Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0007140

Physical Location & Seq

Genomic Coordinates Forward (+)

4174798 .. 4178310

Gene Structure 3513 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010760

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGGGTTTGGGTTTTAGGCTGAACCTCAAGTGTGGTTTTCCAATTCATAATTCTCATTGGCAGACCAATTCTCCTTCCAAGCTTTCTTCAACTTCTGTTAGAGGCAGGGAGGGTTCTTTCAGTTCAGCAAGGCTGTCCTTTTTGTCTGTTATTTCTGAGGAATGTGAGACTTCTAATAAAGATTCTTTCAAAGTGTACACGTGTCCATCTGCATCCCCACAACTCTTAGATGATGGTTACTCAGAAGTGGAAGAGAAGATGAACATTTGGGGGGTGTCAAAGAGTGGTTCACCTGACATGATTGATGATAAAGAGCACAGCTTTATATCCAGTGCAGGGTTAAGAACATCTCATTTTAGCTTGTTACTGCAAAATCTTAATGTTTTGGAGGAGACTTTTGCTGATTCAGATGTGTCAAAGTTGGAAAAGGAGATCCTTTTGCAATTAGGAAGGCTTGGAGCTCTGAAGTTATTTGATATTTGTCTATCGAGAACGCTTAAAACCTCGAGCTTTTTGGATTTATCAGACATACCTACTGAGCCGATTGAAGAGCATAAGATGGAAAGGATGAATATTGTCCGTTCTGGCAAAAGGGAAGAACGAAAATTAAGGAAAAGAACATCAGATGATTCCAAGAAGTTTACTGGTTCCTTGCCTTTAAAACCAATGAAGGAAGGTTTTAAAAAGCCTACTCCTTCATCATTTAGAAGAGCATCGAATTCTAGAAGTCGAAGACTATTGTTGGCTAAAAATGAGGCAGAAATGTCGGTCGGAGTTAAGGTGATCGCTGACTTGGAGAGGCTTAAAGCAACGTTGGAGAAGGAAACTGGTAAAGTACCGACCTTAAGATGCTGGGCAGAAGCAGCTGGAGTTGATGAAAAGGTGCTGCAACAAAAATTGCATTTCGGTTGGTATTGCCAAGATGAGCTTGTAAGGAGCAGTCGGTCCTTGGTTCTGTACCTTGCTCGAAACTATAGAGGTCTTGGAGTAGCCTTGGATGATTTGCTGCAGGCTGGAAACCTGGGTCTCCTACAAGGTGCAGAAAGATTTGATCCCTCGCGGGGTTACAGATTCTCGACCTATGTCCAATACTGGATAAGAAAATCAATGTCAAGATTGCTGGCACAACATGCCAGAGGGATCAAAATTCCTGTATGTTCCTCTTCCCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000988 GO:0000990 GO:0003674 GO:0003824 GO:0003899 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:0016740 GO:0016772 GO:0016779 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034062 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:0097747 GO:0104004 GO:0140098 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

391

Amino Acids

43.89

Weight (kDa)

9.36

Isoelectric Point (pI)

49.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	310 - 379	1.9e-16	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: OG0007140)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53920 AT3G53920
fragaria_vesca	FvH4_2g35110 FvH4_2g35110 FvH4_2g35110
malus_domestica	MD08G1108600.v1.1 MD15G1089100.v1.1
prunus_persica	Prupe.1G443200_v2.0.a1 Prupe.1G443200_v2.0.a1 Prupe.1G443200_v2.0.a1
pyrus_communis	pycom08g09050 pycom15g08350
rosa_chinensis	RchiOBHm_Chr6g0306861
rosa_laevigata	RLG00000010760
rosa_multiflora	Rmu_sc0009381.1_g000005
rosa_roxburghii	Rroxscaffold_7G00161410
rosa_rugosa	Rorug06G0353600 Rorug06G0353700 Rorug06G0353800 Rorug06G0353900
rosa_samantha	Rh6AG465400 Rh6BG435400 Rh6CG479800 Rh6DG466800
rosa_wichuraiana	Rw6G040560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	1060
AciI	CCGC	1 cut(s)	1060
AclI	AACGTT	1 cut(s)	812
AclWI	GGATC	3 cut(s)	427, 1046, 1148
AcsI	RAATTY	2 cut(s)	718, 1146
AcuI	CTGAAG	1 cut(s)	485
AcvI	CACGTG	1 cut(s)	201
AfaI	GTAC	3 cut(s)	197, 837, 959
AfiI	CCNNNNNNNGG	2 cut(s)	336, 1061
AflII	CTTAAG	1 cut(s)	844
AflIII	ACRYGT	2 cut(s)	198, 200
AgsI	TTSAA	3 cut(s)	90, 190, 548
AjnI	CCWGG	1 cut(s)	1020
AjuI	GAANNNNNNNTTGG	2 cut(s)	34, 66
AluBI	AGCT	7 cut(s)	82, 321, 360, 461, 510, 866, 928
AluI	AGCT	7 cut(s)	82, 321, 360, 461, 510, 866, 928
Alw21I	GWGCWC	2 cut(s)	318, 463
Alw26I	GTCTC	3 cut(s)	161, 386, 1031
AlwI	GGATC	3 cut(s)	427, 1046, 1148
Ama87I	CYCGRG	1 cut(s)	505
ApeKI	GCWGC	3 cut(s)	863, 886, 1006
ApoI	RAATTY	2 cut(s)	718, 1146
AspS9I	GGNCC	1 cut(s)	945
AsuHPI	GGTGA	2 cut(s)	282, 793
AvaI	CYCGRG	1 cut(s)	505
AvaII	GGWCC	1 cut(s)	945
BanII	GRGCYC	1 cut(s)	463
BbrPI	CACGTG	1 cut(s)	201
BbsI	GAAGAC	1 cut(s)	739
Bbv12I	GWGCWC	2 cut(s)	318, 463
BbvI	GCAGC	3 cut(s)	873, 875, 993
BccI	CCATC	3 cut(s)	214, 227, 553
BcgI	CGANNNNNNTGC	2 cut(s)	747, 781
BciT130I	CCWGG	1 cut(s)	1022
BcoDI	GTCTC	3 cut(s)	161, 386, 1031
BfaI	CTAG	1 cut(s)	723
BfmI	CTRYAG	2 cut(s)	973, 1007
BfrI	CTTAAG	1 cut(s)	844
BisI	GCNGC	3 cut(s)	864, 887, 1007
BlsI	GCNGC	3 cut(s)	865, 888, 1008
Bme1390I	CCNGG	1 cut(s)	1022
Bme18I	GGWCC	1 cut(s)	945
BmeT110I	CYCGRG	1 cut(s)	505
BmgT120I	GGNCC	1 cut(s)	945
BmiI	GGNNCC	1 cut(s)	649
BmrFI	CCNGG	1 cut(s)	1022
BmsI	GCATC	3 cut(s)	221, 722, 839
BoxI	GACNNNNGTC	1 cut(s)	1082
BpiI	GAAGAC	1 cut(s)	739
BpmI	CTGGAG	1 cut(s)	888
BpuEI	CTTGAG	1 cut(s)	11
BsaAI	YACGTR	1 cut(s)	201
BsaI	GGTCTC	1 cut(s)	1031
BsaJI	CCNNGG	3 cut(s)	948, 993, 1021
BsaXI	ACNNNNNCTCC	4 cut(s)	55, 85, 765, 795
Bsc4I	CCNNNNNNNGG	2 cut(s)	336, 1061
Bse1I	ACTGG	4 cut(s)	330, 649, 832, 1097
BseBI	CCWGG	1 cut(s)	1022
BseDI	CCNNGG	3 cut(s)	948, 993, 1021
BseGI	GGATG	3 cut(s)	212, 573, 1003
BseLI	CCNNNNNNNGG	2 cut(s)	336, 1061
BseMII	CTCAG	3 cut(s)	147, 255, 528
BseNI	ACTGG	4 cut(s)	330, 649, 832, 1097
BseRI	GAGGAG	1 cut(s)	404
BseXI	GCAGC	3 cut(s)	873, 875, 993
BseYI	CCCAGC	1 cut(s)	852
BsgI	GTGCAG	2 cut(s)	354, 1059
Bsh1236I	CGCG	1 cut(s)	1060
Bsh1285I	CGRYCG	1 cut(s)	771
BsiEI	CGRYCG	1 cut(s)	771
BsiHKAI	GWGCWC	2 cut(s)	318, 463
BsiHKCI	CYCGRG	1 cut(s)	505
BslI	CCNNNNNNNGG	2 cut(s)	336, 1061
BsmAI	GTCTC	3 cut(s)	161, 386, 1031
Bso31I	GGTCTC	1 cut(s)	1031
BsoBI	CYCGRG	1 cut(s)	505
Bsp1286I	GDGCHC	2 cut(s)	318, 463
Bsp1407I	TGTACA	1 cut(s)	195
Bsp143I	GATC	4 cut(s)	432, 783, 1051, 1140
BspACI	CCGC	1 cut(s)	1060
BspCNI	CTCAG	3 cut(s)	148, 254, 529
BspFNI	CGCG	1 cut(s)	1060
BspLI	GGNNCC	1 cut(s)	649
BspMAI	CTGCAG	1 cut(s)	1011
BspPI	GGATC	3 cut(s)	427, 1046, 1148
BspQI	GCTCTTC	2 cut(s)	543, 703
BspTI	CTTAAG	1 cut(s)	844
BspTNI	GGTCTC	1 cut(s)	1031
BsrGI	TGTACA	1 cut(s)	195
BsrI	ACTGG	4 cut(s)	330, 649, 832, 1097
BssECI	CCNNGG	3 cut(s)	948, 993, 1021
BssMI	GATC	4 cut(s)	432, 783, 1051, 1140
BssT1I	CCWWGG	2 cut(s)	948, 993
Bst2UI	CCWGG	1 cut(s)	1022
Bst6I	CTCTTC	4 cut(s)	246, 543, 703, 1168
BstAFI	CTTAAG	1 cut(s)	844
BstAPI	GCANNNNNTGC	1 cut(s)	1130
BstAUI	TGTACA	1 cut(s)	195
BstBAI	YACGTR	1 cut(s)	201
BstC8I	GCNNGC	2 cut(s)	1011, 1122
BstDEI	CTNAG	4 cut(s)	156, 226, 241, 537
BstF5I	GGATG	3 cut(s)	212, 573, 1003
BstFNI	CGCG	1 cut(s)	1060
BstKTI	GATC	4 cut(s)	435, 786, 1054, 1143
BstMAI	GTCTC	3 cut(s)	161, 386, 1031
BstMBI	GATC	4 cut(s)	432, 783, 1051, 1140
BstMCI	CGRYCG	1 cut(s)	771
BstMWI	GCNNNNNNNGC	2 cut(s)	863, 1130
BstNI	CCWGG	1 cut(s)	1022
BstNSI	RCATGY	1 cut(s)	1133
BstPAI	GACNNNNGTC	1 cut(s)	1082
BstSCI	CCNGG	1 cut(s)	1020
BstSFI	CTRYAG	2 cut(s)	973, 1007
BstUI	CGCG	1 cut(s)	1060
BstV1I	GCAGC	3 cut(s)	873, 875, 993
BstV2I	GAAGAC	1 cut(s)	739
BstX2I	RGATCY	1 cut(s)	432
BstYI	RGATCY	1 cut(s)	432
BtsCI	GGATG	3 cut(s)	212, 573, 1003
BtsIMutI	CAGTG	1 cut(s)	337
Cac8I	GCNNGC	2 cut(s)	1011, 1122
Cfr13I	GGNCC	1 cut(s)	945
Csp6I	GTAC	3 cut(s)	196, 836, 958
CviAII	CATG	2 cut(s)	298, 1130
CviQI	GTAC	3 cut(s)	196, 836, 958
DdeI	CTNAG	4 cut(s)	156, 226, 241, 537
DpnI	GATC	4 cut(s)	434, 785, 1053, 1142
DpnII	GATC	4 cut(s)	432, 783, 1051, 1140
DraI	TTTAAA	2 cut(s)	660, 682
Eam1104I	CTCTTC	4 cut(s)	246, 543, 703, 1168
EarI	CTCTTC	4 cut(s)	246, 543, 703, 1168
Ecl136II	GAGCTC	1 cut(s)	461
Eco130I	CCWWGG	2 cut(s)	948, 993
Eco24I	GRGCYC	1 cut(s)	463
Eco31I	GGTCTC	1 cut(s)	1031
Eco47I	GGWCC	1 cut(s)	945
Eco53kI	GAGCTC	1 cut(s)	461
Eco57I	CTGAAG	1 cut(s)	485
Eco72I	CACGTG	1 cut(s)	201
Eco88I	CYCGRG	1 cut(s)	505
EcoICRI	GAGCTC	1 cut(s)	461
EcoRI	GAATTC	1 cut(s)	718
EcoRII	CCWGG	1 cut(s)	1020
EcoT14I	CCWWGG	2 cut(s)	948, 993
EcoT38I	GRGCYC	1 cut(s)	463
ErhI	CCWWGG	2 cut(s)	948, 993
FaeI	CATG	2 cut(s)	301, 1133
FaiI	YATR	9 cut(s)	48, 299, 326, 530, 555, 975, 1083, 1131, 1156
FalI	AAGNNNNNCTT	2 cut(s)	912, 944
FatI	CATG	2 cut(s)	297, 1129
FauI	CCCGC	1 cut(s)	1053
Fnu4HI	GCNGC	3 cut(s)	864, 887, 1007
FokI	GGATG	3 cut(s)	199, 580, 1010
FriOI	GRGCYC	1 cut(s)	463
Fsp4HI	GCNGC	3 cut(s)	864, 887, 1007
FspBI	CTAG	1 cut(s)	723
GluI	GCNGC	3 cut(s)	864, 887, 1007
GsaI	CCCAGC	1 cut(s)	856
GsuI	CTGGAG	1 cut(s)	888
Hin1II	CATG	2 cut(s)	301, 1133
HindIII	AAGCTT	1 cut(s)	80
HinfI	GANTC	4 cut(s)	182, 404, 629, 1071
HphI	GGTGA	2 cut(s)	282, 793
Hpy166II	GTNNAC	4 cut(s)	196, 198, 290, 642
Hpy188I	TCNGA	7 cut(s)	157, 244, 409, 465, 526, 625, 773
Hpy188III	TCNNGA	4 cut(s)	489, 723, 1075, 1113
Hpy8I	GTNNAC	4 cut(s)	196, 198, 290, 642
HpyAV	CCTTC	6 cut(s)	84, 444, 664, 668, 705, 814
HpyCH4IV	ACGT	2 cut(s)	200, 812
HpyCH4V	TGCA	8 cut(s)	212, 335, 370, 442, 889, 901, 1009, 1040
HpyF10VI	GCNNNNNNNGC	2 cut(s)	863, 1130
HpyF3I	CTNAG	4 cut(s)	156, 226, 241, 537
HpySE526I	ACGT	2 cut(s)	200, 812
Hsp92II	CATG	2 cut(s)	301, 1133
Kzo9I	GATC	4 cut(s)	432, 783, 1051, 1140
LguI	GCTCTTC	2 cut(s)	543, 703
LmnI	GCTCC	2 cut(s)	458, 936
Lsp1109I	GCAGC	3 cut(s)	873, 875, 993
LweI	GCATC	3 cut(s)	221, 722, 839
MaeI	CTAG	1 cut(s)	723
MaeII	ACGT	2 cut(s)	200, 812
MaeIII	GTNAC	3 cut(s)	236, 363, 1064
MalI	GATC	4 cut(s)	434, 785, 1053, 1142
MboI	GATC	4 cut(s)	432, 783, 1051, 1140
MboII	GAAGA	8 cut(s)	78, 263, 268, 560, 608, 720, 744, 1155
MflI	RGATCY	1 cut(s)	432
MhlI	GDGCHC	2 cut(s)	318, 463
MluCI	AATT	8 cut(s)	42, 49, 67, 443, 605, 718, 896, 1146
MmeI	TCCRAC	3 cut(s)	402, 751, 795
MseI	TTAA	9 cut(s)	341, 378, 498, 608, 659, 681, 777, 804, 845
MspA1I	CMGCKG	1 cut(s)	866
MspCI	CTTAAG	1 cut(s)	844
MspR9I	CCNGG	1 cut(s)	1022
MvaI	CCWGG	1 cut(s)	1022
MvnI	CGCG	1 cut(s)	1060
MwoI	GCNNNNNNNGC	2 cut(s)	863, 1130
NdeII	GATC	4 cut(s)	432, 783, 1051, 1140
NlaIII	CATG	2 cut(s)	301, 1133
NlaIV	GGNNCC	1 cut(s)	649
NspI	RCATGY	1 cut(s)	1133
PaeR7I	CTCGAG	1 cut(s)	505
PciSI	GCTCTTC	2 cut(s)	543, 703
PfeI	GAWTC	4 cut(s)	182, 404, 629, 1071
PkrI	GCNGC	3 cut(s)	865, 888, 1008
PmaCI	CACGTG	1 cut(s)	201
PmlI	CACGTG	1 cut(s)	201
Ppu21I	YACGTR	1 cut(s)	201
PshAI	GACNNNNGTC	1 cut(s)	1082
Psp124BI	GAGCTC	1 cut(s)	463
Psp1406I	AACGTT	1 cut(s)	812
Psp6I	CCWGG	1 cut(s)	1020
PspCI	CACGTG	1 cut(s)	201
PspFI	CCCAGC	1 cut(s)	852
PspGI	CCWGG	1 cut(s)	1020
PspN4I	GGNNCC	1 cut(s)	649
PspPI	GGNCC	1 cut(s)	945
PspXI	VCTCGAGB	1 cut(s)	505
PstI	CTGCAG	1 cut(s)	1011
PsuI	RGATCY	1 cut(s)	432
PvuII	CAGCTG	1 cut(s)	866
RsaI	GTAC	3 cut(s)	197, 837, 959
RsaNI	GTAC	3 cut(s)	196, 836, 958
SacI	GAGCTC	1 cut(s)	463
SapI	GCTCTTC	2 cut(s)	543, 703
SaqAI	TTAA	9 cut(s)	341, 378, 498, 608, 659, 681, 777, 804, 845
SatI	GCNGC	3 cut(s)	864, 887, 1007
Sau3AI	GATC	4 cut(s)	432, 783, 1051, 1140
Sau96I	GGNCC	1 cut(s)	945
ScrFI	CCNGG	1 cut(s)	1022
SduI	GDGCHC	2 cut(s)	318, 463
SfaNI	GCATC	3 cut(s)	221, 722, 839
SfcI	CTRYAG	2 cut(s)	973, 1007
Sfr274I	CTCGAG	1 cut(s)	505
SinI	GGWCC	1 cut(s)	945
SlaI	CTCGAG	1 cut(s)	505
SmlI	CTYRAG	3 cut(s)	26, 505, 844
SmoI	CTYRAG	3 cut(s)	26, 505, 844
Sse9I	AATT	8 cut(s)	42, 49, 67, 443, 605, 718, 896, 1146
SsiI	CCGC	1 cut(s)	1060
SspI	AATATT	1 cut(s)	574
SspMI	CTAG	1 cut(s)	723
SstI	GAGCTC	1 cut(s)	463
StyD4I	CCNGG	1 cut(s)	1020
StyI	CCWWGG	2 cut(s)	948, 993
TaiI	ACGT	2 cut(s)	203, 815
TaqI	TCGA	6 cut(s)	488, 506, 716, 730, 967, 1076
TaqII	GACCGA	2 cut(s)	757, 933
TasI	AATT	8 cut(s)	42, 49, 67, 443, 605, 718, 896, 1146
TatI	WGTACW	1 cut(s)	195
TfiI	GAWTC	4 cut(s)	182, 404, 629, 1071
Tru1I	TTAA	9 cut(s)	341, 378, 498, 608, 659, 681, 777, 804, 845
Tru9I	TTAA	9 cut(s)	341, 378, 498, 608, 659, 681, 777, 804, 845
TscAI	CASTG	1 cut(s)	337
TseI	GCWGC	3 cut(s)	863, 886, 1006
TspDTI	ATGAA	6 cut(s)	35, 275, 584, 683, 687, 891
TspGWI	ACGGA	1 cut(s)	569
TspRI	CASTG	1 cut(s)	337
Vha464I	CTTAAG	1 cut(s)	844
VpaK11BI	GGWCC	1 cut(s)	945
XapI	RAATTY	2 cut(s)	718, 1146
XbaI	TCTAGA	1 cut(s)	722
XceI	RCATGY	1 cut(s)	1133
XhoI	CTCGAG	1 cut(s)	505
XspI	CTAG	1 cut(s)	723

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