 cut(s)	103
BseRI	GAGGAG	6 cut(s)	181, 391, 403, 406, 443, 518
BseXI	GCAGC	1 cut(s)	229
BsgI	GTGCAG	1 cut(s)	933
Bsh1236I	CGCG	3 cut(s)	248, 270, 299
BshFI	GGCC	2 cut(s)	89, 287
BshNI	GGYRCC	2 cut(s)	10, 203
BslFI	GGGAC	2 cut(s)	63, 931
BslI	CCNNNNNNNGG	3 cut(s)	502, 760, 812
BsmAI	GTCTC	3 cut(s)	220, 530, 712
BsmFI	GGGAC	2 cut(s)	63, 931
BsnI	GGCC	2 cut(s)	89, 287
Bsp1286I	GDGCHC	1 cut(s)	497
Bsp143I	GATC	2 cut(s)	678, 802
BspACI	CCGC	5 cut(s)	246, 248, 278, 297, 400
BspANI	GGCC	2 cut(s)	89, 287
BspCNI	CTCAG	2 cut(s)	483, 799
BspFNI	CGCG	3 cut(s)	248, 270, 299
BspLI	GGNNCC	2 cut(s)	12, 205
BspPI	GGATC	2 cut(s)	686, 797
BspT107I	GGYRCC	2 cut(s)	10, 203
BsrDI	GCAATG	1 cut(s)	343
BsrI	ACTGG	1 cut(s)	103
BssECI	CCNNGG	2 cut(s)	45, 246
BssMI	GATC	2 cut(s)	678, 802
BssNI	GRCGYC	1 cut(s)	204
BssT1I	CCWWGG	1 cut(s)	45
Bst4CI	ACNGT	1 cut(s)	304
Bst6I	CTCTTC	4 cut(s)	75, 380, 431, 655
BstACI	GRCGYC	1 cut(s)	204
BstC8I	GCNNGC	4 cut(s)	264, 268, 606, 718
BstDEI	CTNAG	3 cut(s)	211, 491, 807
BstDSI	CCRYGG	1 cut(s)	246
BstENI	CCTNNNNNAGG	2 cut(s)	758, 810
BstFNI	CGCG	3 cut(s)	248, 270, 299
BstH2I	RGCGCY	2 cut(s)	207, 263
BstHHI	GCGC	3 cut(s)	206, 262, 272
BstKTI	GATC	2 cut(s)	681, 805
BstMAI	GTCTC	3 cut(s)	220, 530, 712
BstMBI	GATC	2 cut(s)	678, 802
BstMWI	GCNNNNNNNGC	3 cut(s)	251, 284, 293
BstUI	CGCG	3 cut(s)	248, 270, 299
BstV1I	GCAGC	1 cut(s)	229
BsuRI	GGCC	2 cut(s)	89, 287
BtgI	CCRYGG	1 cut(s)	246
BtsI	GCAGTG	2 cut(s)	261, 798
BtsIMutI	CAGTG	3 cut(s)	96, 261, 798
Cac8I	GCNNGC	4 cut(s)	264, 268, 606, 718
CfoI	GCGC	3 cut(s)	206, 262, 272
Cfr13I	GGNCC	1 cut(s)	751
Cfr42I	CCGCGG	1 cut(s)	249
CseI	GACGC	1 cut(s)	60
CspCI	CAANNNNNGTGG	2 cut(s)	325, 360
CviAII	CATG	1 cut(s)	584
DdeI	CTNAG	3 cut(s)	211, 491, 807
DinI	GGCGCC	1 cut(s)	205
DpnI	GATC	2 cut(s)	680, 804
DpnII	GATC	2 cut(s)	678, 802
DraI	TTTAAA	1 cut(s)	820
DriI	GACNNNNNGTC	1 cut(s)	704
EaeI	YGGCCR	2 cut(s)	87, 285
Eam1104I	CTCTTC	4 cut(s)	75, 380, 431, 655
Eam1105I	GACNNNNNGTC	1 cut(s)	704
EarI	CTCTTC	4 cut(s)	75, 380, 431, 655
EciI	GGCGGA	2 cut(s)	293, 415
Eco130I	CCWWGG	1 cut(s)	45
Eco24I	GRGCYC	1 cut(s)	497
Eco47I	GGWCC	1 cut(s)	751
EcoNI	CCTNNNNNAGG	2 cut(s)	758, 810
EcoO109I	RGGNCCY	1 cut(s)	751
EcoT14I	CCWWGG	1 cut(s)	45
EcoT22I	ATGCAT	1 cut(s)	229
EcoT38I	GRGCYC	1 cut(s)	497
EgeI	GGCGCC	1 cut(s)	205
EheI	GGCGCC	1 cut(s)	205
ErhI	CCWWGG	1 cut(s)	45
FaeI	CATG	1 cut(s)	587
FaqI	GGGAC	2 cut(s)	63, 931
FatI	CATG	1 cut(s)	583
FauNDI	CATATG	2 cut(s)	104, 832
Fnu4HI	GCNGC	3 cut(s)	243, 246, 297
FriOI	GRGCYC	1 cut(s)	497
Fsp4HI	GCNGC	3 cut(s)	243, 246, 297
FspBI	CTAG	2 cut(s)	545, 885
GlaI	GCGC	3 cut(s)	205, 261, 271
GluI	GCNGC	3 cut(s)	243, 246, 297
HaeII	RGCGCY	2 cut(s)	207, 263
HaeIII	GGCC	2 cut(s)	89, 287
HgaI	GACGC	1 cut(s)	60
HhaI	GCGC	3 cut(s)	206, 262, 272
Hin1I	GRCGYC	1 cut(s)	204
Hin1II	CATG	1 cut(s)	587
Hin6I	GCGC	3 cut(s)	204, 260, 270
HinP1I	GCGC	3 cut(s)	204, 260, 270
HindIII	AAGCTT	1 cut(s)	742
HinfI	GANTC	4 cut(s)	523, 548, 564, 665
HphI	GGTGA	5 cut(s)	85, 105, 153, 316, 634
Hpy166II	GTNNAC	1 cut(s)	59
Hpy188I	TCNGA	5 cut(s)	492, 522, 553, 866, 896
Hpy188III	TCNNGA	5 cut(s)	578, 685, 761, 806, 885
Hpy8I	GTNNAC	1 cut(s)	59
Hpy99I	CGWCG	1 cut(s)	304
HpyAV	CCTTC	3 cut(s)	305, 390, 758
HpyCH4III	ACNGT	1 cut(s)	304
HpyCH4V	TGCA	3 cut(s)	227, 336, 914
HpyF10VI	GCNNNNNNNGC	3 cut(s)	251, 284, 293
HpyF3I	CTNAG	3 cut(s)	211, 491, 807
Hsp92I	GRCGYC	1 cut(s)	204
Hsp92II	CATG	1 cut(s)	587
HspAI	GCGC	3 cut(s)	204, 260, 270
KasI	GGCGCC	1 cut(s)	203
KspI	CCGCGG	1 cut(s)	249
Kzo9I	GATC	2 cut(s)	678, 802
LmnI	GCTCC	3 cut(s)	239, 536, 768
LpnPI	CCDG	7 cut(s)	84, 301, 590, 730, 746, 819, 900
Lsp1109I	GCAGC	1 cut(s)	229
LweI	GCATC	3 cut(s)	214, 283, 323
MaeI	CTAG	2 cut(s)	545, 885
MaeIII	GTNAC	3 cut(s)	565, 653, 666
MalI	GATC	2 cut(s)	680, 804
MboI	GATC	2 cut(s)	678, 802
MboII	GAAGA	8 cut(s)	62, 394, 397, 448, 461, 637, 672, 773
MhlI	GDGCHC	1 cut(s)	497
MlsI	TGGCCA	2 cut(s)	89, 287
MluCI	AATT	3 cut(s)	197, 821, 943
MluNI	TGGCCA	2 cut(s)	89, 287
Mly113I	GGCGCC	1 cut(s)	204
MlyI	GAGTC	3 cut(s)	532, 573, 674
MmeI	TCCRAC	3 cut(s)	152, 243, 390
Mox20I	TGGCCA	2 cut(s)	89, 287
Mph1103I	ATGCAT	1 cut(s)	229
MscI	TGGCCA	2 cut(s)	89, 287
MseI	TTAA	2 cut(s)	740, 819
MslI	CAYNNNNRTG	1 cut(s)	925
Msp20I	TGGCCA	2 cut(s)	89, 287
MspA1I	CMGCKG	2 cut(s)	248, 604
MvnI	CGCG	3 cut(s)	248, 270, 299
MwoI	GCNNNNNNNGC	3 cut(s)	251, 284, 293
NarI	GGCGCC	1 cut(s)	204
NdeI	CATATG	2 cut(s)	104, 832
NdeII	GATC	2 cut(s)	678, 802
NlaIII	CATG	1 cut(s)	587
NlaIV	GGNNCC	2 cut(s)	12, 205
NmuCI	GTSAC	2 cut(s)	565, 666
NsiI	ATGCAT	1 cut(s)	229
OliI	CACNNNNGTG	1 cut(s)	925
PfeI	GAWTC	1 cut(s)	548
PkrI	GCNGC	3 cut(s)	244, 247, 298
PleI	GAGTC	3 cut(s)	531, 572, 673
PluTI	GGCGCC	1 cut(s)	207
PpsI	GAGTC	3 cut(s)	531, 572, 673
PpuMI	RGGWCCY	1 cut(s)	751
Psp5II	RGGWCCY	1 cut(s)	751
PspN4I	GGNNCC	2 cut(s)	12, 205
PspPI	GGNCC	1 cut(s)	751
PspPPI	RGGWCCY	1 cut(s)	751
PvuII	CAGCTG	1 cut(s)	604
RseI	CAYNNNNRTG	1 cut(s)	925
SacII	CCGCGG	1 cut(s)	249
SaqAI	TTAA	2 cut(s)	740, 819
SatI	GCNGC	3 cut(s)	243, 246, 297
Sau3AI	GATC	2 cut(s)	678, 802
Sau96I	GGNCC	1 cut(s)	751
SchI	GAGTC	3 cut(s)	532, 573, 674
SduI	GDGCHC	1 cut(s)	497
SfaNI	GCATC	3 cut(s)	214, 283, 323
SfoI	GGCGCC	1 cut(s)	205
Sfr303I	CCGCGG	1 cut(s)	249
SgrBI	CCGCGG	1 cut(s)	249
SinI	GGWCC	1 cut(s)	751
SmiI	ATTTAAAT	1 cut(s)	820
SmiMI	CAYNNNNRTG	1 cut(s)	925
SmlI	CTYRAG	2 cut(s)	527, 576
SmoI	CTYRAG	2 cut(s)	527, 576
Sse9I	AATT	3 cut(s)	197, 821, 943
SsiI	CCGC	5 cut(s)	246, 248, 278, 297, 400
SspDI	GGCGCC	1 cut(s)	203
SspMI	CTAG	2 cut(s)	545, 885
StyI	CCWWGG	1 cut(s)	45
SwaI	ATTTAAAT	1 cut(s)	820
TaaI	ACNGT	1 cut(s)	304
TaqI	TCGA	2 cut(s)	694, 784
TasI	AATT	3 cut(s)	197, 821, 943
TauI	GCSGC	2 cut(s)	248, 299
TfiI	GAWTC	1 cut(s)	548
Tru1I	TTAA	2 cut(s)	740, 819
Tru9I	TTAA	2 cut(s)	740, 819
TscAI	CASTG	3 cut(s)	103, 261, 798
TseFI	GTSAC	2 cut(s)	565, 666
TseI	GCWGC	1 cut(s)	242
Tsp45I	GTSAC	2 cut(s)	565, 666
TspDTI	ATGAA	2 cut(s)	99, 453
TspGWI	ACGGA	1 cut(s)	641
TspRI	CASTG	3 cut(s)	103, 261, 798
VpaK11BI	GGWCC	1 cut(s)	751
XagI	CCTNNNNNAGG	2 cut(s)	758, 810
XapI	RAATTY	1 cut(s)	197
XbaI	TCTAGA	1 cut(s)	884
XcmI	CCANNNNNNNNNTGG	1 cut(s)	226
XspI	CTAG	2 cut(s)	545, 885
Zsp2I	ATGCAT	1 cut(s)	229

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