Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0013559

Physical Location & Seq

Genomic Coordinates Reverse (-)

67324390 .. 67327653

Gene Structure 3264 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G039780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1530 bp

ATGATGGCCACAGCTGCTGCTGCTGCTGCTGTTGGGCTTAGTAGTACGGGGAAGAGGCTCTTTAGTTCTTCCTTGTATTATTCAGATATCACAGATAAGCTCTTTTATCTCAATGATCACGGCTTTGTAAATTGTCAATTGTCTTCAACAAAGAATGTTGTCACTGCCAGAAAGTCTTCCAATTACAGTAATTCCAGATTTCCATCTTCAAATAGACATCAAGATCAGTCCATCAGGGCTTTAAAAGAGCATGCAGATACCGCATCTGCTCCTTCATCAACCACACATCAATTGCTAGAACATTACAACGACTTGGAGGAGGAAAGCTACGATCTTGAATATTCAGTGGAGGCGCTTCTTCTGCTACAGAAGTCTATGCTGGAAAAGCAGTGGAATCTTTCCTTTGAGAAAAAACTGTCAAGAAGAAAAATAACTGATAAGAAGATACCTGTCACTTGTTCTGGGGTATCTGCTCGGCAGAGGAGGATGAGTACTAGGAGGAAAACTTTCAGCAAAAATACCTTAGAAATGCAACCCAGCATCAACAAGCATCTCAGTCCGAGGCTGCTGCAGAATCGTATAAAGGGTTATGTGAAGGGCGTTACGAGTGAGCATTTGCTGACTCACACTGAGGTCGTACGCCTGTCAAAGAAAATTAAGATCGGGCTTTCAGTGGAGGAGCATAAATCAAGACTGAAGGAGAAACTGGGTTGTGAGCCCTCTGACGAACAACTCGCAACTTCATTGAGGATTTCCAGCACTGAACTACATTCAAAGTTAATCCAATGTTCTTTGGCAAGAGAGAAGCTGACAATGAGCAATGTTCGTCTGGTCATGTCCATTGCCCAAAGATATGATAACATGGGTGCTGAAATGGCTGACCTTGTCCAGGGTGGCTTAATTGGACTACTACGCGGGATTGAGAAATTTGATTCATCAAAGGGGTTCAAAATTTCTACTTATGTTTACTGGTGGATACGTCAGGGTGTTTCAAGAGCACTGGTTGAAAATTCAAGAACCTTAAGACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAGAAATGCAAAAGTTAGATTGGAAGAGAAAGGAATAACTCCATCTATTGATAGGATTGCAGAAAGCCTGAATATGTCCAAAAAGAAAGTTAGGAATGCTACTGAGGCAATCAGTAAGGTTTTTTCGCTTGATAGAGATGCATTCCCCTCTTTGAATGGCCTTCCAGGAGAAACTCATCATAGTTACATTGCTGATAATCGCCATGAGAACATCCCATGGCATGGGGTGGATGAGTTGGCACTCAAGGATGAAGTAAACAAGCTCATAAATATGATGCTTGTGGAGCGTGAGCGAGAGATCATACGGCTTTACTATGGTCTGGATAATGAATGTCTTACATGGGAGGACATTAGTAAACGTATAGGATTGTCCAGAGAAAGAGTTAGGCAAGTCGGACTGGTTGCTCTAGAGAAACTGAAACATGGTGCGAGGAAAAAAGAGATGGAGGCCATGCTAGTTCAACATTAA

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:0010109 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:0051775 GO:0060255 GO:0065007 GO:0071214 GO:0071461 GO:0071478 GO:0071482 GO:0071704 GO:0080005 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

509

Amino Acids

58.0

Weight (kDa)

9.61

Isoelectric Point (pI)

39.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	272 - 339	2.8e-17	Sigma-70 region 2
Sigma70_r3	PF04539	349 - 420	4.5e-13	Sigma-70 region 3
Sigma70_r4	PF04545	447 - 495	3.9e-10	Sigma-70, region 4

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013559)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G64860 AT1G64860
fragaria_vesca	FvH4_7g34280
malus_domestica	MD01G1240100.v1.1 MD07G1311500.v1.1
prunus_persica	Prupe.2G329700_v2.0.a1 Prupe.2G329700_v2.0.a1
pyrus_communis	pycom01g24680 pycom07g28370
rosa_chinensis	RchiOBHm_Chr1g0384631
rosa_laevigata	RLG00000026025
rosa_multiflora	Rmu_sc0012136.1_g000027
rosa_roxburghii	Rroxscaffold_4G00276510
rosa_samantha	Rh1AG474800 Rh1BG432900 Rh1CG446100 Rh1DG465500
rosa_wichuraiana	Rw1G039780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1283
AccII	CGCG	1 cut(s)	915
AciI	CCGC	2 cut(s)	261, 915
AcoI	YGGCCR	1 cut(s)	6
AcsI	RAATTY	3 cut(s)	926, 951, 1009
AcuI	CTGAAG	1 cut(s)	716
AfaI	GTAC	3 cut(s)	46, 493, 639
AfiI	CCNNNNNNNGG	2 cut(s)	889, 1283
AflII	CTTAAG	1 cut(s)	1021
AjnI	CCWGG	2 cut(s)	888, 1225
AluBI	AGCT	5 cut(s)	14, 100, 327, 808, 1324
AluI	AGCT	5 cut(s)	14, 100, 327, 808, 1324
Alw21I	GWGCWC	1 cut(s)	1000
AlwNI	CAGNNNCTG	1 cut(s)	17
AoxI	GGCC	3 cut(s)	6, 1219, 1509
ApeKI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 565, 568
ApoI	RAATTY	3 cut(s)	926, 951, 1009
Asp700I	GAANNNNTTC	2 cut(s)	175, 506
AspLEI	GCGC	1 cut(s)	355
BalI	TGGCCA	1 cut(s)	8
BanII	GRGCYC	1 cut(s)	720
BbsI	GAAGAC	2 cut(s)	135, 168
Bbv12I	GWGCWC	1 cut(s)	1000
BbvI	GCAGC	6 cut(s)	4, 7, 10, 13, 552, 555
BccI	CCATC	4 cut(s)	211, 239, 1111, 1498
BceAI	ACGGC	2 cut(s)	136, 1382
BcgI	CGANNNNNNTGC	2 cut(s)	550, 584
BciT130I	CCWGG	2 cut(s)	890, 1227
BciVI	GTATCC	1 cut(s)	969
BclI	TGATCA	1 cut(s)	115
BfaI	CTAG	4 cut(s)	296, 495, 1469, 1517
BfmI	CTRYAG	2 cut(s)	365, 569
BfoI	RGCGCY	1 cut(s)	356
BfrI	CTTAAG	1 cut(s)	1021
BfuI	GTATCC	1 cut(s)	969
BisI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 566, 569
BlsI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 567, 570
BmcAI	AGTACT	1 cut(s)	493
Bme1390I	CCNGG	2 cut(s)	890, 1227
BmrFI	CCNGG	2 cut(s)	890, 1227
BmrI	ACTGGG	1 cut(s)	716
BmsI	GCATC	5 cut(s)	272, 549, 559, 1189, 1326
BmuI	ACTGGG	1 cut(s)	716
BpiI	GAAGAC	2 cut(s)	135, 168
BpuEI	CTTGAG	1 cut(s)	1289
BsaBI	GATNNNNATC	1 cut(s)	202
BsaJI	CCNNGG	3 cut(s)	560, 889, 1277
BsaXI	ACNNNNNCTCC	2 cut(s)	475, 505
Bsc4I	CCNNNNNNNGG	2 cut(s)	889, 1283
Bse1I	ACTGG	4 cut(s)	711, 974, 1005, 1464
Bse3DI	GCAATG	3 cut(s)	826, 840, 1248
Bse8I	GATNNNNATC	1 cut(s)	202
BseBI	CCWGG	2 cut(s)	890, 1227
BseDI	CCNNGG	3 cut(s)	560, 889, 1277
BseGI	GGATG	4 cut(s)	492, 1272, 1297, 1315
BseJI	GATNNNNATC	1 cut(s)	202
BseLI	CCNNNNNNNGG	2 cut(s)	889, 1283
BseMI	GCAATG	3 cut(s)	826, 840, 1248
BseMII	CTCAG	3 cut(s)	568, 621, 1155
BseNI	ACTGG	4 cut(s)	711, 974, 1005, 1464
BseRI	GAGGAG	3 cut(s)	332, 496, 692
BseXI	GCAGC	6 cut(s)	4, 7, 10, 13, 552, 555
BseYI	CCCAGC	1 cut(s)	536
Bsh1236I	CGCG	1 cut(s)	915
BshFI	GGCC	3 cut(s)	8, 1221, 1511
BsiHKAI	GWGCWC	1 cut(s)	1000
BsiWI	CGTACG	1 cut(s)	637
BslI	CCNNNNNNNGG	2 cut(s)	889, 1283
BsmI	GAATGC	2 cut(s)	1162, 1202
BsnI	GGCC	3 cut(s)	8, 1221, 1511
Bsp1286I	GDGCHC	2 cut(s)	720, 1000
Bsp143I	GATC	5 cut(s)	115, 223, 331, 660, 1359
Bsp19I	CCATGG	1 cut(s)	1277
BspACI	CCGC	2 cut(s)	261, 915
BspANI	GGCC	3 cut(s)	8, 1221, 1511
BspCNI	CTCAG	3 cut(s)	567, 622, 1156
BspFNI	CGCG	1 cut(s)	915
BspMAI	CTGCAG	1 cut(s)	573
BspTI	CTTAAG	1 cut(s)	1021
BsrDI	GCAATG	3 cut(s)	826, 840, 1248
BsrI	ACTGG	4 cut(s)	711, 974, 1005, 1464
BssECI	CCNNGG	3 cut(s)	560, 889, 1277
BssMI	GATC	5 cut(s)	115, 223, 331, 660, 1359
BssT1I	CCWWGG	1 cut(s)	1277
Bst2UI	CCWGG	2 cut(s)	890, 1227
Bst4CI	ACNGT	2 cut(s)	188, 417
Bst6I	CTCTTC	2 cut(s)	47, 1080
BstAFI	CTTAAG	1 cut(s)	1021
BstC8I	GCNNGC	1 cut(s)	252
BstDEI	CTNAG	5 cut(s)	38, 523, 554, 630, 1164
BstDSI	CCRYGG	1 cut(s)	1277
BstENI	CCTNNNNNAGG	1 cut(s)	887
BstF5I	GGATG	4 cut(s)	492, 1272, 1297, 1315
BstFNI	CGCG	1 cut(s)	915
BstH2I	RGCGCY	1 cut(s)	356
BstHHI	GCGC	1 cut(s)	355
BstKTI	GATC	5 cut(s)	118, 226, 334, 663, 1362
BstMBI	GATC	5 cut(s)	115, 223, 331, 660, 1359
BstNI	CCWGG	2 cut(s)	890, 1227
BstNSI	RCATGY	1 cut(s)	254
BstSCI	CCNGG	2 cut(s)	888, 1225
BstSFI	CTRYAG	2 cut(s)	365, 569
BstUI	CGCG	1 cut(s)	915
BstV1I	GCAGC	6 cut(s)	4, 7, 10, 13, 552, 555
BstV2I	GAAGAC	2 cut(s)	135, 168
BsuI	GTATCC	1 cut(s)	969
BsuRI	GGCC	3 cut(s)	8, 1221, 1511
BtgI	CCRYGG	1 cut(s)	1277
BtsCI	GGATG	4 cut(s)	492, 1272, 1297, 1315
BtsI	GCAGTG	2 cut(s)	162, 395
BtsIMutI	CAGTG	7 cut(s)	162, 351, 395, 627, 678, 759, 998
Cac8I	GCNNGC	1 cut(s)	252
CaiI	CAGNNNCTG	1 cut(s)	17
CfoI	GCGC	1 cut(s)	355
Csp6I	GTAC	3 cut(s)	45, 492, 638
CviQI	GTAC	3 cut(s)	45, 492, 638
DdeI	CTNAG	5 cut(s)	38, 523, 554, 630, 1164
DpnI	GATC	5 cut(s)	117, 225, 333, 662, 1361
DpnII	GATC	5 cut(s)	115, 223, 331, 660, 1359
DraI	TTTAAA	1 cut(s)	243
EaeI	YGGCCR	1 cut(s)	6
Eam1104I	CTCTTC	2 cut(s)	47, 1080
EarI	CTCTTC	2 cut(s)	47, 1080
Eco130I	CCWWGG	1 cut(s)	1277
Eco24I	GRGCYC	1 cut(s)	720
Eco32I	GATATC	1 cut(s)	88
Eco57I	CTGAAG	1 cut(s)	716
EcoNI	CCTNNNNNAGG	1 cut(s)	887
EcoRII	CCWGG	2 cut(s)	888, 1225
EcoRV	GATATC	1 cut(s)	88
EcoT14I	CCWWGG	1 cut(s)	1277
EcoT22I	ATGCAT	1 cut(s)	1204
EcoT38I	GRGCYC	1 cut(s)	720
ErhI	CCWWGG	1 cut(s)	1277
FalI	AAGNNNNNCTT	2 cut(s)	44, 76
FauI	CCCGC	1 cut(s)	908
FbaI	TGATCA	1 cut(s)	115
Fnu4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 566, 569
FokI	GGATG	4 cut(s)	499, 1259, 1304, 1322
FriOI	GRGCYC	1 cut(s)	720
Fsp4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 566, 569
FspBI	CTAG	4 cut(s)	296, 495, 1469, 1517
GlaI	GCGC	1 cut(s)	354
GluI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 566, 569
GsaI	CCCAGC	1 cut(s)	540
HaeII	RGCGCY	1 cut(s)	356
HaeIII	GGCC	3 cut(s)	8, 1221, 1511
HhaI	GCGC	1 cut(s)	355
Hin6I	GCGC	1 cut(s)	353
HinP1I	GCGC	1 cut(s)	353
HinfI	GANTC	4 cut(s)	394, 574, 622, 932
Hpy166II	GTNNAC	3 cut(s)	967, 1318, 1418
Hpy188I	TCNGA	5 cut(s)	85, 561, 724, 1064, 1457
Hpy8I	GTNNAC	3 cut(s)	967, 1318, 1418
HpyAV	CCTTC	4 cut(s)	282, 589, 691, 1232
HpyCH4III	ACNGT	2 cut(s)	188, 417
HpyCH4IV	ACGT	2 cut(s)	979, 1420
HpyCH4V	TGCA	7 cut(s)	254, 532, 571, 1042, 1070, 1121, 1202
HpyF3I	CTNAG	5 cut(s)	38, 523, 554, 630, 1164
HpySE526I	ACGT	2 cut(s)	979, 1420
HspAI	GCGC	1 cut(s)	353
Ksp22I	TGATCA	1 cut(s)	115
Kzo9I	GATC	5 cut(s)	115, 223, 331, 660, 1359
LmnI	GCTCC	3 cut(s)	274, 679, 1345
Lsp1109I	GCAGC	6 cut(s)	4, 7, 10, 13, 552, 555
LweI	GCATC	5 cut(s)	272, 549, 559, 1189, 1326
MaeI	CTAG	4 cut(s)	296, 495, 1469, 1517
MaeII	ACGT	2 cut(s)	979, 1420
MaeIII	GTNAC	4 cut(s)	160, 451, 601, 1244
MalI	GATC	5 cut(s)	117, 225, 333, 662, 1361
MboI	GATC	5 cut(s)	115, 223, 331, 660, 1359
MboII	GAAGA	9 cut(s)	60, 64, 135, 168, 198, 350, 435, 454, 1097
MfeI	CAATTG	2 cut(s)	137, 290
MhlI	GDGCHC	2 cut(s)	720, 1000
MlsI	TGGCCA	1 cut(s)	8
MluNI	TGGCCA	1 cut(s)	8
MlyI	GAGTC	1 cut(s)	616
MmeI	TCCRAC	1 cut(s)	1435
Mox20I	TGGCCA	1 cut(s)	8
Mph1103I	ATGCAT	1 cut(s)	1204
MroXI	GAANNNNTTC	2 cut(s)	175, 506
MscI	TGGCCA	1 cut(s)	8
MseI	TTAA	7 cut(s)	242, 657, 779, 899, 1022, 1058, 1528
MslI	CAYNNNNRTG	2 cut(s)	1041, 1331
Msp20I	TGGCCA	1 cut(s)	8
MspA1I	CMGCKG	1 cut(s)	14
MspCI	CTTAAG	1 cut(s)	1021
MspR9I	CCNGG	2 cut(s)	890, 1227
MunI	CAATTG	2 cut(s)	137, 290
Mva1269I	GAATGC	2 cut(s)	1162, 1202
MvaI	CCWGG	2 cut(s)	890, 1227
MvnI	CGCG	1 cut(s)	915
NcoI	CCATGG	1 cut(s)	1277
NdeII	GATC	5 cut(s)	115, 223, 331, 660, 1359
NmeAIII	GCCGAG	1 cut(s)	454
NmuCI	GTSAC	2 cut(s)	160, 451
NsiI	ATGCAT	1 cut(s)	1204
NspI	RCATGY	1 cut(s)	254
PaeI	GCATGC	1 cut(s)	254
PctI	GAATGC	2 cut(s)	1162, 1202
PdmI	GAANNNNTTC	2 cut(s)	175, 506
PfeI	GAWTC	3 cut(s)	394, 574, 932
Pfl23II	CGTACG	1 cut(s)	637
PflFI	GACNNNGTC	1 cut(s)	884
PflMI	CCANNNNNTGG	1 cut(s)	1283
PfoI	TCCNGGA	1 cut(s)	1225
PkrI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 567, 570
PleI	GAGTC	1 cut(s)	616
PpsI	GAGTC	1 cut(s)	616
Psp6I	CCWGG	2 cut(s)	888, 1225
PspFI	CCCAGC	1 cut(s)	536
PspGI	CCWGG	2 cut(s)	888, 1225
PspLI	CGTACG	1 cut(s)	637
PstI	CTGCAG	1 cut(s)	573
PstNI	CAGNNNCTG	1 cut(s)	17
PsyI	GACNNNGTC	1 cut(s)	884
PvuII	CAGCTG	1 cut(s)	14
RsaI	GTAC	3 cut(s)	46, 493, 639
RsaNI	GTAC	3 cut(s)	45, 492, 638
RseI	CAYNNNNRTG	2 cut(s)	1041, 1331
SaqAI	TTAA	7 cut(s)	242, 657, 779, 899, 1022, 1058, 1528
SatI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 566, 569
Sau3AI	GATC	5 cut(s)	115, 223, 331, 660, 1359
ScaI	AGTACT	1 cut(s)	493
SchI	GAGTC	1 cut(s)	616
ScrFI	CCNGG	2 cut(s)	890, 1227
SduI	GDGCHC	2 cut(s)	720, 1000
SfaNI	GCATC	5 cut(s)	272, 549, 559, 1189, 1326
SfcI	CTRYAG	2 cut(s)	365, 569
SmiMI	CAYNNNNRTG	2 cut(s)	1041, 1331
SmlI	CTYRAG	2 cut(s)	1021, 1304
SmoI	CTYRAG	2 cut(s)	1021, 1304
SphI	GCATGC	1 cut(s)	254
SsiI	CCGC	2 cut(s)	261, 915
SspI	AATATT	1 cut(s)	341
SspMI	CTAG	4 cut(s)	296, 495, 1469, 1517
StyD4I	CCNGG	2 cut(s)	888, 1225
StyI	CCWWGG	1 cut(s)	1277
TaaI	ACNGT	2 cut(s)	188, 417
TaiI	ACGT	2 cut(s)	982, 1423
TatI	WGTACW	1 cut(s)	491
TfiI	GAWTC	3 cut(s)	394, 574, 932
Tru1I	TTAA	7 cut(s)	242, 657, 779, 899, 1022, 1058, 1528
Tru9I	TTAA	7 cut(s)	242, 657, 779, 899, 1022, 1058, 1528
TscAI	CASTG	7 cut(s)	169, 351, 395, 634, 678, 766, 1005
TseFI	GTSAC	2 cut(s)	160, 451
TseI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 565, 568
Tsp45I	GTSAC	2 cut(s)	160, 451
TspDTI	ATGAA	5 cut(s)	264, 732, 924, 1326, 1404
TspRI	CASTG	7 cut(s)	169, 351, 395, 634, 678, 766, 1005
Tth111I	GACNNNGTC	1 cut(s)	884
Van91I	CCANNNNNTGG	1 cut(s)	1283
Vha464I	CTTAAG	1 cut(s)	1021
XagI	CCTNNNNNAGG	1 cut(s)	887
XapI	RAATTY	3 cut(s)	926, 951, 1009
XbaI	TCTAGA	1 cut(s)	1468
XceI	RCATGY	1 cut(s)	254
XmnI	GAANNNNTTC	2 cut(s)	175, 506
XspI	CTAG	4 cut(s)	296, 495, 1469, 1517
ZrmI	AGTACT	1 cut(s)	493
Zsp2I	ATGCAT	1 cut(s)	1204

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