Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

N/A

Physical Location & Seq

Genomic Coordinates Reverse (-)

30675836 .. 30682014

Gene Structure 6179 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00309040.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGGCCAGTAGATTCTGCAGTAGGGTTGGGGAAGGAGGAGAGGATTTCTACAAAATCAAACATGTGCCTTCTCTTATAATCACAAATATTCAACCGGATAAGCCAGAAATGGAGGAAGCTGCAAGTGCGTCCCAAGTAGTTACGGGTCCAGTCGGTGACTCTCATCAGGAATTAACTGTGGATGGTATAAGAAATTACGAGGCTTTATCGAGTTTGAAAAACAGTGATGCATATGCTGAAAGATCTGGACTACATAGTTTCAGCATTACATTGCCACGGCTTAAGAAGAAATATAGAGAGAACATGAAAAGGGATGACTTTACTATCAATAGAAGGAAGCGAGTTCACAACTCTGATGAGCAAGATTATGATCTTGTTTGGAACACATTCAAATTGCGCCACATGAAAAGACCTTCTCTCACCCAAGGTAGCTCACTTTATGTTTTTGGGCTCTCTTTTCTTCTTCCCCGCAACAGCAGCTCAGTCTTTCTCCCCCAGTCCCTCGCCACTTTACACGGACCAGTCACACAGATTTATGTGTTCTTCCCTGACGAACCAAAAATAGGGGTCAAGACGATCAAGAATTACATCAAACGCTTGGTTCAGGATGATACAGACAAAGCCATCGTGCTTATTCAACAAAATCTGACTCCCGTTTGCAAAGCGCTTCATAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0001101 GO:0002230 GO:0002238 GO:0002239 GO:0002252 GO:0002376 GO:0002682 GO:0002697 GO:0002831 GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0005911 GO:0006950 GO:0006952 GO:0006955 GO:0007154 GO:0007165 GO:0008150 GO:0008219 GO:0009314 GO:0009416 GO:0009506 GO:0009605 GO:0009607 GO:0009611 GO:0009615 GO:0009620 GO:0009626 GO:0009628 GO:0009637 GO:0009642 GO:0009646 GO:0009719 GO:0009725 GO:0009751 GO:0009987 GO:0010033 GO:0012501 GO:0014070 GO:0016020 GO:0023052 GO:0030054 GO:0031347 GO:0032101 GO:0032870 GO:0033554 GO:0034050 GO:0035690 GO:0036094 GO:0042221 GO:0042493 GO:0043207 GO:0043900 GO:0044464 GO:0045087 GO:0046677 GO:0048583 GO:0050688 GO:0050691 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051607 GO:0051704 GO:0051707 GO:0051716 GO:0055044 GO:0065007 GO:0070887 GO:0071229 GO:0071236 GO:0071310 GO:0071407 GO:0071446 GO:0071495 GO:0071944 GO:0080134 GO:0097159 GO:0098542 GO:1901265 GO:1901363 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NB-ARC

Protein Analysis

225

Amino Acids

25.6

Weight (kDa)

9.33

Isoelectric Point (pI)

45.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	119 - 199	2.4e-06	RNA polymerase Rpb5, N-terminal domain

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

No orthologs found for this gene in the current database.

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	77
AciI	CCGC	1 cut(s)	469
AcoI	YGGCCR	1 cut(s)	3
AfeI	AGCGCT	1 cut(s)	666
AfiI	CCNNNNNNNGG	1 cut(s)	563
AflII	CTTAAG	1 cut(s)	281
AflIII	ACRYGT	1 cut(s)	61
AgsI	TTSAA	4 cut(s)	92, 217, 391, 638
AluBI	AGCT	3 cut(s)	119, 432, 480
AluI	AGCT	3 cut(s)	119, 432, 480
Aor51HI	AGCGCT	1 cut(s)	666
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	2 cut(s)	119, 477
Asp700I	GAANNNNTTC	1 cut(s)	386
AspLEI	GCGC	2 cut(s)	399, 667
AspS9I	GGNCC	2 cut(s)	146, 518
AsuHPI	GGTGA	2 cut(s)	167, 412
AvaII	GGWCC	2 cut(s)	146, 518
BalI	TGGCCA	1 cut(s)	5
BanII	GRGCYC	1 cut(s)	453
BbvI	GCAGC	2 cut(s)	106, 489
BccI	CCATC	2 cut(s)	176, 632
BceAI	ACGGC	1 cut(s)	293
BfmI	CTRYAG	1 cut(s)	16
BfoI	RGCGCY	1 cut(s)	668
BfrI	CTTAAG	1 cut(s)	281
BglII	AGATCT	1 cut(s)	242
BisI	GCNGC	2 cut(s)	120, 478
BlsI	GCNGC	2 cut(s)	121, 479
Bme18I	GGWCC	2 cut(s)	146, 518
BmgT120I	GGNCC	2 cut(s)	146, 518
BmiI	GGNNCC	1 cut(s)	147
BmrI	ACTGGG	1 cut(s)	490
BmsI	GCATC	1 cut(s)	217
BmuI	ACTGGG	1 cut(s)	490
BsaBI	GATNNNNATC	1 cut(s)	369
BsaJI	CCNNGG	2 cut(s)	275, 424
BsaWI	WCCGGW	1 cut(s)	94
Bsc4I	CCNNNNNNNGG	1 cut(s)	563
Bse1I	ACTGG	4 cut(s)	6, 149, 496, 521
Bse3DI	GCAATG	1 cut(s)	269
Bse8I	GATNNNNATC	1 cut(s)	369
BseDI	CCNNGG	2 cut(s)	275, 424
BseGI	GGATG	3 cut(s)	187, 319, 613
BseJI	GATNNNNATC	1 cut(s)	369
BseLI	CCNNNNNNNGG	1 cut(s)	563
BseMI	GCAATG	1 cut(s)	269
BseMII	CTCAG	1 cut(s)	495
BseNI	ACTGG	4 cut(s)	6, 149, 496, 521
BseRI	GAGGAG	1 cut(s)	51
BseXI	GCAGC	2 cut(s)	106, 489
BshFI	GGCC	1 cut(s)	5
BsiSI	CCGG	1 cut(s)	95
BslFI	GGGAC	2 cut(s)	115, 484
BslI	CCNNNNNNNGG	1 cut(s)	563
BsmFI	GGGAC	2 cut(s)	115, 484
BsnI	GGCC	1 cut(s)	5
Bsp1286I	GDGCHC	1 cut(s)	453
Bsp143I	GATC	3 cut(s)	242, 370, 576
BspACI	CCGC	1 cut(s)	469
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	1 cut(s)	494
BspLI	GGNNCC	1 cut(s)	147
BspMAI	CTGCAG	1 cut(s)	20
BspTI	CTTAAG	1 cut(s)	281
BsrDI	GCAATG	1 cut(s)	269
BsrI	ACTGG	4 cut(s)	6, 149, 496, 521
BssECI	CCNNGG	2 cut(s)	275, 424
BssMI	GATC	3 cut(s)	242, 370, 576
BssT1I	CCWWGG	1 cut(s)	424
Bst4CI	ACNGT	2 cut(s)	178, 224
BstAFI	CTTAAG	1 cut(s)	281
BstDEI	CTNAG	1 cut(s)	481
BstDSI	CCRYGG	1 cut(s)	275
BstF5I	GGATG	3 cut(s)	187, 319, 613
BstH2I	RGCGCY	1 cut(s)	668
BstHHI	GCGC	2 cut(s)	399, 667
BstKTI	GATC	3 cut(s)	245, 373, 579
BstMBI	GATC	3 cut(s)	242, 370, 576
BstMWI	GCNNNNNNNGC	2 cut(s)	125, 477
BstNSI	RCATGY	1 cut(s)	65
BstSFI	CTRYAG	1 cut(s)	16
BstV1I	GCAGC	2 cut(s)	106, 489
BstX2I	RGATCY	1 cut(s)	242
BstYI	RGATCY	1 cut(s)	242
BsuRI	GGCC	1 cut(s)	5
BtgI	CCRYGG	1 cut(s)	275
BtsCI	GGATG	3 cut(s)	187, 319, 613
BtsIMutI	CAGTG	1 cut(s)	229
CfoI	GCGC	2 cut(s)	399, 667
Cfr13I	GGNCC	2 cut(s)	146, 518
CseI	GACGC	1 cut(s)	117
CviAII	CATG	3 cut(s)	62, 304, 403
CviJI	RGCY	9 cut(s)	5, 103, 119, 203, 280, 432, 451, 480, 623
CviKI_1	RGCY	9 cut(s)	5, 103, 119, 203, 280, 432, 451, 480, 623
DdeI	CTNAG	1 cut(s)	481
DpnI	GATC	3 cut(s)	244, 372, 578
DpnII	GATC	3 cut(s)	242, 370, 576
EaeI	YGGCCR	1 cut(s)	3
Eco130I	CCWWGG	1 cut(s)	424
Eco24I	GRGCYC	1 cut(s)	453
Eco47I	GGWCC	2 cut(s)	146, 518
Eco47III	AGCGCT	1 cut(s)	666
EcoT14I	CCWWGG	1 cut(s)	424
EcoT22I	ATGCAT	1 cut(s)	232
EcoT38I	GRGCYC	1 cut(s)	453
ErhI	CCWWGG	1 cut(s)	424
FaeI	CATG	3 cut(s)	65, 307, 406
FaqI	GGGAC	2 cut(s)	115, 484
FatI	CATG	3 cut(s)	61, 303, 402
FauI	CCCGC	1 cut(s)	476
FauNDI	CATATG	1 cut(s)	232
Fnu4HI	GCNGC	2 cut(s)	120, 478
FokI	GGATG	3 cut(s)	194, 326, 620
FriOI	GRGCYC	1 cut(s)	453
Fsp4HI	GCNGC	2 cut(s)	120, 478
GlaI	GCGC	2 cut(s)	398, 666
GluI	GCNGC	2 cut(s)	120, 478
HaeII	RGCGCY	1 cut(s)	668
HaeIII	GGCC	1 cut(s)	5
HapII	CCGG	1 cut(s)	95
HgaI	GACGC	1 cut(s)	117
HhaI	GCGC	2 cut(s)	399, 667
Hin1II	CATG	3 cut(s)	65, 307, 406
Hin6I	GCGC	2 cut(s)	397, 665
HinP1I	GCGC	2 cut(s)	397, 665
HinfI	GANTC	3 cut(s)	12, 158, 649
HpaII	CCGG	1 cut(s)	95
HphI	GGTGA	2 cut(s)	167, 412
Hpy166II	GTNNAC	1 cut(s)	346
Hpy188I	TCNGA	2 cut(s)	355, 648
Hpy188III	TCNNGA	5 cut(s)	167, 246, 571, 580, 605
Hpy8I	GTNNAC	1 cut(s)	346
HpyAV	CCTTC	4 cut(s)	26, 78, 327, 423
HpyCH4III	ACNGT	2 cut(s)	178, 224
HpyCH4V	TGCA	4 cut(s)	18, 122, 230, 660
HpyF10VI	GCNNNNNNNGC	2 cut(s)	125, 477
HpyF3I	CTNAG	1 cut(s)	481
Hsp92II	CATG	3 cut(s)	65, 307, 406
HspAI	GCGC	2 cut(s)	397, 665
Kzo9I	GATC	3 cut(s)	242, 370, 576
Lsp1109I	GCAGC	2 cut(s)	106, 489
LweI	GCATC	1 cut(s)	217
MaeIII	GTNAC	3 cut(s)	139, 155, 523
MalI	GATC	3 cut(s)	244, 372, 578
MboI	GATC	3 cut(s)	242, 370, 576
MboII	GAAGA	4 cut(s)	298, 452, 455, 535
MflI	RGATCY	1 cut(s)	242
MhlI	GDGCHC	1 cut(s)	453
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	4 cut(s)	170, 193, 392, 583
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	152, 643
MnlI	CCTC	5 cut(s)	29, 34, 106, 193, 512
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	232
MroXI	GAANNNNTTC	1 cut(s)	386
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	173, 282
Msp20I	TGGCCA	1 cut(s)	5
MspCI	CTTAAG	1 cut(s)	281
MspI	CCGG	1 cut(s)	95
MwoI	GCNNNNNNNGC	2 cut(s)	125, 477
NdeI	CATATG	1 cut(s)	232
NdeII	GATC	3 cut(s)	242, 370, 576
NlaIII	CATG	3 cut(s)	65, 307, 406
NlaIV	GGNNCC	1 cut(s)	147
NmuCI	GTSAC	2 cut(s)	155, 523
NsiI	ATGCAT	1 cut(s)	232
NspI	RCATGY	1 cut(s)	65
PciI	ACATGT	1 cut(s)	61
PdmI	GAANNNNTTC	1 cut(s)	386
PfeI	GAWTC	1 cut(s)	12
PkrI	GCNGC	2 cut(s)	121, 479
PleI	GAGTC	2 cut(s)	152, 643
PpsI	GAGTC	2 cut(s)	152, 643
PscI	ACATGT	1 cut(s)	61
PsiI	TTATAA	1 cut(s)	77
PspN4I	GGNNCC	1 cut(s)	147
PspPI	GGNCC	2 cut(s)	146, 518
PstI	CTGCAG	1 cut(s)	20
PsuI	RGATCY	1 cut(s)	242
SaqAI	TTAA	2 cut(s)	173, 282
SatI	GCNGC	2 cut(s)	120, 478
Sau3AI	GATC	3 cut(s)	242, 370, 576
Sau96I	GGNCC	2 cut(s)	146, 518
SchI	GAGTC	2 cut(s)	152, 643
SduI	GDGCHC	1 cut(s)	453
SetI	ASST	5 cut(s)	121, 415, 430, 434, 482
SfaNI	GCATC	1 cut(s)	217
SfcI	CTRYAG	1 cut(s)	16
SinI	GGWCC	2 cut(s)	146, 518
SmlI	CTYRAG	1 cut(s)	281
SmoI	CTYRAG	1 cut(s)	281
Sse9I	AATT	4 cut(s)	170, 193, 392, 583
SsiI	CCGC	1 cut(s)	469
SspI	AATATT	1 cut(s)	88
StyI	CCWWGG	1 cut(s)	424
TaaI	ACNGT	2 cut(s)	178, 224
TaqI	TCGA	1 cut(s)	209
TasI	AATT	4 cut(s)	170, 193, 392, 583
TfiI	GAWTC	1 cut(s)	12
Tru1I	TTAA	2 cut(s)	173, 282
Tru9I	TTAA	2 cut(s)	173, 282
TscAI	CASTG	1 cut(s)	229
TseFI	GTSAC	2 cut(s)	155, 523
TseI	GCWGC	2 cut(s)	119, 477
Tsp45I	GTSAC	2 cut(s)	155, 523
TspDTI	ATGAA	3 cut(s)	320, 419, 659
TspGWI	ACGGA	1 cut(s)	531
TspRI	CASTG	1 cut(s)	229
Vha464I	CTTAAG	1 cut(s)	281
VpaK11BI	GGWCC	2 cut(s)	146, 518
XceI	RCATGY	1 cut(s)	65
XmnI	GAANNNNTTC	1 cut(s)	386
Zsp2I	ATGCAT	1 cut(s)	232

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