Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0004335

Physical Location & Seq

Genomic Coordinates Forward (+)

6926271 .. 6931096

Gene Structure 4826 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG070100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 753 bp

ATGGAGGGGAAATCGTACCAGAGGTTCCCGCGGGTGAAAATCCGTGAAATGAGGCACGACTACCTCAAGTTCGAGCTCCGCGACACCGACGCGAGCGTGGCCAACGCGCTCCGGCGCGTGATGATCGCCGAGGTCCCCACCGTCGCCATCGACCTCGTCGAGATCGAAATCAACTCCTCCGTCCTCAACGACGAGTTCATCGCCCACCGACTCGGCCTCATCCCCTTGACCAGCGACCGCGCCATGAGCATGCGCTTCTCACGTGACTGCGACGCCTGCGACGGCGACGGCCAGTGCGAGTACTGCTCCGTCGAGTTTCACCTCCGCGCCCGCTGCCACTCCGACCAAACCCTAGATGTCACCAGCAAGGAACTCCTCAGCTCCGACCACACCGTCGTCCCCGTCGATTTCTCCGACGCCTCCGGTTACGAAGCTTCCGAACAGAGAGGGATTATCATTGTGAAGTTGCGAAGGGGGCAAGAGCTGAGGCTGAGGGCTATTGCTAGAAAGGGGATTGGGAAAGATCATGCGAAGTGGTCACCTGCGGCCACTGTCACTTTCATGTATGAACCCGACATTCGCATCAATGAGGAGATGATGGATACTTTGTCACTTGAGGAGAAGACAGCTTGGGTTGATAGCAGTCCTACCAAAGTCTTTGAGCTTGATCCTAATACCGGCAAGGTTGGTACTTTTTTGCATCTGTGTTTATTTTTAAAGGATATGATAGTTTCATTGTGTGTAGAGGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0003002 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005730 GO:0005737 GO:0007275 GO:0007389 GO:0008150 GO:0009791 GO:0009888 GO:0010374 GO:0010375 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0055029 GO:0061695 GO:0070013 GO:0090558 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_A_bac RNA_pol_L

Protein Analysis

250

Amino Acids

28.36

Weight (kDa)

5.34

Isoelectric Point (pI)

34.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	23 - 134	1.8e-10	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac	PF01000	55 - 178	4.7e-19	RNA polymerase Rpb3/RpoA insert domain

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

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0004335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15400 AT2G15400 AT2G15430 AT2G15430 AT2G15430
fragaria_vesca	FvH4_2g05450
malus_domestica	MD05G1087400.v1.1 MD10G1096200.v1.1
prunus_persica	Prupe.8G132000_v2.0.a1 Prupe.8G132000_v2.0.a1 Prupe.8G132400_v2.0.a1
pyrus_communis	pycom05g08690
rosa_chinensis	RchiOBHm_Chr5g0063881 RchiOBHm_Chr6g0255731
rosa_laevigata	RLG00000014818 RLG00000027736
rosa_multiflora	Rmu_sc0009240.1_g000038 Rmu_ssc0000136.1_g000018
rosa_roxburghii	Rroxscaffold_7G00209720
rosa_rugosa	Rorug05G0560800 Rorug06G0006400
rosa_samantha	Rh1DG021100 Rh2DG345600 Rh2DG346900 Rh5CG269200 Rh6AG078900 Rh6BG072000 Rh6CG070100 Rh6DG067300 Rh7AG302700 Rh7CG321200
rosa_wichuraiana	Rw6G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	550
AasI	GACNNNNNNGTC	1 cut(s)	392
Acc36I	ACCTGC	1 cut(s)	550
AccII	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
AciI	CCGC	7 cut(s)	29, 31, 79, 238, 325, 331, 545
AclWI	GGATC	1 cut(s)	662
AcoI	YGGCCR	3 cut(s)	99, 289, 546
AcvI	CACGTG	1 cut(s)	263
AcyI	GRCGYC	2 cut(s)	273, 417
AfaI	GTAC	3 cut(s)	17, 302, 691
AfiI	CCNNNNNNNGG	1 cut(s)	677
AluBI	AGCT	6 cut(s)	76, 381, 434, 484, 629, 664
AluI	AGCT	6 cut(s)	76, 381, 434, 484, 629, 664
Alw21I	GWGCWC	1 cut(s)	78
AlwI	GGATC	1 cut(s)	662
AoxI	GGCC	4 cut(s)	99, 214, 289, 546
ApeKI	GCWGC	1 cut(s)	333
AspLEI	GCGC	5 cut(s)	109, 117, 242, 255, 329
AspS9I	GGNCC	1 cut(s)	133
AsuHPI	GGTGA	4 cut(s)	46, 311, 352, 531
AvaII	GGWCC	1 cut(s)	133
BalI	TGGCCA	1 cut(s)	101
BanII	GRGCYC	1 cut(s)	78
BbrPI	CACGTG	1 cut(s)	263
BbsI	GAAGAC	1 cut(s)	629
Bbv12I	GWGCWC	1 cut(s)	78
BbvCI	CCTCAGC	3 cut(s)	377, 485, 491
BbvI	GCAGC	1 cut(s)	320
BccI	CCATC	2 cut(s)	155, 592
BceAI	ACGGC	2 cut(s)	298, 304
BciVI	GTATCC	1 cut(s)	595
BfaI	CTAG	2 cut(s)	353, 504
BfuAI	ACCTGC	1 cut(s)	550
BfuI	GTATCC	1 cut(s)	595
BisI	GCNGC	2 cut(s)	334, 546
BlsI	GCNGC	2 cut(s)	335, 547
BmcAI	AGTACT	1 cut(s)	302
Bme18I	GGWCC	1 cut(s)	133
BmgT120I	GGNCC	1 cut(s)	133
BmiI	GGNNCC	2 cut(s)	26, 135
BmsI	GCATC	2 cut(s)	591, 709
BpiI	GAAGAC	1 cut(s)	629
BplI	GAGNNNNNCTC	2 cut(s)	290, 322
Bpu10I	CCTNAGC	3 cut(s)	377, 485, 491
BpuEI	CTTGAG	2 cut(s)	50, 635
BsaAI	YACGTR	1 cut(s)	263
BsaBI	GATNNNNATC	1 cut(s)	167
BsaHI	GRCGYC	2 cut(s)	273, 417
BsaJI	CCNNGG	2 cut(s)	29, 129
BsaWI	WCCGGW	1 cut(s)	422
Bsc4I	CCNNNNNNNGG	1 cut(s)	677
Bse118I	RCCGGY	1 cut(s)	677
Bse1I	ACTGG	1 cut(s)	292
Bse8I	GATNNNNATC	1 cut(s)	167
BseDI	CCNNGG	2 cut(s)	29, 129
BseGI	GGATG	1 cut(s)	219
BseJI	GATNNNNATC	1 cut(s)	167
BseLI	CCNNNNNNNGG	1 cut(s)	677
BseMII	CTCAG	3 cut(s)	391, 476, 482
BseNI	ACTGG	1 cut(s)	292
BseRI	GAGGAG	4 cut(s)	166, 365, 605, 632
BseXI	GCAGC	1 cut(s)	320
Bsh1236I	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
Bsh1285I	CGRYCG	1 cut(s)	238
BshFI	GGCC	4 cut(s)	101, 216, 291, 548
BsiEI	CGRYCG	1 cut(s)	238
BsiHKAI	GWGCWC	1 cut(s)	78
BsiSI	CCGG	3 cut(s)	112, 423, 678
BslFI	GGGAC	2 cut(s)	119, 383
BslI	CCNNNNNNNGG	1 cut(s)	677
BsmFI	GGGAC	2 cut(s)	119, 383
BsnI	GGCC	4 cut(s)	101, 216, 291, 548
Bsp1286I	GDGCHC	1 cut(s)	78
Bsp143I	GATC	4 cut(s)	123, 162, 523, 667
BspACI	CCGC	7 cut(s)	29, 31, 79, 238, 325, 331, 545
BspANI	GGCC	4 cut(s)	101, 216, 291, 548
BspCNI	CTCAG	3 cut(s)	390, 477, 483
BspFNI	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
BspLI	GGNNCC	2 cut(s)	26, 135
BspMI	ACCTGC	1 cut(s)	550
BspPI	GGATC	1 cut(s)	662
BsrFI	RCCGGY	1 cut(s)	677
BsrI	ACTGG	1 cut(s)	292
BssAI	RCCGGY	1 cut(s)	677
BssECI	CCNNGG	2 cut(s)	29, 129
BssMI	GATC	4 cut(s)	123, 162, 523, 667
BssNI	GRCGYC	2 cut(s)	273, 417
Bst4CI	ACNGT	3 cut(s)	142, 394, 553
BstACI	GRCGYC	2 cut(s)	273, 417
BstBAI	YACGTR	1 cut(s)	263
BstC8I	GCNNGC	4 cut(s)	94, 251, 277, 331
BstDEI	CTNAG	3 cut(s)	377, 485, 491
BstDSI	CCRYGG	1 cut(s)	29
BstEII	GGTNACC	1 cut(s)	537
BstF5I	GGATG	1 cut(s)	219
BstFNI	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
BstHHI	GCGC	5 cut(s)	109, 117, 242, 255, 329
BstKTI	GATC	4 cut(s)	126, 165, 526, 670
BstMBI	GATC	4 cut(s)	123, 162, 523, 667
BstMCI	CGRYCG	1 cut(s)	238
BstMWI	GCNNNNNNNGC	6 cut(s)	98, 246, 276, 303, 333, 475
BstNSI	RCATGY	1 cut(s)	253
BstPI	GGTNACC	1 cut(s)	537
BstUI	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
BstV1I	GCAGC	1 cut(s)	320
BstV2I	GAAGAC	1 cut(s)	629
BsuI	GTATCC	1 cut(s)	595
BsuRI	GGCC	4 cut(s)	101, 216, 291, 548
BtgI	CCRYGG	1 cut(s)	29
BtgZI	GCGATG	1 cut(s)	184
BtsCI	GGATG	1 cut(s)	219
BtsIMutI	CAGTG	2 cut(s)	299, 549
BveI	ACCTGC	1 cut(s)	550
Cac8I	GCNNGC	4 cut(s)	94, 251, 277, 331
CfoI	GCGC	5 cut(s)	109, 117, 242, 255, 329
Cfr10I	RCCGGY	1 cut(s)	677
Cfr13I	GGNCC	1 cut(s)	133
Cfr42I	CCGCGG	1 cut(s)	32
CseI	GACGC	3 cut(s)	98, 281, 425
Csp6I	GTAC	3 cut(s)	16, 301, 690
CviAII	CATG	4 cut(s)	244, 250, 527, 562
CviQI	GTAC	3 cut(s)	16, 301, 690
DdeI	CTNAG	3 cut(s)	377, 485, 491
DpnI	GATC	4 cut(s)	125, 164, 525, 669
DpnII	GATC	4 cut(s)	123, 162, 523, 667
DraI	TTTAAA	1 cut(s)	717
DrdI	GACNNNNNNGTC	1 cut(s)	392
DseDI	GACNNNNNNGTC	1 cut(s)	392
EaeI	YGGCCR	3 cut(s)	99, 289, 546
Ecl136II	GAGCTC	1 cut(s)	76
Eco24I	GRGCYC	1 cut(s)	78
Eco47I	GGWCC	1 cut(s)	133
Eco53kI	GAGCTC	1 cut(s)	76
Eco72I	CACGTG	1 cut(s)	263
Eco91I	GGTNACC	1 cut(s)	537
EcoICRI	GAGCTC	1 cut(s)	76
EcoO109I	RGGNCCY	1 cut(s)	133
EcoO65I	GGTNACC	1 cut(s)	537
EcoT38I	GRGCYC	1 cut(s)	78
FaeI	CATG	4 cut(s)	247, 253, 530, 565
FaiI	YATR	6 cut(s)	245, 251, 528, 563, 567, 725
FaqI	GGGAC	2 cut(s)	119, 383
FatI	CATG	4 cut(s)	243, 249, 526, 561
FauI	CCCGC	3 cut(s)	24, 36, 338
Fnu4HI	GCNGC	2 cut(s)	334, 546
FokI	GGATG	1 cut(s)	206
FriOI	GRGCYC	1 cut(s)	78
Fsp4HI	GCNGC	2 cut(s)	334, 546
FspBI	CTAG	2 cut(s)	353, 504
GlaI	GCGC	5 cut(s)	108, 116, 241, 254, 328
GluI	GCNGC	2 cut(s)	334, 546
HaeIII	GGCC	4 cut(s)	101, 216, 291, 548
HapII	CCGG	3 cut(s)	112, 423, 678
HgaI	GACGC	3 cut(s)	98, 281, 425
HhaI	GCGC	5 cut(s)	109, 117, 242, 255, 329
Hin1I	GRCGYC	2 cut(s)	273, 417
Hin1II	CATG	4 cut(s)	247, 253, 530, 565
Hin6I	GCGC	5 cut(s)	107, 115, 240, 253, 327
HinP1I	GCGC	5 cut(s)	107, 115, 240, 253, 327
HindIII	AAGCTT	1 cut(s)	432
HinfI	GANTC	1 cut(s)	210
HpaII	CCGG	3 cut(s)	112, 423, 678
HphI	GGTGA	4 cut(s)	46, 311, 352, 531
Hpy188I	TCNGA	4 cut(s)	343, 385, 415, 439
Hpy188III	TCNNGA	1 cut(s)	160
HpyAV	CCTTC	1 cut(s)	465
HpyCH4III	ACNGT	3 cut(s)	142, 394, 553
HpyCH4IV	ACGT	1 cut(s)	262
HpyCH4V	TGCA	1 cut(s)	700
HpyF10VI	GCNNNNNNNGC	6 cut(s)	98, 246, 276, 303, 333, 475
HpyF3I	CTNAG	3 cut(s)	377, 485, 491
HpySE526I	ACGT	1 cut(s)	262
Hsp92I	GRCGYC	2 cut(s)	273, 417
Hsp92II	CATG	4 cut(s)	247, 253, 530, 565
HspAI	GCGC	5 cut(s)	107, 115, 240, 253, 327
KspI	CCGCGG	1 cut(s)	32
Kzo9I	GATC	4 cut(s)	123, 162, 523, 667
LmnI	GCTCC	4 cut(s)	81, 114, 311, 386
LpnPI	CCDG	9 cut(s)	32, 125, 244, 289, 305, 376, 436, 555, 691
Lsp1109I	GCAGC	1 cut(s)	320
LweI	GCATC	2 cut(s)	591, 709
MaeI	CTAG	2 cut(s)	353, 504
MaeII	ACGT	1 cut(s)	262
MaeIII	GTNAC	6 cut(s)	263, 358, 425, 537, 553, 609
MalI	GATC	4 cut(s)	125, 164, 525, 669
MboI	GATC	4 cut(s)	123, 162, 523, 667
MboII	GAAGA	1 cut(s)	634
MhlI	GDGCHC	1 cut(s)	78
MlsI	TGGCCA	1 cut(s)	101
MluNI	TGGCCA	1 cut(s)	101
MlyI	GAGTC	1 cut(s)	204
MmeI	TCCRAC	3 cut(s)	366, 408, 438
Mox20I	TGGCCA	1 cut(s)	101
MscI	TGGCCA	1 cut(s)	101
MseI	TTAA	2 cut(s)	716, 751
MslI	CAYNNNNRTG	2 cut(s)	248, 560
Msp20I	TGGCCA	1 cut(s)	101
MspA1I	CMGCKG	2 cut(s)	31, 333
MspI	CCGG	3 cut(s)	112, 423, 678
MvnI	CGCG	7 cut(s)	31, 81, 92, 107, 117, 240, 327
MwoI	GCNNNNNNNGC	6 cut(s)	98, 246, 276, 303, 333, 475
NdeII	GATC	4 cut(s)	123, 162, 523, 667
NlaIII	CATG	4 cut(s)	247, 253, 530, 565
NlaIV	GGNNCC	2 cut(s)	26, 135
NmeAIII	GCCGAG	2 cut(s)	154, 192
NmuCI	GTSAC	5 cut(s)	263, 358, 537, 553, 609
NspI	RCATGY	1 cut(s)	253
PaeI	GCATGC	1 cut(s)	253
PaqCI	CACCTGC	1 cut(s)	550
PcsI	WCGNNNNNNNCGW	7 cut(s)	78, 156, 162, 294, 402, 411, 435
PflFI	GACNNNGTC	1 cut(s)	155
PkrI	GCNGC	2 cut(s)	335, 547
PleI	GAGTC	1 cut(s)	204
PmaCI	CACGTG	1 cut(s)	263
PmlI	CACGTG	1 cut(s)	263
PpsI	GAGTC	1 cut(s)	204
Ppu21I	YACGTR	1 cut(s)	263
PpuMI	RGGWCCY	1 cut(s)	133
Psp124BI	GAGCTC	1 cut(s)	78
Psp5II	RGGWCCY	1 cut(s)	133
PspCI	CACGTG	1 cut(s)	263
PspEI	GGTNACC	1 cut(s)	537
PspN4I	GGNNCC	2 cut(s)	26, 135
PspPI	GGNCC	1 cut(s)	133
PspPPI	RGGWCCY	1 cut(s)	133
PsrI	GAACNNNNNNTAC	2 cut(s)	8, 40
PsyI	GACNNNGTC	1 cut(s)	155
RsaI	GTAC	3 cut(s)	17, 302, 691
RsaNI	GTAC	3 cut(s)	16, 301, 690
RseI	CAYNNNNRTG	2 cut(s)	248, 560
SacI	GAGCTC	1 cut(s)	78
SacII	CCGCGG	1 cut(s)	32
SaqAI	TTAA	2 cut(s)	716, 751
SatI	GCNGC	2 cut(s)	334, 546
Sau3AI	GATC	4 cut(s)	123, 162, 523, 667
Sau96I	GGNCC	1 cut(s)	133
ScaI	AGTACT	1 cut(s)	302
SchI	GAGTC	1 cut(s)	204
SduI	GDGCHC	1 cut(s)	78
SfaNI	GCATC	2 cut(s)	591, 709
Sfr303I	CCGCGG	1 cut(s)	32
SgrBI	CCGCGG	1 cut(s)	32
SinI	GGWCC	1 cut(s)	133
SmiMI	CAYNNNNRTG	2 cut(s)	248, 560
SmlI	CTYRAG	2 cut(s)	65, 614
SmoI	CTYRAG	2 cut(s)	65, 614
SphI	GCATGC	1 cut(s)	253
SsiI	CCGC	7 cut(s)	29, 31, 79, 238, 325, 331, 545
SspMI	CTAG	2 cut(s)	353, 504
SstI	GAGCTC	1 cut(s)	78
TaaI	ACNGT	3 cut(s)	142, 394, 553
TaiI	ACGT	1 cut(s)	265
TaqI	TCGA	6 cut(s)	72, 150, 159, 165, 312, 405
TatI	WGTACW	1 cut(s)	300
TauI	GCSGC	1 cut(s)	548
Tru1I	TTAA	2 cut(s)	716, 751
Tru9I	TTAA	2 cut(s)	716, 751
TscAI	CASTG	2 cut(s)	299, 556
TseFI	GTSAC	5 cut(s)	263, 358, 537, 553, 609
TseI	GCWGC	1 cut(s)	333
Tsp45I	GTSAC	5 cut(s)	263, 358, 537, 553, 609
TspDTI	ATGAA	4 cut(s)	187, 550, 582, 723
TspGWI	ACGGA	3 cut(s)	32, 169, 298
TspRI	CASTG	2 cut(s)	299, 556
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	1 cut(s)	133
XceI	RCATGY	1 cut(s)	253
XspI	CTAG	2 cut(s)	353, 504
ZrmI	AGTACT	1 cut(s)	302

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