Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0005230.1

Orthogroup ID

OG0000544

Physical Location & Seq

Genomic Coordinates Forward (+)

5139 .. 13131

Gene Structure 7993 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0005230.1_g000001.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

atggagatgctgagcgaccgaggctacaacgtcgccgactcggacctcactcgctcgctccctgagttccgtaccgcgttcggccaaaaccctgacctcgaccacctcaccatctgcgcctctctccgctccaattccaagaacaaggtgtgtcttcgcgaaatcgccgatcggttggtcatagagacatggcggtgcaaaatcgccggtgcatggctgcttcttcttctgcaggcgcgggttggtggtgcagggaacttgcaggcacatgcagccaaaggagttagagaggctgctgcttctggtgaaggtggaagcggtacgtggtggcagagcaaggcgaatgtgaaattgcgagataacacggccttcctgcctgtggaaggtcgaaagggttcaaagcagtaccctaaaatcttcttgcaatatcttactgctattcacggagctgcgggaaattttaaggctagggatgatctgtatgctaagctgaagaaactgaatctcacattggaagagttcaaaaacctttatttccattctttcctgcaaagcaacgaggaactggcagatttccctacacgaatcatcgacaatatcagacctctaaaggtttattacagaggaaaaatatgcagttactccaacaatgctgttagtgaggctgttctggtccggaacgtgatcactcatctgaatcagtggaaactgaagagggacagggaccattttgacaagactgagctcttagagattgtttatgaatgcttcccagacatctgcttcaagttgtttgacttctgtcagttttgtggagtcaatattgacttcgcaaaactccgcaaaattttcaagaaatggatgactttgctcagttctaagaacatgaatgttcagcaggaacattacacgaatgttcagcaggaacattacacgaatgttcagcagccatttttacactttatactttacacttctaagaacactaatgttcagcaggaacgacatgaattgtcatggcctgtccccactatgtctcatctcaatccttgttaa

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0030880 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0055029 GO:0061695 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

351

Amino Acids

40.45

Weight (kDa)

9.08

Isoelectric Point (pI)

33.35

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000544)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g04860 FvH4_1g04920 FvH4_1g05010 FvH4_1g07320 FvH4_5g09280 FvH4_5g09280 FvH4_5g09280
rosa_chinensis	RchiOBHm_Chr2g0088841 RchiOBHm_Chr2g0089881 RchiOBHm_Chr2g0089901 RchiOBHm_Chr2g0089911 RchiOBHm_Chr2g0089921 RchiOBHm_Chr2g0090621 RchiOBHm_Chr2g0091091 RchiOBHm_Chr5g0019481 RchiOBHm_Chr5g0019491
rosa_laevigata	RLG00000016078 RLG00000016112 RLG00000016113 RLG00000016126 RLG00000016176 RLG00000016179 RLG00000016217 RLG00000019062 RLG00000032446 RLG00000032447 RLG00000032450
rosa_multiflora	Rmu_sc0000259.1_g000018 Rmu_sc0000779.1_g000022 Rmu_sc0002515.1_g000014 Rmu_sc0002759.1_g000046 Rmu_sc0002986.1_g000072 Rmu_sc0005230.1_g000001
rosa_roxburghii	Rroxscaffold_1G00058560 Rroxscaffold_1G00058570 Rroxscaffold_1G00074340 Rroxscaffold_2G00150150 Rroxscaffold_2G00150970 Rroxscaffold_2G00151500 Rroxscaffold_4G00332590
rosa_rugosa	Rorug01G0127100 Rorug02G0009600 Rorug05G0051100 Rorug07G0229300
rosa_samantha	Rh2AG050300 Rh2AG050400 Rh2AG055000 Rh2AG055100 Rh2AG058600 Rh2AG058900 Rh2AG062100 Rh2BG048900 Rh2BG053100 Rh2BG053900 Rh2BG057400 Rh2BG061100 Rh2CG051100 Rh2CG055100 Rh2CG056100 Rh2CG059300 Rh2CG063200 Rh2DG049400 Rh2DG050300 Rh2DG050400 Rh2DG050500 Rh2DG055300 Rh2DG061700 Rh2DG362200 Rh4AG113200 Rh5AG141500 Rh5AG142000 Rh5AG142100 Rh5BG140400 Rh5BG140500 Rh5CG152300 Rh5CG152400 Rh5CG152500 Rh5CG152600 Rh5DG141100 Rh7DG375200
rosa_wichuraiana	Rw2G004030 Rw2G004800 Rw2G005060 Rw7G031650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	129
AccII	CGCG	3 cut(s)	77, 159, 238
AccIII	TCCGGA	1 cut(s)	675
AciI	CCGC	7 cut(s)	75, 127, 193, 238, 318, 452, 841
AcoI	YGGCCR	1 cut(s)	82
AcsI	RAATTY	2 cut(s)	457, 846
AcuI	CTGAAG	2 cut(s)	512, 731
AfaI	GTAC	3 cut(s)	73, 322, 407
AfiI	CCNNNNNNNGG	3 cut(s)	213, 379, 383
AgsI	TTSAA	4 cut(s)	399, 523, 787, 853
AjuI	GAANNNNNNNTTGG	2 cut(s)	494, 526
AluBI	AGCT	3 cut(s)	449, 490, 745
AluI	AGCT	3 cut(s)	449, 490, 745
Alw21I	GWGCWC	1 cut(s)	747
Alw26I	GTCTC	2 cut(s)	179, 1041
Aor13HI	TCCGGA	1 cut(s)	675
AoxI	GGCC	3 cut(s)	82, 366, 1019
ApeKI	GCWGC	6 cut(s)	217, 272, 293, 296, 449, 946
ApoI	RAATTY	2 cut(s)	457, 846
Asp700I	GAANNNNTTC	1 cut(s)	394
AspLEI	GCGC	2 cut(s)	119, 238
AspS9I	GGNCC	3 cut(s)	43, 673, 724
AsuHPI	GGTGA	2 cut(s)	100, 317
AvaII	GGWCC	3 cut(s)	43, 673, 724
BanII	GRGCYC	1 cut(s)	747
BbsI	GAAGAC	1 cut(s)	146
Bbv12I	GWGCWC	1 cut(s)	747
BbvI	GCAGC	6 cut(s)	204, 280, 283, 284, 436, 958
BccI	CCATC	1 cut(s)	119
BceAI	ACGGC	1 cut(s)	381
BclI	TGATCA	1 cut(s)	684
BcoDI	GTCTC	2 cut(s)	179, 1041
BfaI	CTAG	1 cut(s)	468
BfmI	CTRYAG	1 cut(s)	230
BisI	GCNGC	6 cut(s)	218, 273, 294, 297, 450, 947
BlpI	GCTNAGC	2 cut(s)	11, 486
BlsI	GCNGC	6 cut(s)	219, 274, 295, 298, 451, 948
Bme18I	GGWCC	3 cut(s)	43, 673, 724
BmgT120I	GGNCC	3 cut(s)	43, 673, 724
BmiI	GGNNCC	1 cut(s)	725
BoxI	GACNNNNGTC	1 cut(s)	801
BpiI	GAAGAC	1 cut(s)	146
Bpu1102I	GCTNAGC	2 cut(s)	11, 486
BsaAI	YACGTR	1 cut(s)	324
BsaJI	CCNNGG	1 cut(s)	19
BsaWI	WCCGGW	1 cut(s)	675
Bsc4I	CCNNNNNNNGG	3 cut(s)	213, 379, 383
Bse118I	RCCGGY	1 cut(s)	206
Bse1I	ACTGG	1 cut(s)	570
BseAI	TCCGGA	1 cut(s)	675
BseDI	CCNNGG	1 cut(s)	19
BseGI	GGATG	2 cut(s)	478, 867
BseLI	CCNNNNNNNGG	3 cut(s)	213, 379, 383
BseMII	CTCAG	3 cut(s)	54, 732, 886
BseNI	ACTGG	1 cut(s)	570
BseXI	GCAGC	6 cut(s)	204, 280, 283, 284, 436, 958
BsgI	GTGCAG	1 cut(s)	270
Bsh1236I	CGCG	3 cut(s)	77, 159, 238
Bsh1285I	CGRYCG	2 cut(s)	19, 172
BshFI	GGCC	3 cut(s)	84, 368, 1021
BsiEI	CGRYCG	2 cut(s)	19, 172
BsiHKAI	GWGCWC	1 cut(s)	747
BsiSI	CCGG	2 cut(s)	207, 676
BslFI	GGGAC	3 cut(s)	731, 737, 1010
BslI	CCNNNNNNNGG	3 cut(s)	213, 379, 383
BsmAI	GTCTC	2 cut(s)	179, 1041
BsmFI	GGGAC	3 cut(s)	731, 737, 1010
BsmI	GAATGC	1 cut(s)	770
BsnI	GGCC	3 cut(s)	84, 368, 1021
Bsp1286I	GDGCHC	1 cut(s)	747
Bsp13I	TCCGGA	1 cut(s)	675
Bsp143I	GATC	3 cut(s)	169, 475, 684
Bsp1720I	GCTNAGC	2 cut(s)	11, 486
Bsp68I	TCGCGA	1 cut(s)	159
BspACI	CCGC	7 cut(s)	75, 127, 193, 238, 318, 452, 841
BspANI	GGCC	3 cut(s)	84, 368, 1021
BspCNI	CTCAG	3 cut(s)	55, 733, 885
BspEI	TCCGGA	1 cut(s)	675
BspFNI	CGCG	3 cut(s)	77, 159, 238
BspLI	GGNNCC	1 cut(s)	725
BspMAI	CTGCAG	1 cut(s)	234
BsrBI	CCGCTC	1 cut(s)	129
BsrFI	RCCGGY	1 cut(s)	206
BsrI	ACTGG	1 cut(s)	570
BssAI	RCCGGY	1 cut(s)	206
BssECI	CCNNGG	1 cut(s)	19
BssMI	GATC	3 cut(s)	169, 475, 684
Bst6I	CTCTTC	2 cut(s)	510, 707
BstBAI	YACGTR	1 cut(s)	324
BstC8I	GCNNGC	3 cut(s)	56, 234, 264
BstDEI	CTNAG	8 cut(s)	11, 63, 486, 741, 748, 872, 879, 978
BstENI	CCTNNNNNAGG	1 cut(s)	381
BstF5I	GGATG	2 cut(s)	478, 867
BstFNI	CGCG	3 cut(s)	77, 159, 238
BstHHI	GCGC	2 cut(s)	119, 238
BstKTI	GATC	3 cut(s)	172, 478, 687
BstMAI	GTCTC	2 cut(s)	179, 1041
BstMBI	GATC	3 cut(s)	169, 475, 684
BstMCI	CGRYCG	2 cut(s)	19, 172
BstMWI	GCNNNNNNNGC	2 cut(s)	21, 272
BstNSI	RCATGY	1 cut(s)	272
BstPAI	GACNNNNGTC	1 cut(s)	801
BstSFI	CTRYAG	1 cut(s)	230
BstUI	CGCG	3 cut(s)	77, 159, 238
BstV1I	GCAGC	6 cut(s)	204, 280, 283, 284, 436, 958
BstV2I	GAAGAC	1 cut(s)	146
BsuRI	GGCC	3 cut(s)	84, 368, 1021
BtsCI	GGATG	2 cut(s)	478, 867
BtsIMutI	CAGTG	1 cut(s)	707
BtuMI	TCGCGA	1 cut(s)	159
Cac8I	GCNNGC	3 cut(s)	56, 234, 264
CfoI	GCGC	2 cut(s)	119, 238
Cfr10I	RCCGGY	1 cut(s)	206
Cfr13I	GGNCC	3 cut(s)	43, 673, 724
Csp6I	GTAC	3 cut(s)	72, 321, 406
CviAII	CATG	6 cut(s)	189, 213, 269, 886, 1007, 1017
CviQI	GTAC	3 cut(s)	72, 321, 406
DdeI	CTNAG	8 cut(s)	11, 63, 486, 741, 748, 872, 879, 978
DpnI	GATC	3 cut(s)	171, 477, 686
DpnII	GATC	3 cut(s)	169, 475, 684
EaeI	YGGCCR	1 cut(s)	82
Eam1104I	CTCTTC	2 cut(s)	510, 707
EarI	CTCTTC	2 cut(s)	510, 707
Ecl136II	GAGCTC	1 cut(s)	745
Eco24I	GRGCYC	1 cut(s)	747
Eco47I	GGWCC	3 cut(s)	43, 673, 724
Eco53kI	GAGCTC	1 cut(s)	745
Eco57I	CTGAAG	2 cut(s)	512, 731
EcoICRI	GAGCTC	1 cut(s)	745
EcoNI	CCTNNNNNAGG	1 cut(s)	381
EcoT38I	GRGCYC	1 cut(s)	747
FaeI	CATG	6 cut(s)	192, 216, 272, 889, 1010, 1020
FaqI	GGGAC	3 cut(s)	731, 737, 1010
FatI	CATG	6 cut(s)	188, 212, 268, 885, 1006, 1016
FauI	CCCGC	2 cut(s)	231, 445
FbaI	TGATCA	1 cut(s)	684
Fnu4HI	GCNGC	6 cut(s)	218, 273, 294, 297, 450, 947
FokI	GGATG	2 cut(s)	485, 874
FriOI	GRGCYC	1 cut(s)	747
Fsp4HI	GCNGC	6 cut(s)	218, 273, 294, 297, 450, 947
FspBI	CTAG	1 cut(s)	468
GlaI	GCGC	2 cut(s)	118, 237
GluI	GCNGC	6 cut(s)	218, 273, 294, 297, 450, 947
HaeIII	GGCC	3 cut(s)	84, 368, 1021
HapII	CCGG	2 cut(s)	207, 676
HhaI	GCGC	2 cut(s)	119, 238
Hin1II	CATG	6 cut(s)	192, 216, 272, 889, 1010, 1020
Hin6I	GCGC	2 cut(s)	117, 236
HinP1I	GCGC	2 cut(s)	117, 236
HinfI	GANTC	5 cut(s)	38, 502, 585, 697, 816
HpaII	CCGG	2 cut(s)	207, 676
HphI	GGTGA	2 cut(s)	100, 317
Hpy188I	TCNGA	3 cut(s)	43, 602, 696
Hpy188III	TCNNGA	3 cut(s)	158, 676, 853
Hpy99I	CGWCG	1 cut(s)	35
HpyAV	CCTTC	3 cut(s)	302, 377, 379
HpyCH4IV	ACGT	3 cut(s)	30, 323, 681
HpyCH4V	TGCA	9 cut(s)	198, 212, 232, 251, 262, 272, 424, 550, 636
HpyF10VI	GCNNNNNNNGC	2 cut(s)	21, 272
HpyF3I	CTNAG	8 cut(s)	11, 63, 486, 741, 748, 872, 879, 978
HpySE526I	ACGT	3 cut(s)	30, 323, 681
Hsp92II	CATG	6 cut(s)	192, 216, 272, 889, 1010, 1020
HspAI	GCGC	2 cut(s)	117, 236
Kpn2I	TCCGGA	1 cut(s)	675
Ksp22I	TGATCA	1 cut(s)	684
Kzo9I	GATC	3 cut(s)	169, 475, 684
LmnI	GCTCC	3 cut(s)	63, 134, 446
Lsp1109I	GCAGC	6 cut(s)	204, 280, 283, 284, 436, 958
MaeI	CTAG	1 cut(s)	468
MaeII	ACGT	3 cut(s)	30, 323, 681
MaeIII	GTNAC	1 cut(s)	638
MalI	GATC	3 cut(s)	171, 477, 686
MbiI	CCGCTC	1 cut(s)	129
MboI	GATC	3 cut(s)	169, 475, 684
MboII	GAAGA	7 cut(s)	146, 215, 218, 409, 505, 527, 724
MhlI	GDGCHC	1 cut(s)	747
MluCI	AATT	5 cut(s)	133, 350, 457, 846, 1010
MlyI	GAGTC	2 cut(s)	32, 825
MmeI	TCCRAC	1 cut(s)	669
MroI	TCCGGA	1 cut(s)	675
MroXI	GAANNNNTTC	1 cut(s)	394
MseI	TTAA	2 cut(s)	462, 1054
MslI	CAYNNNNRTG	1 cut(s)	193
MspI	CCGG	2 cut(s)	207, 676
Mva1269I	GAATGC	1 cut(s)	770
MvnI	CGCG	3 cut(s)	77, 159, 238
MwoI	GCNNNNNNNGC	2 cut(s)	21, 272
NdeII	GATC	3 cut(s)	169, 475, 684
NlaIII	CATG	6 cut(s)	192, 216, 272, 889, 1010, 1020
NlaIV	GGNNCC	1 cut(s)	725
NruI	TCGCGA	1 cut(s)	159
NspI	RCATGY	1 cut(s)	272
PctI	GAATGC	1 cut(s)	770
PdmI	GAANNNNTTC	1 cut(s)	394
PfeI	GAWTC	3 cut(s)	502, 585, 697
PkrI	GCNGC	6 cut(s)	219, 274, 295, 298, 451, 948
Ple19I	CGATCG	1 cut(s)	172
PleI	GAGTC	2 cut(s)	32, 824
PpsI	GAGTC	2 cut(s)	32, 824
Ppu21I	YACGTR	1 cut(s)	324
PshAI	GACNNNNGTC	1 cut(s)	801
Psp124BI	GAGCTC	1 cut(s)	747
PspN4I	GGNNCC	1 cut(s)	725
PspPI	GGNCC	3 cut(s)	43, 673, 724
PstI	CTGCAG	1 cut(s)	234
PvuI	CGATCG	1 cut(s)	172
RruI	TCGCGA	1 cut(s)	159
RsaI	GTAC	3 cut(s)	73, 322, 407
RsaNI	GTAC	3 cut(s)	72, 321, 406
RseI	CAYNNNNRTG	1 cut(s)	193
SacI	GAGCTC	1 cut(s)	747
SaqAI	TTAA	2 cut(s)	462, 1054
SatI	GCNGC	6 cut(s)	218, 273, 294, 297, 450, 947
Sau3AI	GATC	3 cut(s)	169, 475, 684
Sau96I	GGNCC	3 cut(s)	43, 673, 724
SchI	GAGTC	2 cut(s)	32, 825
SduI	GDGCHC	1 cut(s)	747
SfcI	CTRYAG	1 cut(s)	230
SgrAI	CRCCGGYG	1 cut(s)	206
SinI	GGWCC	3 cut(s)	43, 673, 724
SmiMI	CAYNNNNRTG	1 cut(s)	193
Sse9I	AATT	5 cut(s)	133, 350, 457, 846, 1010
SsiI	CCGC	7 cut(s)	75, 127, 193, 238, 318, 452, 841
SspI	AATATT	1 cut(s)	823
SspMI	CTAG	1 cut(s)	468
SstI	GAGCTC	1 cut(s)	747
TaiI	ACGT	3 cut(s)	33, 326, 684
TaqI	TCGA	3 cut(s)	99, 388, 591
TaqII	GACCGA	1 cut(s)	33
TasI	AATT	5 cut(s)	133, 350, 457, 846, 1010
TfiI	GAWTC	3 cut(s)	502, 585, 697
Tru1I	TTAA	2 cut(s)	462, 1054
Tru9I	TTAA	2 cut(s)	462, 1054
TscAI	CASTG	1 cut(s)	707
TseI	GCWGC	6 cut(s)	217, 272, 293, 296, 449, 946
TspDTI	ATGAA	3 cut(s)	777, 902, 1023
TspGWI	ACGGA	2 cut(s)	59, 459
TspRI	CASTG	1 cut(s)	707
VpaK11BI	GGWCC	3 cut(s)	43, 673, 724
XagI	CCTNNNNNAGG	1 cut(s)	381
XapI	RAATTY	2 cut(s)	457, 846
XceI	RCATGY	1 cut(s)	272
XmnI	GAANNNNTTC	1 cut(s)	394
XspI	CTAG	1 cut(s)	468

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