Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0000802

Physical Location & Seq

Genomic Coordinates Forward (+)

47021789 .. 47023673

Gene Structure 1885 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00426200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1299 bp

ATGGATAGGGGCTACCTCTCATGGTCTTTTCAATTTTCCTCCTGGTGTGCGCCCAGTGCCAGAAATACACATTCAGGTGTTGATATAGCTGATCATGAAGCAAGGATGCAAGCTATAACAAAACCAACGAACAGTGCAATTGTTCAACATGCCAAGAATGGAAAACCAGCTCTTGTGTATGTTCCTACTAGGAAACATGTCCAACAAACAGCTCAGGATCTAATGGATTACTCAAATGCAAATGGGAACCCCTCCTCTCTGTTGCGGTCTCTAAAAGAGATAGAGCCTTTCATTGAGAAAATTAGCAATGAAAAGTTGCAAGACGCTTTGCGGCATGGACAATTGTCAGCCCATCTGGTGGTTGTGATGGGAACTCAATATTATGATGGCCGGGAAAATCTTCACACTGATTACCCAATTGCTGATCTCTTGCAGATGATTGGTCATGCCTGTCACCCTAAGAAGGATAATTCTGGGAAATGTGTCATCCTCTGCCATGCTCCTCAAGTTGTAGCCCAAGTAATCAGGAACCATGAAGGGGCTCTCAATTACCTTACGTGGACATTTTTCTACAGGAGGCTCACACAGAATCCCAACTATTATTATCTTCAGGGAGTTACACACGCACATAATTCTGAGTACATTTCAGAGCTTGTTGAAAATACACTGAATGACCTGGAAACAAGCAAATGTGTTGCTGTGGAGGATGGGGATGTTTCTGCCTTGAATCTTGCAAATGCTCTTCTTCAGGCCCATTTTGCAAGGCATCATGTGGCTGGGGACCTATCATTGGACCAGCTTGAGGTTCTCCTTTCTGCAAGTAGGTTGCTTCACGCAATATTTGATGTCATTGCCAGCAATGGATGGCTAAACCTTTCTCTCCTAGCAATGGAAGTCAGCCAGATGGTGACTCAGGGGACGTGGGATCATGACTTGATGATACTACAGCTTCCTCACTTCACGAGGGAGCTGGCAAAGAGATGCCAAAAGTTTCCTGGAAAGAATGTAGAGAGGGTATCTGATATGGTTGACATGGAGTATGATGAAAGGCGGGAACTACTTCAGGAAGTGCTGGGGAGTGAGAATGTAAGAGCTGGGGAGGAAGTCATTTTGCAAGTTGATATGACTGTGAAGAGGTTGGCCCTCTTCATGCCCCGAGAAGCTGGAAAGAAGACATACACACTGTATTTCATGTGTGATTCATATTTGGGGTGTGATGAGGAACATAACTTCACTGTCAATATTAAAGAACCAGCAACCCCTGATGAAGACGATGCAGACACTGAGATGAGAGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005911 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009506 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0022613 GO:0022618 GO:0030054 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0046540 GO:0055044 GO:0065003 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

432

Amino Acids

48.87

Weight (kDa)

5.52

Isoelectric Point (pI)

36.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_SNRNP200	PF23445	169 - 236	2.6e-24	Winged Helix-turn-helix domain
Sec63	PF02889	245 - 411	1.1e-20	Sec63 Brl domain

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

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Orthologous Genes (Group: OG0000802)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20960 AT1G20960 AT2G42270
fragaria_vesca	FvH4_5g21940 FvH4_5g30070 FvH4_6g00860 FvH4_6g00860 FvH4_6g47200
malus_domestica	MD04G1240400.v1.1 MD09G1062900.v1.1 MD09G1063000.v1.1 MD12G1257300.v1.1
prunus_persica	Prupe.6G358100_v2.0.a1 Prupe.6G358100_v2.0.a1
pyrus_communis	pycom04g21210 pycom04g21230 pycom111g05330 pycom12g23600 pycom12g23620
rosa_chinensis	RchiOBHm_Chr2g0166221 RchiOBHm_Chr3g0448041 RchiOBHm_Chr3g0448351 RchiOBHm_Chr5g0014801 RchiOBHm_Chr7g0209461
rosa_laevigata	RLG00000003133 RLG00000021598 RLG00000021599 RLG00000025925 RLG00000025950 RLG00000025953 RLG00000032142
rosa_multiflora	Rmu_co8520521.1_g000001 Rmu_sc0005582.1_g000009 Rmu_sc0005969.1_g000018 Rmu_sc0015167.1_g000007 Rmu_ssc0000323.1_g000031
rosa_roxburghii	Rroxscaffold_1G00061750 Rroxscaffold_2G00085080 Rroxscaffold_3G00249430 Rroxscaffold_6G00426200 Rroxscaffold_6G00426480 Rroxscaffold_6G00426530
rosa_rugosa	Rorug02G0521300 Rorug02G0607900 Rorug02G0611500 Rorug02G0611600 Rorug07G0113200
rosa_samantha	Rh2AG587300 Rh2BG599200 Rh2CG569600 Rh2DG608900 Rh3AG010500 Rh3AG010600 Rh3BG010200 Rh3BG010300 Rh3CG009900 Rh3CG010000 Rh3DG010600 Rh3DG010700 Rh5CG124900 Rh7AG247100 Rh7BG242100 Rh7CG262700 Rh7DG253400
rosa_wichuraiana	Rw0G020040 Rw2G048960 Rw3G000580 Rw3G000830 Rw7G020900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	358
AciI	CCGC	3 cut(s)	265, 331, 1051
AclWI	GGATC	2 cut(s)	225, 933
AcoI	YGGCCR	1 cut(s)	388
AcuI	CTGAAG	3 cut(s)	593, 731, 1046
AfaI	GTAC	1 cut(s)	641
AfiI	CCNNNNNNNGG	6 cut(s)	358, 463, 538, 790, 802, 889
AflIII	ACRYGT	1 cut(s)	196
AgsI	TTSAA	4 cut(s)	32, 146, 659, 727
AjiI	CACGTC	1 cut(s)	921
AjnI	CCWGG	3 cut(s)	41, 675, 994
Alw26I	GTCTC	1 cut(s)	273
AlwI	GGATC	2 cut(s)	225, 933
AlwNI	CAGNNNCTG	1 cut(s)	1283
Ama87I	CYCGRG	1 cut(s)	1155
AoxI	GGCC	3 cut(s)	388, 750, 1140
Asp700I	GAANNNNTTC	2 cut(s)	399, 1059
AspLEI	GCGC	1 cut(s)	52
AspS9I	GGNCC	4 cut(s)	751, 781, 793, 1141
AsuC2I	CCSGG	1 cut(s)	392
AsuHPI	GGTGA	2 cut(s)	446, 919
AvaI	CYCGRG	1 cut(s)	1155
AvaII	GGWCC	2 cut(s)	781, 793
BanII	GRGCYC	1 cut(s)	544
BauI	CACGAG	1 cut(s)	961
BbsI	GAAGAC	2 cut(s)	1178, 1275
BccI	CCATC	6 cut(s)	360, 361, 380, 701, 858, 898
BciT130I	CCWGG	3 cut(s)	43, 677, 996
BclI	TGATCA	1 cut(s)	91
BcnI	CCSGG	1 cut(s)	392
BcoDI	GTCTC	1 cut(s)	273
BfaI	CTAG	2 cut(s)	189, 884
BfmI	CTRYAG	2 cut(s)	571, 944
BisI	GCNGC	1 cut(s)	332
BlsI	GCNGC	1 cut(s)	333
Bme1390I	CCNGG	4 cut(s)	43, 392, 677, 996
Bme18I	GGWCC	2 cut(s)	781, 793
BmeT110I	CYCGRG	1 cut(s)	1155
BmgBI	CACGTC	1 cut(s)	921
BmgT120I	GGNCC	4 cut(s)	751, 781, 793, 1141
BmiI	GGNNCC	3 cut(s)	248, 530, 782
BmrFI	CCNGG	4 cut(s)	43, 392, 677, 996
BmrI	ACTGGG	1 cut(s)	48
BmsI	GCATC	4 cut(s)	96, 775, 971, 1264
BmuI	ACTGGG	1 cut(s)	48
BoxI	GACNNNNGTC	1 cut(s)	343
BpiI	GAAGAC	2 cut(s)	1178, 1275
Bpu10I	CCTNAGC	1 cut(s)	213
BpuEI	CTTGAG	2 cut(s)	489, 821
BpuMI	CCSGG	1 cut(s)	392
BsaAI	YACGTR	1 cut(s)	558
BsaI	GGTCTC	1 cut(s)	273
Bsc4I	CCNNNNNNNGG	6 cut(s)	358, 463, 538, 790, 802, 889
Bse1I	ACTGG	1 cut(s)	54
Bse3DI	GCAATG	4 cut(s)	313, 849, 865, 894
BseBI	CCWGG	3 cut(s)	43, 677, 996
BseGI	GGATG	5 cut(s)	111, 486, 712, 718, 869
BseLI	CCNNNNNNNGG	6 cut(s)	358, 463, 538, 790, 802, 889
BseMI	GCAATG	4 cut(s)	313, 849, 865, 894
BseMII	CTCAG	4 cut(s)	227, 627, 926, 1275
BseNI	ACTGG	1 cut(s)	54
BseRI	GAGGAG	2 cut(s)	244, 492
BseYI	CCCAGC	3 cut(s)	776, 1072, 1094
BshFI	GGCC	3 cut(s)	390, 752, 1142
BsiHKCI	CYCGRG	1 cut(s)	1155
BsiSI	CCGG	1 cut(s)	391
BslFI	GGGAC	2 cut(s)	794, 931
BslI	CCNNNNNNNGG	6 cut(s)	358, 463, 538, 790, 802, 889
BsmAI	GTCTC	1 cut(s)	273
BsmFI	GGGAC	2 cut(s)	794, 931
BsnI	GGCC	3 cut(s)	390, 752, 1142
Bso31I	GGTCTC	1 cut(s)	273
BsoBI	CYCGRG	1 cut(s)	1155
Bsp1286I	GDGCHC	1 cut(s)	544
Bsp143I	GATC	4 cut(s)	91, 217, 424, 925
BspACI	CCGC	3 cut(s)	265, 331, 1051
BspANI	GGCC	3 cut(s)	390, 752, 1142
BspCNI	CTCAG	4 cut(s)	226, 628, 925, 1276
BspHI	TCATGA	2 cut(s)	94, 928
BspLI	GGNNCC	3 cut(s)	248, 530, 782
BspPI	GGATC	2 cut(s)	225, 933
BspQI	GCTCTTC	1 cut(s)	747
BspTNI	GGTCTC	1 cut(s)	273
BsrDI	GCAATG	4 cut(s)	313, 849, 865, 894
BsrI	ACTGG	1 cut(s)	54
BssMI	GATC	4 cut(s)	91, 217, 424, 925
BssSI	CACGAG	1 cut(s)	961
Bst2BI	CACGAG	1 cut(s)	961
Bst2UI	CCWGG	3 cut(s)	43, 677, 996
Bst4CI	ACNGT	4 cut(s)	134, 1129, 1185, 1237
Bst6I	CTCTTC	3 cut(s)	747, 1127, 1151
BstBAI	YACGTR	1 cut(s)	558
BstC8I	GCNNGC	3 cut(s)	111, 856, 972
BstDEI	CTNAG	5 cut(s)	213, 459, 636, 912, 1284
BstF5I	GGATG	5 cut(s)	111, 486, 712, 718, 869
BstHHI	GCGC	1 cut(s)	52
BstKTI	GATC	4 cut(s)	94, 220, 427, 928
BstMAI	GTCTC	1 cut(s)	273
BstMBI	GATC	4 cut(s)	91, 217, 424, 925
BstMWI	GCNNNNNNNGC	2 cut(s)	56, 758
BstNI	CCWGG	3 cut(s)	43, 677, 996
BstNSI	RCATGY	2 cut(s)	152, 200
BstPAI	GACNNNNGTC	1 cut(s)	343
BstSCI	CCNGG	4 cut(s)	41, 390, 675, 994
BstSFI	CTRYAG	2 cut(s)	571, 944
BstV2I	GAAGAC	2 cut(s)	1178, 1275
BstX2I	RGATCY	1 cut(s)	217
BstYI	RGATCY	1 cut(s)	217
BsuRI	GGCC	3 cut(s)	390, 752, 1142
BtrI	CACGTC	1 cut(s)	921
BtsCI	GGATG	5 cut(s)	111, 486, 712, 718, 869
BtsIMutI	CAGTG	7 cut(s)	61, 139, 405, 665, 1181, 1233, 1281
Cac8I	GCNNGC	3 cut(s)	111, 856, 972
CaiI	CAGNNNCTG	1 cut(s)	1283
CciI	TCATGA	2 cut(s)	94, 928
CfoI	GCGC	1 cut(s)	52
Cfr13I	GGNCC	4 cut(s)	751, 781, 793, 1141
CseI	GACGC	1 cut(s)	332
Csp6I	GTAC	1 cut(s)	640
CviQI	GTAC	1 cut(s)	640
DdeI	CTNAG	5 cut(s)	213, 459, 636, 912, 1284
DpnI	GATC	4 cut(s)	93, 219, 426, 927
DpnII	GATC	4 cut(s)	91, 217, 424, 925
EaeI	YGGCCR	1 cut(s)	388
Eam1104I	CTCTTC	3 cut(s)	747, 1127, 1151
EarI	CTCTTC	3 cut(s)	747, 1127, 1151
Eco24I	GRGCYC	1 cut(s)	544
Eco31I	GGTCTC	1 cut(s)	273
Eco47I	GGWCC	2 cut(s)	781, 793
Eco57I	CTGAAG	3 cut(s)	593, 731, 1046
Eco88I	CYCGRG	1 cut(s)	1155
EcoO109I	RGGNCCY	1 cut(s)	781
EcoRII	CCWGG	3 cut(s)	41, 675, 994
EcoT38I	GRGCYC	1 cut(s)	544
FaqI	GGGAC	2 cut(s)	794, 931
FauI	CCCGC	1 cut(s)	1044
FbaI	TGATCA	1 cut(s)	91
Fnu4HI	GCNGC	1 cut(s)	332
FokI	GGATG	5 cut(s)	118, 473, 719, 725, 876
FriOI	GRGCYC	1 cut(s)	544
Fsp4HI	GCNGC	1 cut(s)	332
FspBI	CTAG	2 cut(s)	189, 884
GlaI	GCGC	1 cut(s)	51
GluI	GCNGC	1 cut(s)	332
GsaI	CCCAGC	3 cut(s)	780, 1076, 1098
HaeIII	GGCC	3 cut(s)	390, 752, 1142
HapII	CCGG	1 cut(s)	391
HgaI	GACGC	1 cut(s)	332
HhaI	GCGC	1 cut(s)	52
Hin6I	GCGC	1 cut(s)	50
HinP1I	GCGC	1 cut(s)	50
HincII	GTYRAC	1 cut(s)	1030
HindII	GTYRAC	1 cut(s)	1030
HinfI	GANTC	4 cut(s)	589, 727, 910, 1199
HpaII	CCGG	1 cut(s)	391
HphI	GGTGA	2 cut(s)	446, 919
Hpy166II	GTNNAC	2 cut(s)	561, 1030
Hpy188I	TCNGA	3 cut(s)	637, 649, 1021
Hpy188III	TCNNGA	6 cut(s)	95, 215, 526, 929, 961, 1064
Hpy8I	GTNNAC	2 cut(s)	561, 1030
HpyAV	CCTTC	2 cut(s)	457, 530
HpyCH4III	ACNGT	4 cut(s)	134, 1129, 1185, 1237
HpyCH4IV	ACGT	2 cut(s)	557, 920
HpyF10VI	GCNNNNNNNGC	2 cut(s)	56, 758
HpyF3I	CTNAG	5 cut(s)	213, 459, 636, 912, 1284
HpySE526I	ACGT	2 cut(s)	557, 920
HspAI	GCGC	1 cut(s)	50
Ksp22I	TGATCA	1 cut(s)	91
Kzo9I	GATC	4 cut(s)	91, 217, 424, 925
LguI	GCTCTTC	1 cut(s)	747
LmnI	GCTCC	2 cut(s)	505, 967
LweI	GCATC	4 cut(s)	96, 775, 971, 1264
MaeI	CTAG	2 cut(s)	189, 884
MaeII	ACGT	2 cut(s)	557, 920
MaeIII	GTNAC	3 cut(s)	452, 616, 907
MalI	GATC	4 cut(s)	93, 219, 426, 927
MboI	GATC	4 cut(s)	91, 217, 424, 925
MboII	GAAGA	8 cut(s)	392, 599, 734, 737, 1138, 1144, 1183, 1280
MfeI	CAATTG	3 cut(s)	138, 341, 417
MflI	RGATCY	1 cut(s)	217
MhlI	GDGCHC	1 cut(s)	544
MluCI	AATT	8 cut(s)	32, 138, 300, 341, 417, 469, 547, 631
MlyI	GAGTC	1 cut(s)	904
MmeI	TCCRAC	1 cut(s)	226
MroXI	GAANNNNTTC	2 cut(s)	399, 1059
MseI	TTAA	1 cut(s)	1245
MslI	CAYNNNNRTG	2 cut(s)	75, 1286
MspI	CCGG	1 cut(s)	391
MspR9I	CCNGG	4 cut(s)	43, 392, 677, 996
MunI	CAATTG	3 cut(s)	138, 341, 417
MvaI	CCWGG	3 cut(s)	43, 677, 996
MwoI	GCNNNNNNNGC	2 cut(s)	56, 758
NciI	CCSGG	1 cut(s)	392
NdeII	GATC	4 cut(s)	91, 217, 424, 925
NlaIV	GGNNCC	3 cut(s)	248, 530, 782
NmuCI	GTSAC	2 cut(s)	452, 907
NspI	RCATGY	2 cut(s)	152, 200
PagI	TCATGA	2 cut(s)	94, 928
PciI	ACATGT	1 cut(s)	196
PciSI	GCTCTTC	1 cut(s)	747
PdmI	GAANNNNTTC	2 cut(s)	399, 1059
PfeI	GAWTC	3 cut(s)	589, 727, 1199
PflMI	CCANNNNNTGG	1 cut(s)	358
PfoI	TCCNGGA	1 cut(s)	994
PkrI	GCNGC	1 cut(s)	333
PleI	GAGTC	1 cut(s)	904
PpsI	GAGTC	1 cut(s)	904
Ppu21I	YACGTR	1 cut(s)	558
PpuMI	RGGWCCY	1 cut(s)	781
PscI	ACATGT	1 cut(s)	196
PshAI	GACNNNNGTC	1 cut(s)	343
Psp5II	RGGWCCY	1 cut(s)	781
Psp6I	CCWGG	3 cut(s)	41, 675, 994
PspFI	CCCAGC	3 cut(s)	776, 1072, 1094
PspGI	CCWGG	3 cut(s)	41, 675, 994
PspN4I	GGNNCC	3 cut(s)	248, 530, 782
PspPI	GGNCC	4 cut(s)	751, 781, 793, 1141
PspPPI	RGGWCCY	1 cut(s)	781
PstNI	CAGNNNCTG	1 cut(s)	1283
PsuI	RGATCY	1 cut(s)	217
RsaI	GTAC	1 cut(s)	641
RsaNI	GTAC	1 cut(s)	640
RseI	CAYNNNNRTG	2 cut(s)	75, 1286
SapI	GCTCTTC	1 cut(s)	747
SaqAI	TTAA	1 cut(s)	1245
SatI	GCNGC	1 cut(s)	332
Sau3AI	GATC	4 cut(s)	91, 217, 424, 925
Sau96I	GGNCC	4 cut(s)	751, 781, 793, 1141
SchI	GAGTC	1 cut(s)	904
ScrFI	CCNGG	4 cut(s)	43, 392, 677, 996
SduI	GDGCHC	1 cut(s)	544
SfaNI	GCATC	4 cut(s)	96, 775, 971, 1264
SfcI	CTRYAG	2 cut(s)	571, 944
SinI	GGWCC	2 cut(s)	781, 793
SmiMI	CAYNNNNRTG	2 cut(s)	75, 1286
SmlI	CTYRAG	2 cut(s)	504, 800
SmoI	CTYRAG	2 cut(s)	504, 800
Sse9I	AATT	8 cut(s)	32, 138, 300, 341, 417, 469, 547, 631
SsiI	CCGC	3 cut(s)	265, 331, 1051
SspI	AATATT	3 cut(s)	380, 840, 1243
SspMI	CTAG	2 cut(s)	189, 884
StyD4I	CCNGG	4 cut(s)	41, 390, 675, 994
TaaI	ACNGT	4 cut(s)	134, 1129, 1185, 1237
TaiI	ACGT	2 cut(s)	560, 923
TasI	AATT	8 cut(s)	32, 138, 300, 341, 417, 469, 547, 631
TatI	WGTACW	1 cut(s)	639
TauI	GCSGC	1 cut(s)	334
TfiI	GAWTC	3 cut(s)	589, 727, 1199
Tru1I	TTAA	1 cut(s)	1245
Tru9I	TTAA	1 cut(s)	1245
TscAI	CASTG	7 cut(s)	61, 139, 412, 672, 1188, 1240, 1288
TseFI	GTSAC	2 cut(s)	452, 907
Tsp45I	GTSAC	2 cut(s)	452, 907
TspDTI	ATGAA	9 cut(s)	111, 280, 324, 549, 1059, 1138, 1180, 1191, 1281
TspRI	CASTG	7 cut(s)	61, 139, 412, 672, 1188, 1240, 1288
Van91I	CCANNNNNTGG	1 cut(s)	358
VpaK11BI	GGWCC	2 cut(s)	781, 793
XceI	RCATGY	2 cut(s)	152, 200
XcmI	CCANNNNNNNNNTGG	1 cut(s)	992
XmnI	GAANNNNTTC	2 cut(s)	399, 1059
XspI	CTAG	2 cut(s)	189, 884

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