Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0001292.1

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Reverse (-)

18630 .. 20537

Gene Structure 1908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0001292.1_g000003.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 732 bp

atgagtcgaggagctgcattagacagcttcaaagccttccccgccggcgacgaccgcgacgttgacgcagttgactccgcagccgtacggctcttctgttcgtcgtcggtttgggatctaagccttgccccaccgcagaacaataatctcccgcgagatttgggtccgatttcaggaaatttcgaagcggggatccccagtctcttcatgtccggccagctcgatcgtgggctagtggttggctccaagaagttgtgctcggctccgagaatctgttcggaaggagaagaaggagaaagagaagctgcagccgcccaaatcatttttttcacagccggtaaccggattccggcggccagtgaccctaattcgatgaccggtgaccggaatcttgcgaaagttggccgaaatcaggtgaaagttgactggattccggccatcgatgaccggaattcggctccggcgaagtggcttatgatgtcacagttcaagaacaaatatggagagaaaatgaaaagggaagaccttactatgaatagaaggaagcgaggtcacgactctgatcagatttatgtgtttttccctaacgaaccaaaagtttgggtgaagacaatcaagaattacatcaaacgcttggttcaggaggatacagacaaaggcatcgtggttattcaacaaaatccgactccttttgcaaaactcttcataagtgagatgagatcaaagtactag

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 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

243

Amino Acids

27.05

Weight (kDa)

9.08

Isoelectric Point (pI)

34.11

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)

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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: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	57, 154
AciI	CCGC	8 cut(s)	42, 55, 78, 134, 152, 188, 312, 353
AclWI	GGATC	3 cut(s)	123, 187, 200
AcoI	YGGCCR	4 cut(s)	214, 354, 403, 435
AcsI	RAATTY	2 cut(s)	178, 451
AfaI	GTAC	2 cut(s)	87, 728
AfiI	CCNNNNNNNGG	6 cut(s)	173, 342, 349, 384, 412, 454
AgeI	ACCGGT	1 cut(s)	377
AgsI	TTSAA	3 cut(s)	31, 490, 674
AluBI	AGCT	4 cut(s)	14, 27, 220, 305
AluI	AGCT	4 cut(s)	14, 27, 220, 305
Alw21I	GWGCWC	1 cut(s)	260
Alw26I	GTCTC	1 cut(s)	206
AlwI	GGATC	3 cut(s)	123, 187, 200
AoxI	GGCC	4 cut(s)	214, 354, 403, 435
ApeKI	GCWGC	4 cut(s)	14, 80, 305, 308
ApoI	RAATTY	2 cut(s)	178, 451
AsiGI	ACCGGT	1 cut(s)	377
Asp700I	GAANNNNTTC	1 cut(s)	274
AspS9I	GGNCC	1 cut(s)	164
AsuHPI	GGTGA	3 cut(s)	392, 427, 616
AsuII	TTCGAA	1 cut(s)	183
AvaII	GGWCC	1 cut(s)	164
BamHI	GGATCC	1 cut(s)	192
BbsI	GAAGAC	2 cut(s)	528, 614
Bbv12I	GWGCWC	1 cut(s)	260
BbvI	GCAGC	3 cut(s)	92, 292, 320
BccI	CCATC	1 cut(s)	446
BceAI	ACGGC	2 cut(s)	68, 104
BciVI	GTATCC	1 cut(s)	640
BclI	TGATCA	1 cut(s)	562
BcoDI	GTCTC	1 cut(s)	206
BfaI	CTAG	2 cut(s)	233, 730
BfmI	CTRYAG	1 cut(s)	306
BfuI	GTATCC	1 cut(s)	640
BisI	GCNGC	6 cut(s)	15, 81, 306, 309, 312, 354
BlsI	GCNGC	6 cut(s)	16, 82, 307, 310, 313, 355
BmcAI	AGTACT	1 cut(s)	728
Bme18I	GGWCC	1 cut(s)	164
BmgT120I	GGNCC	1 cut(s)	164
BmiI	GGNNCC	5 cut(s)	165, 194, 244, 264, 459
BmrI	ACTGGG	1 cut(s)	192
BmsI	GCATC	1 cut(s)	669
BmuI	ACTGGG	1 cut(s)	192
BpiI	GAAGAC	2 cut(s)	528, 614
Bpu14I	TTCGAA	1 cut(s)	183
Bsa29I	ATCGAT	1 cut(s)	441
BsaWI	WCCGGW	4 cut(s)	342, 377, 384, 447
Bsc4I	CCNNNNNNNGG	6 cut(s)	173, 342, 349, 384, 412, 454
Bse118I	RCCGGY	3 cut(s)	44, 335, 377
Bse1I	ACTGG	3 cut(s)	198, 357, 431
BseCI	ATCGAT	1 cut(s)	441
BseLI	CCNNNNNNNGG	6 cut(s)	173, 342, 349, 384, 412, 454
BseNI	ACTGG	3 cut(s)	198, 357, 431
BseRI	GAGGAG	1 cut(s)	24
BseXI	GCAGC	3 cut(s)	92, 292, 320
Bsh1236I	CGCG	2 cut(s)	57, 154
Bsh1285I	CGRYCG	2 cut(s)	55, 226
BshFI	GGCC	4 cut(s)	216, 356, 405, 437
BshTI	ACCGGT	1 cut(s)	377
BshVI	ATCGAT	1 cut(s)	441
BsiEI	CGRYCG	2 cut(s)	55, 226
BsiHKAI	GWGCWC	1 cut(s)	260
BsiWI	CGTACG	1 cut(s)	85
BslI	CCNNNNNNNGG	6 cut(s)	173, 342, 349, 384, 412, 454
BsmAI	GTCTC	1 cut(s)	206
BsnI	GGCC	4 cut(s)	216, 356, 405, 437
Bsp119I	TTCGAA	1 cut(s)	183
Bsp1286I	GDGCHC	1 cut(s)	260
Bsp143I	GATC	5 cut(s)	115, 192, 223, 562, 719
BspACI	CCGC	8 cut(s)	42, 55, 78, 134, 152, 188, 312, 353
BspANI	GGCC	4 cut(s)	216, 356, 405, 437
BspDI	ATCGAT	1 cut(s)	441
BspFNI	CGCG	2 cut(s)	57, 154
BspLI	GGNNCC	5 cut(s)	165, 194, 244, 264, 459
BspMAI	CTGCAG	1 cut(s)	310
BspPI	GGATC	3 cut(s)	123, 187, 200
BspQI	GCTCTTC	1 cut(s)	98
BspT104I	TTCGAA	1 cut(s)	183
BsrFI	RCCGGY	3 cut(s)	44, 335, 377
BsrI	ACTGG	3 cut(s)	198, 357, 431
BssAI	RCCGGY	3 cut(s)	44, 335, 377
BssMI	GATC	5 cut(s)	115, 192, 223, 562, 719
Bst4CI	ACNGT	1 cut(s)	486
Bst6I	CTCTTC	3 cut(s)	98, 209, 707
BstBI	TTCGAA	1 cut(s)	183
BstC8I	GCNNGC	2 cut(s)	46, 218
BstDEI	CTNAG	1 cut(s)	119
BstEII	GGTNACC	2 cut(s)	338, 380
BstFNI	CGCG	2 cut(s)	57, 154
BstKTI	GATC	5 cut(s)	118, 195, 226, 565, 722
BstMAI	GTCTC	1 cut(s)	206
BstMBI	GATC	5 cut(s)	115, 192, 223, 562, 719
BstMCI	CGRYCG	2 cut(s)	55, 226
BstMWI	GCNNNNNNNGC	3 cut(s)	41, 54, 311
BstPI	GGTNACC	2 cut(s)	338, 380
BstSFI	CTRYAG	1 cut(s)	306
BstUI	CGCG	2 cut(s)	57, 154
BstV1I	GCAGC	3 cut(s)	92, 292, 320
BstV2I	GAAGAC	2 cut(s)	528, 614
BstX2I	RGATCY	2 cut(s)	115, 192
BstXI	CCANNNNNNTGG	1 cut(s)	600
BstYI	RGATCY	2 cut(s)	115, 192
Bsu15I	ATCGAT	1 cut(s)	441
BsuI	GTATCC	1 cut(s)	640
BsuRI	GGCC	4 cut(s)	216, 356, 405, 437
BsuTUI	ATCGAT	1 cut(s)	441
BtsIMutI	CAGTG	1 cut(s)	364
Cac8I	GCNNGC	2 cut(s)	46, 218
Cfr10I	RCCGGY	3 cut(s)	44, 335, 377
Cfr13I	GGNCC	1 cut(s)	164
ClaI	ATCGAT	1 cut(s)	441
CseI	GACGC	1 cut(s)	74
Csp6I	GTAC	2 cut(s)	86, 727
CspAI	ACCGGT	1 cut(s)	377
CviAII	CATG	1 cut(s)	208
CviQI	GTAC	2 cut(s)	86, 727
DdeI	CTNAG	1 cut(s)	119
DpnI	GATC	5 cut(s)	117, 194, 225, 564, 721
DpnII	GATC	5 cut(s)	115, 192, 223, 562, 719
EaeI	YGGCCR	4 cut(s)	214, 354, 403, 435
Eam1104I	CTCTTC	3 cut(s)	98, 209, 707
EarI	CTCTTC	3 cut(s)	98, 209, 707
Eco47I	GGWCC	1 cut(s)	164
Eco91I	GGTNACC	2 cut(s)	338, 380
EcoO65I	GGTNACC	2 cut(s)	338, 380
EcoRI	GAATTC	1 cut(s)	451
FaeI	CATG	1 cut(s)	211
FaiI	YATR	6 cut(s)	209, 476, 501, 533, 573, 707
FatI	CATG	1 cut(s)	207
FauI	CCCGC	3 cut(s)	49, 159, 181
FbaI	TGATCA	1 cut(s)	562
Fnu4HI	GCNGC	6 cut(s)	15, 81, 306, 309, 312, 354
Fsp4HI	GCNGC	6 cut(s)	15, 81, 306, 309, 312, 354
FspBI	CTAG	2 cut(s)	233, 730
GluI	GCNGC	6 cut(s)	15, 81, 306, 309, 312, 354
HaeIII	GGCC	4 cut(s)	216, 356, 405, 437
HgaI	GACGC	1 cut(s)	74
Hin1II	CATG	1 cut(s)	211
HincII	GTYRAC	3 cut(s)	64, 73, 424
HindII	GTYRAC	3 cut(s)	64, 73, 424
HinfI	GANTC	8 cut(s)	4, 74, 270, 346, 388, 430, 557, 685
HphI	GGTGA	3 cut(s)	392, 427, 616
Hpy166II	GTNNAC	3 cut(s)	64, 73, 424
Hpy188I	TCNGA	6 cut(s)	168, 267, 280, 562, 567, 684
Hpy188III	TCNNGA	5 cut(s)	174, 490, 554, 616, 641
Hpy8I	GTNNAC	3 cut(s)	64, 73, 424
Hpy99I	CGWCG	4 cut(s)	53, 62, 106, 109
HpyAV	CCTTC	4 cut(s)	46, 275, 284, 534
HpyCH4III	ACNGT	1 cut(s)	486
HpyCH4IV	ACGT	1 cut(s)	60
HpyCH4V	TGCA	3 cut(s)	17, 308, 695
HpyF10VI	GCNNNNNNNGC	3 cut(s)	41, 54, 311
HpyF3I	CTNAG	1 cut(s)	119
HpySE526I	ACGT	1 cut(s)	60
Hsp92II	CATG	1 cut(s)	211
KroI	GCCGGC	1 cut(s)	44
KroNI	GCCGGC	1 cut(s)	46
Ksp22I	TGATCA	1 cut(s)	562
Kzo9I	GATC	5 cut(s)	115, 192, 223, 562, 719
LguI	GCTCTTC	1 cut(s)	98
LmnI	GCTCC	4 cut(s)	11, 248, 268, 463
Lsp1109I	GCAGC	3 cut(s)	92, 292, 320
LweI	GCATC	1 cut(s)	669
MaeI	CTAG	2 cut(s)	233, 730
MaeII	ACGT	1 cut(s)	60
MaeIII	GTNAC	5 cut(s)	338, 359, 380, 480, 551
MalI	GATC	5 cut(s)	117, 194, 225, 564, 721
MboI	GATC	5 cut(s)	115, 192, 223, 562, 719
MboII	GAAGA	6 cut(s)	85, 196, 299, 533, 619, 694
MflI	RGATCY	2 cut(s)	115, 192
MhlI	GDGCHC	1 cut(s)	260
MluCI	AATT	4 cut(s)	178, 367, 451, 619
MlyI	GAGTC	4 cut(s)	13, 68, 551, 679
MmeI	TCCRAC	1 cut(s)	707
MnlI	CCTC	2 cut(s)	542, 637
MreI	CGCCGGCG	1 cut(s)	44
MroNI	GCCGGC	1 cut(s)	44
MroXI	GAANNNNTTC	1 cut(s)	274
MvnI	CGCG	2 cut(s)	57, 154
MwoI	GCNNNNNNNGC	3 cut(s)	41, 54, 311
NaeI	GCCGGC	1 cut(s)	46
NdeII	GATC	5 cut(s)	115, 192, 223, 562, 719
NgoMIV	GCCGGC	1 cut(s)	44
NlaIII	CATG	1 cut(s)	211
NlaIV	GGNNCC	5 cut(s)	165, 194, 244, 264, 459
NmeAIII	GCCGAG	1 cut(s)	239
NmuCI	GTSAC	4 cut(s)	359, 380, 480, 551
NspV	TTCGAA	1 cut(s)	183
PciSI	GCTCTTC	1 cut(s)	98
PcsI	WCGNNNNNNNCGW	2 cut(s)	57, 461
PdiI	GCCGGC	1 cut(s)	46
PdmI	GAANNNNTTC	1 cut(s)	274
PfeI	GAWTC	4 cut(s)	270, 346, 388, 430
Pfl23II	CGTACG	1 cut(s)	85
PinAI	ACCGGT	1 cut(s)	377
PkrI	GCNGC	6 cut(s)	16, 82, 307, 310, 313, 355
Ple19I	CGATCG	1 cut(s)	226
PleI	GAGTC	4 cut(s)	12, 68, 551, 679
PpsI	GAGTC	4 cut(s)	12, 68, 551, 679
PspEI	GGTNACC	2 cut(s)	338, 380
PspLI	CGTACG	1 cut(s)	85
PspN4I	GGNNCC	5 cut(s)	165, 194, 244, 264, 459
PspPI	GGNCC	1 cut(s)	164
PstI	CTGCAG	1 cut(s)	310
PsuI	RGATCY	2 cut(s)	115, 192
PvuI	CGATCG	1 cut(s)	226
RsaI	GTAC	2 cut(s)	87, 728
RsaNI	GTAC	2 cut(s)	86, 727
SapI	GCTCTTC	1 cut(s)	98
SatI	GCNGC	6 cut(s)	15, 81, 306, 309, 312, 354
Sau3AI	GATC	5 cut(s)	115, 192, 223, 562, 719
Sau96I	GGNCC	1 cut(s)	164
ScaI	AGTACT	1 cut(s)	728
SchI	GAGTC	4 cut(s)	13, 68, 551, 679
SduI	GDGCHC	1 cut(s)	260
SetI	ASST	8 cut(s)	16, 29, 63, 222, 307, 417, 528, 553
SfaNI	GCATC	1 cut(s)	669
SfcI	CTRYAG	1 cut(s)	306
SfuI	TTCGAA	1 cut(s)	183
SgrAI	CRCCGGYG	1 cut(s)	44
SinI	GGWCC	1 cut(s)	164
Sse9I	AATT	4 cut(s)	178, 367, 451, 619
SsiI	CCGC	8 cut(s)	42, 55, 78, 134, 152, 188, 312, 353
SspMI	CTAG	2 cut(s)	233, 730
TaaI	ACNGT	1 cut(s)	486
TaiI	ACGT	1 cut(s)	63
TaqI	TCGA	5 cut(s)	7, 183, 222, 371, 441
TasI	AATT	4 cut(s)	178, 367, 451, 619
TatI	WGTACW	1 cut(s)	726
TauI	GCSGC	2 cut(s)	314, 356
TfiI	GAWTC	4 cut(s)	270, 346, 388, 430
TscAI	CASTG	1 cut(s)	364
TseFI	GTSAC	4 cut(s)	359, 380, 480, 551
TseI	GCWGC	4 cut(s)	14, 80, 305, 308
Tsp45I	GTSAC	4 cut(s)	359, 380, 480, 551
TspDTI	ATGAA	4 cut(s)	196, 527, 548, 694
TspRI	CASTG	1 cut(s)	364
VpaK11BI	GGWCC	1 cut(s)	164
XapI	RAATTY	2 cut(s)	178, 451
XcmI	CCANNNNNNNNNTGG	1 cut(s)	224
XmnI	GAANNNNTTC	1 cut(s)	274
XspI	CTAG	2 cut(s)	233, 730
ZrmI	AGTACT	1 cut(s)	728

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