Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0014986

Physical Location & Seq

Genomic Coordinates Forward (+)

32105790 .. 32110071

Gene Structure 4282 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00240430.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGACAACCTCCGAATTCCGCCAATCTCACACTCCAACCTACGATTTGCAGGCAACTCCCACCTCCTCTATTTCTCAATTTTCCGTTCAACTTCAACCCTCTGTTACTATTATCTCATACTTGAATGCCTTTTCAGGTCATCACTTCAATTTCAGGGAAAAGCATCATAAGGCTAGAATTGCAACCCCCAGCTTCACTTGCTTCTCTGCAAAACTTGCCCAGGAAGATAAACCGGAGGAGTCTGTAGTAGTAGTGAAAGAGAAAAGCGTGTCAGTGATTCTTTTGGCTGGAGGCAAGGGTAAAAGGATGGGTGCCAGTATGCCGAAACAGTATCTCCCGCTTTTAAGCCAGCCAATTGCGTTGTACAGCTTCTATACTTTCTCACGCATGCCTCAAGTGAAGGAAATCATTGTAGTTTGTGATCCCTCCTACAGGGATGTTTTTGAAGACTCCAAGCATAAGATCCACACGGAACTTAAATTCACGTTGCCTGGGAAGGAAAGACAAGATTCTGTTTACAGTGGACTCCAGGCTATTGATTTGACCTCGGAGCTTGTTTGCATCCATGATTCTGCAAGACCTCTGGTATCGTCAGGAGATGTTGAGAAGGTTCTTAAAGATGGTTGGTTAAATGGAGCAGCTGTACTTGGGGTTCCAGTAAAAGCGACCATCAAAGAGGCAAACCATGAGTCTTTTGTAGTCCGAACTCTGGACAGGAGAACACTTTGGGAAATGCAGACACCACAGGTCATCAAACCTGAGTTGCTCAAAAAGGGCTTTGAACTTGTTAACAGGGAAGGCCTTGAAGTTACTGATGACGTGTCTATTGTTGAGCACCTTCCACATCCTGTGTACATCACTGAAGGATCTTACACCAACATCAAGGTCACAACGCCAGATGATTTATTACTCGCAGAAAGAATATTGAGTATGGACACTAAAAAGTCTTCAGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006081 GO:0006082 GO:0006090 GO:0006629 GO:0006644 GO:0006720 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0008654 GO:0009058 GO:0009240 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016740 GO:0016772 GO:0016779 GO:0019288 GO:0019637 GO:0019682 GO:0019752 GO:0032787 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046490 GO:0050518 GO:0070567 GO:0071704 GO:0090407 GO:1901135 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00900 ko01100 ko01110 ko01130 map00900 map01100 map01110 map01130

Pfam Domains

Protein Families

IspD

Protein Analysis

318

Amino Acids

35.56

Weight (kDa)

6.84

Isoelectric Point (pI)

41.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IspD	PF01128	90 - 310	1.2e-55	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
NTP_transf_3	PF12804	92 - 205	2.1e-08	MobA-like NTP transferase 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: OG0014986)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02500 AT2G02500
fragaria_vesca	FvH4_5g27480
malus_domestica	MD08G1249400.v1.1 MD15G1444200.v1.1
prunus_persica	Prupe.1G586600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr7g0218881
rosa_laevigata	RLG00000002347
rosa_multiflora	Rmu_sc0003823.1_g000002
rosa_roxburghii	Rroxscaffold_3G00240430
rosa_rugosa	Rorug07G0179400
rosa_samantha	Rh7AG322700 Rh7BG313800 Rh7CG339500 Rh7DG319900
rosa_wichuraiana	Rw7G027320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	311
AciI	CCGC	2 cut(s)	19, 338
AclWI	GGATC	3 cut(s)	416, 457, 874
AcsI	RAATTY	2 cut(s)	14, 479
AcuI	CTGAAG	2 cut(s)	882, 933
AfaI	GTAC	3 cut(s)	365, 645, 854
AfiI	CCNNNNNNNGG	2 cut(s)	432, 709
AflIII	ACRYGT	1 cut(s)	819
AgsI	TTSAA	7 cut(s)	89, 95, 124, 148, 446, 782, 806
AjiI	CACGTC	1 cut(s)	820
AjnI	CCWGG	3 cut(s)	219, 490, 528
AluBI	AGCT	4 cut(s)	192, 369, 553, 641
AluI	AGCT	4 cut(s)	192, 369, 553, 641
Alw21I	GWGCWC	1 cut(s)	837
AlwI	GGATC	3 cut(s)	416, 457, 874
AoxI	GGCC	1 cut(s)	799
ApeKI	GCWGC	1 cut(s)	638
ApoI	RAATTY	2 cut(s)	14, 479
ArsI	GACNNNNNNTTYG	2 cut(s)	674, 706
BanI	GGYRCC	1 cut(s)	311
BbsI	GAAGAC	2 cut(s)	453, 939
Bbv12I	GWGCWC	1 cut(s)	837
BbvI	GCAGC	1 cut(s)	650
BccI	CCATC	3 cut(s)	301, 614, 677
BciT130I	CCWGG	3 cut(s)	221, 492, 530
BfaI	CTAG	1 cut(s)	174
BfmI	CTRYAG	2 cut(s)	243, 430
BisI	GCNGC	1 cut(s)	639
BlsI	GCNGC	1 cut(s)	640
Bme1390I	CCNGG	3 cut(s)	221, 492, 530
BmgBI	CACGTC	1 cut(s)	820
BmiI	GGNNCC	2 cut(s)	313, 654
BmrFI	CCNGG	3 cut(s)	221, 492, 530
BmsI	GCATC	2 cut(s)	172, 570
BpiI	GAAGAC	2 cut(s)	453, 939
BpmI	CTGGAG	2 cut(s)	309, 512
BpuEI	CTTGAG	1 cut(s)	378
BsaJI	CCNNGG	3 cut(s)	219, 491, 546
BsaWI	WCCGGW	1 cut(s)	232
BsaXI	ACNNNNNCTCC	4 cut(s)	318, 348, 627, 657
Bsc4I	CCNNNNNNNGG	2 cut(s)	432, 709
Bse1I	ACTGG	2 cut(s)	315, 656
BseBI	CCWGG	3 cut(s)	221, 492, 530
BseDI	CCNNGG	3 cut(s)	219, 491, 546
BseGI	GGATG	4 cut(s)	312, 442, 561, 844
BseLI	CCNNNNNNNGG	2 cut(s)	432, 709
BseMII	CTCAG	1 cut(s)	750
BseNI	ACTGG	2 cut(s)	315, 656
BseRI	GAGGAG	2 cut(s)	55, 251
BseXI	GCAGC	1 cut(s)	650
BseYI	CCCAGC	1 cut(s)	188
BshFI	GGCC	1 cut(s)	801
BshNI	GGYRCC	1 cut(s)	311
BsiHKAI	GWGCWC	1 cut(s)	837
BsiSI	CCGG	1 cut(s)	233
BslI	CCNNNNNNNGG	2 cut(s)	432, 709
BsmI	GAATGC	1 cut(s)	130
BsnI	GGCC	1 cut(s)	801
Bsp1286I	GDGCHC	1 cut(s)	837
Bsp1407I	TGTACA	2 cut(s)	363, 852
Bsp143I	GATC	3 cut(s)	421, 462, 866
BspACI	CCGC	2 cut(s)	19, 338
BspANI	GGCC	1 cut(s)	801
BspCNI	CTCAG	1 cut(s)	751
BspLI	GGNNCC	2 cut(s)	313, 654
BspPI	GGATC	3 cut(s)	416, 457, 874
BspT107I	GGYRCC	1 cut(s)	311
BsrGI	TGTACA	2 cut(s)	363, 852
BsrI	ACTGG	2 cut(s)	315, 656
BssECI	CCNNGG	3 cut(s)	219, 491, 546
BssMI	GATC	3 cut(s)	421, 462, 866
Bst2UI	CCWGG	3 cut(s)	221, 492, 530
Bst4CI	ACNGT	2 cut(s)	330, 521
BstAPI	GCANNNNNTGC	1 cut(s)	215
BstAUI	TGTACA	2 cut(s)	363, 852
BstC8I	GCNNGC	3 cut(s)	51, 350, 389
BstDEI	CTNAG	1 cut(s)	759
BstENI	CCTNNNNNAGG	1 cut(s)	430
BstF5I	GGATG	4 cut(s)	312, 442, 561, 844
BstKTI	GATC	3 cut(s)	424, 465, 869
BstMBI	GATC	3 cut(s)	421, 462, 866
BstMWI	GCNNNNNNNGC	3 cut(s)	179, 198, 215
BstNI	CCWGG	3 cut(s)	221, 492, 530
BstNSI	RCATGY	1 cut(s)	391
BstSCI	CCNGG	3 cut(s)	219, 490, 528
BstSFI	CTRYAG	2 cut(s)	243, 430
BstV1I	GCAGC	1 cut(s)	650
BstV2I	GAAGAC	2 cut(s)	453, 939
BstX2I	RGATCY	2 cut(s)	462, 866
BstYI	RGATCY	2 cut(s)	462, 866
BsuRI	GGCC	1 cut(s)	801
BtrI	CACGTC	1 cut(s)	820
BtsCI	GGATG	4 cut(s)	312, 442, 561, 844
BtsIMutI	CAGTG	3 cut(s)	279, 526, 858
Cac8I	GCNNGC	3 cut(s)	51, 350, 389
Csp6I	GTAC	3 cut(s)	364, 644, 853
CviAII	CATG	3 cut(s)	388, 566, 686
CviQI	GTAC	3 cut(s)	364, 644, 853
DdeI	CTNAG	1 cut(s)	759
DpnI	GATC	3 cut(s)	423, 464, 868
DpnII	GATC	3 cut(s)	421, 462, 866
EciI	GGCGGA	1 cut(s)	8
Eco147I	AGGCCT	1 cut(s)	801
Eco57I	CTGAAG	2 cut(s)	882, 933
EcoNI	CCTNNNNNAGG	1 cut(s)	430
EcoRI	GAATTC	1 cut(s)	14
EcoRII	CCWGG	3 cut(s)	219, 490, 528
FaeI	CATG	3 cut(s)	391, 569, 689
FaiI	YATR	9 cut(s)	118, 168, 320, 375, 389, 459, 567, 687, 932
FatI	CATG	3 cut(s)	387, 565, 685
FauI	CCCGC	1 cut(s)	345
Fnu4HI	GCNGC	1 cut(s)	639
FokI	GGATG	4 cut(s)	319, 449, 548, 831
Fsp4HI	GCNGC	1 cut(s)	639
FspBI	CTAG	1 cut(s)	174
GluI	GCNGC	1 cut(s)	639
GsaI	CCCAGC	1 cut(s)	192
GsuI	CTGGAG	2 cut(s)	309, 512
HaeIII	GGCC	1 cut(s)	801
HapII	CCGG	1 cut(s)	233
Hin1II	CATG	3 cut(s)	391, 569, 689
HincII	GTYRAC	1 cut(s)	790
HindII	GTYRAC	1 cut(s)	790
HinfI	GANTC	7 cut(s)	239, 277, 449, 509, 525, 569, 689
HpaI	GTTAAC	1 cut(s)	790
HpaII	CCGG	1 cut(s)	233
Hpy166II	GTNNAC	4 cut(s)	517, 524, 790, 853
Hpy188I	TCNGA	3 cut(s)	13, 550, 704
Hpy188III	TCNNGA	3 cut(s)	594, 710, 951
Hpy8I	GTNNAC	4 cut(s)	517, 524, 790, 853
HpyAV	CCTTC	6 cut(s)	394, 490, 601, 791, 848, 857
HpyCH4III	ACNGT	2 cut(s)	330, 521
HpyCH4IV	ACGT	2 cut(s)	485, 819
HpyCH4V	TGCA	6 cut(s)	49, 182, 209, 561, 575, 736
HpyF10VI	GCNNNNNNNGC	3 cut(s)	179, 198, 215
HpyF3I	CTNAG	1 cut(s)	759
HpySE526I	ACGT	2 cut(s)	485, 819
Hsp92II	CATG	3 cut(s)	391, 569, 689
KspAI	GTTAAC	1 cut(s)	790
Kzo9I	GATC	3 cut(s)	421, 462, 866
LmnI	GCTCC	2 cut(s)	550, 635
Lsp1109I	GCAGC	1 cut(s)	650
LweI	GCATC	2 cut(s)	172, 570
MaeI	CTAG	1 cut(s)	174
MaeII	ACGT	2 cut(s)	485, 819
MaeIII	GTNAC	3 cut(s)	103, 808, 886
MalI	GATC	3 cut(s)	423, 464, 868
MboI	GATC	3 cut(s)	421, 462, 866
MboII	GAAGA	3 cut(s)	236, 458, 939
MfeI	CAATTG	1 cut(s)	354
MflI	RGATCY	2 cut(s)	462, 866
MhlI	GDGCHC	1 cut(s)	837
MluCI	AATT	6 cut(s)	14, 77, 148, 177, 354, 479
MlyI	GAGTC	4 cut(s)	248, 443, 519, 698
MmeI	TCCRAC	1 cut(s)	59
MseI	TTAA	5 cut(s)	344, 477, 615, 629, 789
MspA1I	CMGCKG	1 cut(s)	641
MspI	CCGG	1 cut(s)	233
MspR9I	CCNGG	3 cut(s)	221, 492, 530
MunI	CAATTG	1 cut(s)	354
Mva1269I	GAATGC	1 cut(s)	130
MvaI	CCWGG	3 cut(s)	221, 492, 530
MwoI	GCNNNNNNNGC	3 cut(s)	179, 198, 215
NdeII	GATC	3 cut(s)	421, 462, 866
NlaIII	CATG	3 cut(s)	391, 569, 689
NlaIV	GGNNCC	2 cut(s)	313, 654
NmuCI	GTSAC	1 cut(s)	886
NspI	RCATGY	1 cut(s)	391
PaeI	GCATGC	1 cut(s)	391
PceI	AGGCCT	1 cut(s)	801
PctI	GAATGC	1 cut(s)	130
PfeI	GAWTC	3 cut(s)	277, 509, 569
PkrI	GCNGC	1 cut(s)	640
PleI	GAGTC	4 cut(s)	247, 443, 519, 697
PpsI	GAGTC	4 cut(s)	247, 443, 519, 697
Psp6I	CCWGG	3 cut(s)	219, 490, 528
PspFI	CCCAGC	1 cut(s)	188
PspGI	CCWGG	3 cut(s)	219, 490, 528
PspN4I	GGNNCC	2 cut(s)	313, 654
PsrI	GAACNNNNNNTAC	2 cut(s)	636, 668
PsuI	RGATCY	2 cut(s)	462, 866
PvuII	CAGCTG	1 cut(s)	641
RsaI	GTAC	3 cut(s)	365, 645, 854
RsaNI	GTAC	3 cut(s)	364, 644, 853
SaqAI	TTAA	5 cut(s)	344, 477, 615, 629, 789
SatI	GCNGC	1 cut(s)	639
Sau3AI	GATC	3 cut(s)	421, 462, 866
SchI	GAGTC	4 cut(s)	248, 443, 519, 698
ScrFI	CCNGG	3 cut(s)	221, 492, 530
SduI	GDGCHC	1 cut(s)	837
SfaNI	GCATC	2 cut(s)	172, 570
SfcI	CTRYAG	2 cut(s)	243, 430
SmlI	CTYRAG	1 cut(s)	393
SmoI	CTYRAG	1 cut(s)	393
SphI	GCATGC	1 cut(s)	391
Sse9I	AATT	6 cut(s)	14, 77, 148, 177, 354, 479
SseBI	AGGCCT	1 cut(s)	801
SsiI	CCGC	2 cut(s)	19, 338
SspI	AATATT	1 cut(s)	924
SspMI	CTAG	1 cut(s)	174
StuI	AGGCCT	1 cut(s)	801
StyD4I	CCNGG	3 cut(s)	219, 490, 528
TaaI	ACNGT	2 cut(s)	330, 521
TaiI	ACGT	2 cut(s)	488, 822
TasI	AATT	6 cut(s)	14, 77, 148, 177, 354, 479
TatI	WGTACW	3 cut(s)	363, 643, 852
TfiI	GAWTC	3 cut(s)	277, 509, 569
Tru1I	TTAA	5 cut(s)	344, 477, 615, 629, 789
Tru9I	TTAA	5 cut(s)	344, 477, 615, 629, 789
TscAI	CASTG	3 cut(s)	279, 526, 865
TseFI	GTSAC	1 cut(s)	886
TseI	GCWGC	1 cut(s)	638
Tsp45I	GTSAC	1 cut(s)	886
TspGWI	ACGGA	2 cut(s)	73, 485
TspRI	CASTG	3 cut(s)	279, 526, 865
XagI	CCTNNNNNAGG	1 cut(s)	430
XapI	RAATTY	2 cut(s)	14, 479
XceI	RCATGY	1 cut(s)	391
XspI	CTAG	1 cut(s)	174

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